Difference between revisions of "Team:HokkaidoU Japan/Notebook/ecoli"
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{{HokkaidoU_Japan/css/sidebar}} | {{HokkaidoU_Japan/css/sidebar}} | ||
{{HokkaidoU_Japan/common}} | {{HokkaidoU_Japan/common}} | ||
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{{HokkaidoU_Japan/sidebar/notebook}} | {{HokkaidoU_Japan/sidebar/notebook}} | ||
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<h1><i>E. coli</i></h1> | <h1><i>E. coli</i></h1> | ||
+ | |||
+ | <h2 id="january">January</h2> | ||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/01/21</h3> | ||
+ | |||
+ | <!-- Transformaion(プレ培養なし) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Sakurai</p> | ||
+ | <p>BBa_K1524100</p> | ||
+ | <ol> | ||
+ | <li>Added 5 µL of antiBBa_E1010 on BBa_K1524100 to 20 µL of thawed competent cells (DH5α) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Spread 300 µL of the culture onto plate with LBA.</li> | ||
+ | <li>Incubate 2ml regent with ampicillin at 37℃ for 20 hrs.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養なし) END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/01/22</h3> | ||
+ | |||
+ | <!-- Colony PCR 2STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Sakurai</p> | ||
+ | <p>BBa_K1524100</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>0.8 µL</td></tr> | ||
+ | <tr><td>XhoⅠ - RBS - NcoⅠ 10 µM</td><td>0.8 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>10 µL</td></tr> | ||
+ | <tr><td>DW</td><td>8.4 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>20 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>60 sec</td><td>Annealing / Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>68℃</td><td>60 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 2STEP END --> | ||
+ | |||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Sakurai</p> | ||
+ | <p>BBa_K1524100</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>30 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Liquid Culture --> | ||
+ | <h4>Liquid Culture</h4> | ||
+ | <p>Sakurai</p> | ||
+ | <p>BBa_K1524100</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>LB</td><td>2 µL</td></tr> | ||
+ | </table> | ||
+ | <p>Cultured for 16 hrs.</p> | ||
+ | <!-- Liquid Culture END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/01/26</h3> | ||
+ | |||
+ | <!-- Colony PCR 2STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Sakurai</p> | ||
+ | <p>BBa_K1524100</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>XhoⅠ - RBS - NcoⅠ 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>60 sec</td><td>Annealing / Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>68℃</td><td>60 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 2STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Sakurai</p> | ||
+ | <p>BBa_K1524100</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>30 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | |||
+ | |||
+ | <!-- Colony PCR 2STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Sakurai</p> | ||
+ | <p>BBa_K1524100</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>XhoⅠ - RBS - NcoⅠ 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>60 sec</td><td>Annealing / Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>68℃</td><td>60 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 2STEP END --> | ||
+ | |||
+ | |||
+ | <!-- Colony PCR 2STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Sakurai</p> | ||
+ | <p>BBa_K1524100</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>60 sec</td><td>Annealing / Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>68℃</td><td>60 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 2STEP END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
<h2 id="march">March</h2> | <h2 id="march">March</h2> | ||
Line 16: | Line 191: | ||
<!-- Competent Cells --> | <!-- Competent Cells --> | ||
<h4>Competent Cells</h4> | <h4>Competent Cells</h4> | ||
− | <p> | + | <p>Tanaka,Sakurai</p> |
<p>BL21 (DE3) pLysS</p> | <p>BL21 (DE3) pLysS</p> | ||
<ol> | <ol> | ||
<li>Thawed original competent cells (BL21 (DE3) pLysS) on ice.</li> | <li>Thawed original competent cells (BL21 (DE3) pLysS) on ice.</li> | ||
− | <li>Added 5 | + | <li>Added 5 µL of original competent cells to 2 mL of LB.</li> |
− | <li>Incubated the cells for 16 hrs at | + | <li>Incubated the cells for 16 hrs at 37℃.</li> |
− | <li>Added 5 | + | <li>Added 5 µL, 50 µL, and 500 µL of original cells to 100 mL of LB.</li> |
− | <li>Incubated the cells at 130 rpm for 14 hrs at | + | <li>Incubated the cells at 130 rpm for 14 hrs at 20℃, until OD<sub>600</sub> reach 0.5.</li> |
− | <li>Took 50 mL of incubated cells to two differnt culture tubes and centrifuged them at 3,000 rpm for 20 min at | + | <li>Took 50 mL of incubated cells to two differnt culture tubes and centrifuged them at 3,000 rpm for 20 min at 4℃.</li> |
<li>Removed supernatant and added 75 mL of TB to each tube.</li> | <li>Removed supernatant and added 75 mL of TB to each tube.</li> | ||
− | <li>Brought them to a one tube and centrifuged at 3,000 rpm for 20 min at | + | <li>Brought them to a one tube and centrifuged at 3,000 rpm for 20 min at 4℃.</li> |
<li>Removed supernatant and added 32 mL of TB.</li> | <li>Removed supernatant and added 32 mL of TB.</li> | ||
− | <li>Added 32 | + | <li>Added 32 µL of DMSO 10 times.</li> |
− | <li>Took 50 | + | <li>Took 50 µL and froze with liquid nitrogen.</li> |
</ol> | </ol> | ||
<!-- Competent Cells END --> | <!-- Competent Cells END --> | ||
+ | |||
+ | |||
+ | |||
Line 39: | Line 217: | ||
<!-- PCR 3STEP--> | <!-- PCR 3STEP--> | ||
<h4>PCR</h4> | <h4>PCR</h4> | ||
− | <p> | + | <p>Sakurai</p> |
<p>BBa_R0011</p> | <p>BBa_R0011</p> | ||
<table> | <table> | ||
<tr><th>Reagent</th><th>Volume</th></tr> | <tr><th>Reagent</th><th>Volume</th></tr> | ||
− | <tr><td>BBa_R0011</td><td>1 | + | <tr><td>BBa_R0011</td><td>1 µL</td></tr> |
− | <tr><td> | + | <tr><td>100UP - EX - F 10 µM</td><td>1.5 µL</td></tr> |
− | <tr><td> | + | <tr><td>200DN - PS - R 10 µM</td><td>1.5 µL</td></tr> |
− | <tr><td>KOD Plus | + | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> |
− | <tr><td>KOD Plus | + | <tr><td>10 x PCR Buffer for KOD - Plus - Neo </td><td>5 µL</td></tr> |
− | <tr><td>2 mM | + | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> |
− | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 | + | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> |
− | <tr><td>DW</td><td>32 | + | <tr><td>DW</td><td>32 µL</td></tr> |
− | <tr><td><b>Total</b></td><td><b>50 | + | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> |
</table> | </table> | ||
Line 57: | Line 235: | ||
<table> | <table> | ||
<tr><th>Reagent</th><th>Volume</th></tr> | <tr><th>Reagent</th><th>Volume</th></tr> | ||
− | <tr><td>BBa_0030 - BBa_E1010</td><td>1 | + | <tr><td>BBa_0030 - BBa_E1010</td><td>1 µL</td></tr> |
− | <tr><td> | + | <tr><td>100UP - EX - F 10 µM</td><td>1.5 µL</td></tr> |
− | <tr><td> | + | <tr><td>200DN - PS - R 10 µM</td><td>1.5 µL</td></tr> |
− | <tr><td>KOD Plus | + | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> |
− | <tr><td>KOD Plus | + | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> |
− | <tr><td>2 mM | + | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> |
− | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 | + | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> |
− | <tr><td>DW</td><td>32 | + | <tr><td>DW</td><td>32 µL</td></tr> |
− | <tr><td><b>Total</b></td><td><b>50 | + | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> |
</table> | </table> | ||
− | <p>3 Step Cycle (Tm value ≤ | + | <p>3 Step Cycle (Tm value ≤ 63℃)</p> |
<table> | <table> | ||
<tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
− | <tr><td>Start</td><td> | + | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> |
− | <tr><td>Cycle 1</td><td> | + | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycle</td></tr> |
− | <tr><td>Cycle 2</td><td>62. | + | <tr><td>Cycle 2</td><td>62.6℃</td><td>30 sec</td><td>Annealing</td><td>30 cycle</td></tr> |
− | <tr><td>Cycle 3</td><td> | + | <tr><td>Cycle 3</td><td>68℃</td><td>1 min</td><td>Elongation</td><td>30 cycle</td></tr> |
− | <tr><td>Store</td><td> | + | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> |
</table> | </table> | ||
<!-- PCR 3STEP END --> | <!-- PCR 3STEP END --> | ||
Line 80: | Line 258: | ||
<!-- PCR Purification --> | <!-- PCR Purification --> | ||
<h4>PCR Purification</h4> | <h4>PCR Purification</h4> | ||
− | <p> | + | <p>Sakurai</p> |
<p>BBa_R0011, BBa_0030 - BBa_E1010 | <p>BBa_R0011, BBa_0030 - BBa_E1010 | ||
<br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
Line 88: | Line 266: | ||
<!-- Digestion --> | <!-- Digestion --> | ||
<h4>Digestion</h4> | <h4>Digestion</h4> | ||
− | <p> | + | <p>Sakurai</p> |
<p>BBa_R0011</p> | <p>BBa_R0011</p> | ||
<table> | <table> | ||
<tr><th>Reagent</th><th>Volume</th></tr> | <tr><th>Reagent</th><th>Volume</th></tr> | ||
− | <tr><td>BBa_R0011</td><td>44 | + | <tr><td>BBa_R0011</td><td>44 µL</td></tr> |
− | <tr><td> | + | <tr><td>XbaⅠ</td><td>1 µL</td></tr> |
− | <tr><td> | + | <tr><td>CutSmart Buffer</td><td>5 µL</td></tr> |
− | <tr><td><b>Total</b></td><td><b>50 | + | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> |
</table> | </table> | ||
Line 101: | Line 279: | ||
<table> | <table> | ||
<tr><th>Reagent</th><th>Volume</th></tr> | <tr><th>Reagent</th><th>Volume</th></tr> | ||
− | <tr><td>BBa_0030 - BBa_E1010</td><td>44 | + | <tr><td>BBa_0030 - BBa_E1010</td><td>44 µL</td></tr> |
− | <tr><td> | + | <tr><td>XbaⅠ</td><td>1 µL</td></tr> |
− | <tr><td> | + | <tr><td>CutSmart Buffer</td><td>5 µL</td></tr> |
− | <tr><td><b>Total</b></td><td><b>50 | + | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> |
</table> | </table> | ||
<p>Digestion</p> | <p>Digestion</p> | ||
<table> | <table> | ||
<tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
− | <tr><td>1</td><td> | + | <tr><td>1</td><td>37℃</td><td>300 min</td><td>Digestion</tr> |
− | <tr><td>2</td><td> | + | <tr><td>2</td><td>60℃</td><td>15 min</td><td>Inactivation</td></tr> |
− | <tr><td>Store</td><td> | + | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> |
</table> | </table> | ||
<!-- Digestion END --> | <!-- Digestion END --> | ||
Line 117: | Line 295: | ||
<!-- Electrophoresis --> | <!-- Electrophoresis --> | ||
<h4>Electrophoresis</h4> | <h4>Electrophoresis</h4> | ||
− | <p> | + | <p>Sakurai</p> |
<p>BBa_R0011, BBa_0030 - BBa_E1010</p> | <p>BBa_R0011, BBa_0030 - BBa_E1010</p> | ||
<table> | <table> | ||
<tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
− | <tr><td>1 | + | <tr><td>1%</td><td>100 V</td><td>30 min</td><td>1/2 x TBE</td></tr> |
</table> | </table> | ||
<!-- Electrophoresis END --> | <!-- Electrophoresis END --> | ||
Line 127: | Line 305: | ||
<!-- Gel Extract --> | <!-- Gel Extract --> | ||
<h4>Gel Extract</h4> | <h4>Gel Extract</h4> | ||
− | <p> | + | <p>Sakurai</p> |
<p>BBa_R0011, BBa_0030 - BBa_E1010 | <p>BBa_R0011, BBa_0030 - BBa_E1010 | ||
<br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
Line 135: | Line 313: | ||
<!-- Electrophoresis --> | <!-- Electrophoresis --> | ||
<h4>Electrophoresis</h4> | <h4>Electrophoresis</h4> | ||
− | <p> | + | <p>Sakurai</p> |
<p>BBa_R0011, BBa_0030 - BBa_E1010</p> | <p>BBa_R0011, BBa_0030 - BBa_E1010</p> | ||
<table> | <table> | ||
<tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
− | <tr><td>1 | + | <tr><td>1%</td><td>100 V</td><td>30 min</td><td>1/2 x TBE</td></tr> |
</table> | </table> | ||
<!-- Electrophoresis END --> | <!-- Electrophoresis END --> | ||
<h2 id="may">May</h2> | <h2 id="may">May</h2> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
<h3>2015/05/13</h3> | <h3>2015/05/13</h3> | ||
Line 152: | Line 336: | ||
<p>pET15b</p> | <p>pET15b</p> | ||
<ol> | <ol> | ||
− | <li>Added 1 | + | <li>Added 1 µL of pET15b to 50 µL of thawed competent cells (DH5α) on ice.</li> |
<li>Incubated on ice for 30 min.</li> | <li>Incubated on ice for 30 min.</li> | ||
− | <li>Heat-shocked for 30 sec at | + | <li>Heat-shocked for 30 sec at 42℃.</li> |
− | <li>Spread 50 | + | <li>Spread 50 µL of the culture onto plate with LBA.</li> |
− | <li>Incubated the plate at | + | <li>Incubated the plate at 37℃ for 16 hrs.</li> |
</ol> | </ol> | ||
<!-- Transformaion(プレ培養なし) END --> | <!-- Transformaion(プレ培養なし) END --> | ||
Line 162: | Line 346: | ||
<!-- Transformaion(プレ培養なし) --> | <!-- Transformaion(プレ培養なし) --> | ||
<h4>Transformation</h4> | <h4>Transformation</h4> | ||
− | <p>Onoda</p> | + | <p>Onoda, Sakurai</p> |
<p>pET16b</p> | <p>pET16b</p> | ||
<ol> | <ol> | ||
− | <li>Added 1 | + | <li>Added 1 µL of pET16b to 50 µL of thawed competent cells (DH5α) on ice.</li> |
<li>Incubated on ice for 30 min.</li> | <li>Incubated on ice for 30 min.</li> | ||
− | <li>Heat-shocked for 30 sec at | + | <li>Heat-shocked for 30 sec at 42℃.</li> |
− | <li>Spread 50 | + | <li>Spread 50 µL of the culture onto plate with LBA.</li> |
− | <li>Incubated the plate at | + | <li>Incubated the plate at 37℃ for 16 hrs.</li> |
</ol> | </ol> | ||
<!-- Transformaion(プレ培養なし) END --> | <!-- Transformaion(プレ培養なし) END --> | ||
Line 176: | Line 360: | ||
<h4>Competent Cells</h4> | <h4>Competent Cells</h4> | ||
<p>Onoda</p> | <p>Onoda</p> | ||
− | <p> | + | <p>Rosetta</p> |
<ol> | <ol> | ||
− | <li>Thawed original competent cells ( | + | <li>Thawed original competent cells (Rosetta) on ice.</li> |
− | <li>Added 5 | + | <li>Added 5 µL of original competent cells to 2 mL of LB.</li> |
− | <li>Incubated the cells for 16 hrs at | + | <li>Incubated the cells for 16 hrs at 37℃.</li> |
− | <li>Added 5 | + | <li>Added 5 µL, 50 µL, and 500 µL of original cells to 100 mL of LB.</li> |
− | <li>Incubated the cells at 130 rpm for | + | <li>Incubated the cells at 130 rpm for 24 hrs at 20℃, until OD<sub>600</sub> reach 0.5.</li> |
− | <li>Took 50 mL of incubated cells to two differnt culture tubes and centrifuged them at 3,000 rpm for 20 min at | + | <li>Took 50 mL of incubated cells to two differnt culture tubes and centrifuged them at 3,000 rpm for 20 min at 4℃.</li> |
<li>Removed supernatant and added 75 mL of TB to each tube.</li> | <li>Removed supernatant and added 75 mL of TB to each tube.</li> | ||
− | <li>Brought them to a one tube and centrifuged at 3,000 rpm for 20 min at | + | <li>Brought them to a one tube and centrifuged at 3,000 rpm for 20 min at 4℃.</li> |
<li>Removed supernatant and added 32 mL of TB.</li> | <li>Removed supernatant and added 32 mL of TB.</li> | ||
− | <li>Added 32 | + | <li>Added 32 µL of DMSO 10 times.</li> |
− | <li>Took 50 | + | <li>Took 50 µL and froze with liquid nitrogen.</li> |
</ol> | </ol> | ||
<!-- Competent Cells END --> | <!-- Competent Cells END --> | ||
Line 197: | Line 381: | ||
<!-- Transformaion(プレ培養なし) --> | <!-- Transformaion(プレ培養なし) --> | ||
<h4>Transformation</h4> | <h4>Transformation</h4> | ||
+ | <p>Mimata, Onoda, Nishimura</p> | ||
+ | <p>BBa_E0040</p> | ||
+ | <ol> | ||
+ | <li>Added 1 µL of BBa_E0040 to thawed competent cells (Rosetta and DH5α) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 200 µL of LB.</li> | ||
+ | <li>Spread 300 µL of the culture onto plate with LBA.</li> | ||
+ | <li>Incubated the plate at 37℃ for 16 hrs.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養なし) END --> | ||
+ | |||
+ | <!-- Transformaion(プレ培養なし) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Mimata, Onoda, Ono, Nishimura</p> | ||
+ | <p>mBBa_R0040</p> | ||
+ | <ol> | ||
+ | <li>Added 1 µL of mBBa_R0040 to thawed competent cells (Rosetta and DH5α) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 200 µL of LB.</li> | ||
+ | <li>Spread 300 µL of the culture onto plate with LBA.</li> | ||
+ | <li>Incubated the plate at 37℃ for 16 hrs.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養なし) END --> | ||
+ | |||
+ | <h3>2015/05/29</h3> | ||
+ | |||
+ | <!-- Mini-prep --> | ||
+ | <h4>Mini-prep</h4> | ||
+ | <p>Mimata, Onoda, Ono, Nishimura</p> | ||
+ | <p>BBa_E0040, mBBa_R0040 | ||
+ | <br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>standard protocol</p> | ||
+ | <!-- Mini-prep END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Onoda, Ono</p> | ||
+ | <p>BBa_E0040</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_E0040</td><td>1 µL</td></tr> | ||
+ | <tr><td>100UP- EX - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - FX - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>2 x PCR Buffer for KOD - FX - Neo </td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>mBBa_R0040</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>mBBa_R0040</td><td>1 µL</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - FX - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>2 x PCR Buffer for KOD - FX - Neo </td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycles</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>60 sec</td><td>Annealing / Elongation</td><td>30 cycles</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/05/30</h3> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Mimata, Onoda, Ono, Nishimura</p> | ||
+ | <p>BBa_E0040, mBBa_R0040</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>100 V</td><td>30 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <h4>Gel Extract</h4> | ||
+ | <p>Onoda, Ono, Nishimura</p> | ||
+ | <p>BBa_E0040, mBBa_R0040 | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Onoda, Ono, Nishimura</p> | ||
+ | <p>BBa_E0040</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_E0040</td><td>20 µL</td></tr> | ||
+ | <tr><td>DW</td><td>5 µL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>EcoRⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>CutSmart Buffer</td><td>3 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>mBBa_R0040</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>mBBa_R0040</td><td>20 µL</td></tr> | ||
+ | <tr><td>DW</td><td>5 µL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>EcoRⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>CutSmart Buffer</td><td>3 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>60℃</td><td>15 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Onoda, Ono</p> | ||
+ | <p>pET15b</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>pET15b</td><td>10 µL</td></tr> | ||
+ | <tr><td>DW</td><td>6 µL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>EcoRⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>CutSmart Buffer</td><td>2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>20 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>pET16b</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>pET16b</td><td>10 µL</td></tr> | ||
+ | <tr><td>DW</td><td>6 µL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>EcoRⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>CutSmart Buffer</td><td>2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>20 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>pSB1A3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>pSB1A3</td><td>10 µL</td></tr> | ||
+ | <tr><td>DW</td><td>6 µL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>EcoRⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>CutSmart Buffer</td><td>2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>20 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>pSB4C5</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>pSB4C5</td><td>2 µL</td></tr> | ||
+ | <tr><td>DW</td><td>14 µL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>EcoRⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>CutSmart Buffer</td><td>2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>20 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>60℃</td><td>15 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/05/31</h3> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Mimata, Onoda, Ono, Nishimura</p> | ||
+ | <p>BBa_E0040, BBa_R0040, pET15b, pET16b, pSB1A3, pSB4C5</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>30 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <h4>Gel Extract</h4> | ||
+ | <p>Mimata, Onoda, Ono, Nishimura</p> | ||
+ | <p>BBa_E0040, BBa_R0040, pET15b, pET16b, pSB1A3 | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Mimata, Onoda, Ono, Nishimura</p> | ||
+ | <p>BBa_E0040, mBBa_R0040</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>30 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
<p>Mimata, Onoda</p> | <p>Mimata, Onoda</p> | ||
− | <p> | + | <p>BBa_E0040</p> |
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_E0040</td><td>1 µL</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>mBBa_R0040</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>mBBa_R0040</td><td>1 µL</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>60 sec</td><td>Annealing / Elongation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h2 id="june">June</h2> | ||
+ | |||
+ | <h3>2015/06/10</h3> | ||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Mimata, Onoda</p> | ||
+ | <p>BBa_E0040</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_E0040</td><td>16 µL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>EcoRⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>CutSmart Buffer</td><td>2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>20 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>mBBa_R0040</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>mBBa_R0040</td><td>16 µL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>EcoRⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>CutSmart Buffer</td><td>2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>20 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>60 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>60℃</td><td>15 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/06/16</h3> | ||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Mimata</p> | ||
+ | <p>thanatin fragment for TA cloning</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>TA - F - primer</td><td>1 µL</td></tr> | ||
+ | <tr><td>TA - R - primer</td><td>1 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>25 µL</td></tr> | ||
+ | <tr><td>DW</td><td>23 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>180 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>63℃</td><td>30 sec</td><td>Annealing</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>10 sec</td><td>Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>60 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/06/17</h3> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Mimata</p> | ||
+ | <p>thanatin fragment for TA cloning</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>100 V</td><td>30 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | |||
+ | |||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>Annealing Oligos and Elongation</h4> | ||
+ | <p>Ito</p> | ||
+ | <p>thanatin fragment for TA cloning</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>TA - F - primer 1 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>TA - R - primer 1 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>25 µL</td></tr> | ||
+ | <tr><td>DW</td><td>23 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Annealing Oligos and Elongation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>1 min</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle1</td><td>95℃ to 23℃</td><td>45 min</td><td>Annealing</td><td>1 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>72℃</td><td>1 min</td><td>Elongation</td><td>1 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/06/19</h3> | ||
+ | |||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Ito</p> | ||
+ | <p>thanatin fragment for TA cloning</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>100 V</td><td>30min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <h4>Gel Extract</h4> | ||
+ | <p>Ito</p> | ||
+ | <p>thanatin fragment for TA cloning | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Ito</p> | ||
+ | <p> pGEM - T vector / Thanatin fragment for TA cloning</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>pGEM - T vector</td><td>1.7µL</td></tr> | ||
+ | <tr><td>Thanatin fragment for TA cloning</td><td>0.15µL</td></tr> | ||
+ | <tr><td>Mighty Mix</td><td>1.85µL</td></tr> | ||
+ | <tr><td>T4 Ligase</td><td>0.18µL</td></tr> | ||
+ | <tr><td>DW</td><td>6.12µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>16℃</td><td>30 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>2</td><td>65℃</td><td>10 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | <h3>2015/06/21</h3> | ||
+ | |||
+ | <!-- Transformaion(プレ培養なし) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Ito</p> | ||
+ | <p>pGEM - T vector</p> | ||
<ol> | <ol> | ||
− | <li>Added 1 | + | <li>Added 1 µL of Thanatin fragment to 50 µL of thawed competent cells (Rosseta/DH5α) on ice.</li> |
<li>Incubated on ice for 30 min.</li> | <li>Incubated on ice for 30 min.</li> | ||
− | <li>Heat-shocked for 30 sec at | + | <li>Heat-shocked for 30 sec at 42℃.</li> |
− | + | <li>Spread 300 µL of the culture onto plate with LBA.</li> | |
− | <li>Spread 300 | + | <li>Incubated the plate at 37℃ for 19 hrs.</li> |
− | <li>Incubated the plate at | + | |
</ol> | </ol> | ||
<!-- Transformaion(プレ培養なし) END --> | <!-- Transformaion(プレ培養なし) END --> | ||
+ | |||
+ | <h2 id="july">July</h2> | ||
+ | |||
+ | <h3>2015/07/25</h3> | ||
+ | |||
+ | <!-- Transformaion(プレ培養あり) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Onoda</p> | ||
+ | <p>BBa_B0015 on pSB1C3</p> | ||
+ | <ol> | ||
+ | <li>Added 1 µL of BBa_B0015 on pSB1C3 to 50 µL of thawed competent cells (DH5α Turbo) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 500 µL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 300 µL of the culture onto plate with LBC.</li> | ||
+ | <li>Incubated the plate at 37℃ for 16 hrs.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
+ | |||
+ | <!-- Transformaion(プレ培養あり) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Onoda</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 on pSB1C3</p> | ||
+ | <ol> | ||
+ | <li>Added 1 µL of BBa_R0010 - BBa_B0034 on pSB1C3 to 50 µL of thawed competent cells (DH5α Turbo) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 500 µL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 300 µL of the culture onto plate with LBC.</li> | ||
+ | <li>Incubated the plate at 37℃ for 16 hrs.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
+ | |||
+ | <!-- Transformaion(プレ培養あり) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Onoda</p> | ||
+ | <p>BBa_I0500 - BBa_B0034 on pSB1C3</p> | ||
+ | <ol> | ||
+ | <li>Added 1 µL of BBa_I0500 - BBa_B0034 on pSB1C3 to 50 µL of thawed competent cells (DH5α Turbo) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 500 µL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 300 µL of the culture onto plate with LBC.</li> | ||
+ | <li>Incubated the plate at 37℃ for 16 hrs.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
<!-- Transformaion(プレ培養なし) --> | <!-- Transformaion(プレ培養なし) --> | ||
<h4>Transformation</h4> | <h4>Transformation</h4> | ||
− | <p>Mimata, Onoda, Ono</p> | + | <p>Onoda</p> |
− | <p> | + | <p>BBa_B0034 on pSB1A2</p> |
+ | <ol> | ||
+ | <li>Added 1 µL of BBa_B0034 on pSB1A2 to 50 µL of thawed competent cells (DH5α Turbo) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 500 µL of LB.</li> | ||
+ | <li>Spread 300 µL of the culture onto plate with LBA.</li> | ||
+ | <li>Incubated the plate at 37℃ for 16 hrs.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養なし) END --> | ||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Onoda</p> | ||
+ | <p>BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_B0015 on pSB1C3</td><td>1 µL</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>BBa_R0010 - BBa_B0034 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - BBa_B0034 on pSB1C3</td><td>1 µL</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>BBa_I0500 - BBa_B0034 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_I0500 - BBa_B0034 on pSB1C3</td><td>1 µL</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>BBa_B0034 on pSB1A2</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_B0034 on pSB1A2</td><td>1 µL</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>62.6℃</td><td>30 sec</td><td>Annealing</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>60 sec</td><td>Elongation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Onoda</p> | ||
+ | <p>BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 on pSB1C3, BBa_I0500 - BBa_B0034 on pSB1C3, BBa_B0034 on pSB1A2</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>100 V</td><td>30 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <h3>2015/07/26</h3> | ||
+ | |||
+ | <!-- Liquid Culture --> | ||
+ | <h4>Liquid Culture</h4> | ||
+ | <p>Ono</p> | ||
+ | <p>BBa_I0500 - BBa_B0034 on pSB1A2</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>LB</td><td>2000 µL</td></tr> | ||
+ | <tr><td>Ampicillin</td><td>2 µL</td></tr> | ||
+ | </table> | ||
+ | <p>Cultured for 15 hours.</p> | ||
+ | <!-- Liquid Culture END --> | ||
+ | |||
+ | <!-- Mini-prep --> | ||
+ | <h4>Mini-prep</h4> | ||
+ | <p>Ito</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 on pSB1C3, BBa_B0015 on pSB1C3, BBa_B0034 on pSB1A2 | ||
+ | <br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>standard protocol</p> | ||
+ | <!-- Mini-prep END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Ito</p> | ||
+ | <p>BBa_I0500 - BBa_B0034 on pSB1C3, BBa_R0010 - BBa_B0034 on pSB1C3, BBa_B0034 on pSB1A3, BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>100 V</td><td>30 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <h4>Gel Extract</h4> | ||
+ | <p>Ono</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 on pSB1C3, BBa_I0500 - BBa_B0034 on pSB1C3, BBa_B0034 on pSB1A2, BBa_B0015 on pSB1C3 | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | <h3>2015/07/27</h3> | ||
+ | |||
+ | <!-- Mini-prep --> | ||
+ | <h4>Mini-prep</h4> | ||
+ | <p>Ono</p> | ||
+ | <p>BBa_I0500 - BBa_B0034 on pSB1A2 | ||
+ | <br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>standard protocol</p> | ||
+ | <!-- Mini-prep END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h2 id="august">August</h2> | ||
+ | <h3>2015/08/04</h3> | ||
+ | |||
+ | <!-- Transformaion(プレ培養なし) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Ito</p> | ||
+ | <p>pGEM T vector</p> | ||
+ | <ol> | ||
+ | <li>Added 1 µL of pGEM T vector to 50 µL of thawed competent cells (DH5α) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Spread 300 µL of the culture onto plate with LBA.</li> | ||
+ | <li>Incubated the plate at 37℃ for 16 hrs.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養なし) END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/08/05</h3> | ||
+ | |||
+ | <!-- Colony PCR 2STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Ito</p> | ||
+ | <p>pGEM T vector</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>NdeⅠ - F - primer 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>BamHⅠ - R - primer | ||
+ | 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5.0 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>30 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>20 sec</td><td>Annealing / Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 2STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Ito</p> | ||
+ | <p>NdeⅠ - Thanatin - BamHⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>100V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <h4>Gel Extract</h4> | ||
+ | <p>Ito</p> | ||
+ | <p>NdeⅠ - Thanatin - BamHⅠ | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Ito</p> | ||
+ | <p>pET vector / NdeⅠ - Thanatin - BamHⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>pET vector</td><td>1 µL</td></tr> | ||
+ | <tr><td>NdeⅠ - Thanatin - BamHⅠ</td><td>3 µL</td></tr> | ||
+ | <tr><td>10 × T4 DNA Ligase Buffer</td><td>5 µL</td></tr> | ||
+ | <tr><td>T4 Ligase</td><td>1 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>4℃</td><td>30 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>2</td><td>65℃</td><td>10 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | <!-- Transformaion(プレ培養なし) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Ito</p> | ||
+ | <p>BBa_E1010 - BBa_B0034 - BBa_E0040 - BBa_B0015 on pSB1C3</p> | ||
+ | <ol> | ||
+ | <li>Added 1 µL of Thanatin on pET vector to 50 µL of thawed competent cells (Rosetta) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Spread 300 µL of the culture onto plate with LBA.</li> | ||
+ | <li>Incubated the plate at 37℃ for 16 hrs.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養なし) END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/08/10</h3> | ||
+ | <!-- Streaking (Single Colony Isolation) --> | ||
+ | <h4>Streaking (Single Colony Isolation)</h4> | ||
+ | <p>Ito, Mimata, Mitsumoto, Onoda, Sakai</p> | ||
+ | <p>BBa_I0500 - BBa_B0034 - BBa_K759012 (signal and β-domain) - BBa_B0015 on pSB1C3, BBa_E1010 - BBa_B0034 - BBa_R0040 - BBa_B0015 on pSB1C3, BBa_E1010 - BBa_B0034 - BBa_E0400 - BBa_B0015 on pSB1C3</p> | ||
+ | <ol> | ||
+ | <li>Picked the colony with an inoculating loop from the agar plate.</li> | ||
+ | <li>Draged the loop across on a new agar plate.</li> | ||
+ | <li>Re-sterilised the loop and drag it across again.</li> | ||
+ | </ol> | ||
+ | <!-- Streaking (Single Colony Isolation) END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/08/11</h3> | ||
+ | <!-- Mini-prep --> | ||
+ | <h4>Mini-prep</h4> | ||
+ | <p>Ito, Mimata, Mitsumoto, Onoda, Sakai</p> | ||
+ | <p>BBa_I0500 - BBa_B0034 - BBa_K759012 (Signal - β domain) - BBa_B0015 on pSB1C3 | ||
+ | <br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>Fast protocol</p> | ||
+ | <!-- Mini-prep END --> | ||
+ | |||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Ito, Mimata, Onoda, Sakai, Kusumi</p> | ||
+ | <p>BBa_I0500 - BBa_B0034 - BBa_K759012 (Signal - β domain) - BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>pSB1C3</td><td>20 µL</td></tr> | ||
+ | <tr><td>DW</td><td>23 µL</td></tr> | ||
+ | <tr><td>Bgl Ⅱ</td><td>2 µL</td></tr> | ||
+ | <tr><td>3.1 Buffer</td><td>5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>60 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>70℃</td><td>15 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Ito, Mimata, Onoda, Sakai, Nishimura, Kusumi</p> | ||
+ | <p>BBa_I0500 - BBa_B0034 - BBa_K759012 (signal and β-domain) - BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | |||
+ | <h3>2015/08/12</h3> | ||
+ | <!-- Gel Extract --> | ||
+ | <h4>Gel Extract</h4> | ||
+ | <p>Nishimura, Sakai</p> | ||
+ | <p>BBa_I0500 - BBa_B0034 - BBa_K759012 (Signal - β domain) - BBa_B0015 on pSB1C3 | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Ito, Sakai, Fujita</p> | ||
+ | <p>BBa_I0500 - BBa_B0034 - BBa_K759012 (Signal - β domain) - BBa_B0015 on pSB1C3 (Gel Extract Poduct)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <h3>2015/08/13</h3> | ||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <h4>Sequencing</h4> | ||
+ | <p>Ito, Onoda, Nishimura, Fujita</p> | ||
+ | <p>BBa_I0500 - BBa_B0034 - BBa_K759012 (signal and β-domain) - BBa_B0015 on pSB1C3 (Gel Extract Product)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td> | ||
+ | pSB1C3</td><td>1 µL</td></tr> | ||
+ | <tr><td>T7 promoter primer / SP6 promoter primer</td><td>1.5 µL</td></tr> | ||
+ | <tr><td>Ready Reaction Premix</td><td>1 µL</td></tr> | ||
+ | <tr><td>5 x Sequencing Buffer</td><td>1.5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Sequencing</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>96℃</td><td>10 sec</td><td>Denaturation</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>50℃</td><td>5 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Ito, Onoda, Nishimura, Fujita, Mimata</p> | ||
+ | <p>BBa_I0500 - BBa_B0034 - BBa_K759012 (signal and β-domain) - BBa_B0015 on pSB1C3 (Sequencing PCR product)</p> | ||
+ | <ol> | ||
+ | <li>Added 2 µL of NaOAc, 1.5 µL of glycogen and 50 µL of 100% ethanol.</li> | ||
+ | <li>Left it at -80℃ for 1 hr.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 15 min at 4℃.</li> | ||
+ | <li>Removed supernatant and added 100 µL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 10 min at 4℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 10 µL of DW.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Ito, Onoda, Tanaka, Nishimura, Mimata</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - XbaⅠ / SpeⅠ scar - Met - 10 × His tag - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>XbaⅠ - BBa_B0034 - XbaⅠ / SpeⅠ scar - Met - 10 × His tag - Thanatin - SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHⅠ - Thanatin forward Neo 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>BglⅡ - Asp - Thanatin reverese Neo 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>20 sec</td><td>Annealing / Elongation</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Mimata</p> | ||
+ | <p>NdeⅠ - Thanatin - BamHⅠ on pET vector | ||
+ | </p> | ||
+ | <table> | ||
+ | <tbody><tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>NdeⅠ - Thanatin - BamHⅠ on pET vector</td><td>10 µL</td></tr> | ||
+ | <tr><td>NdeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>CutSmart Buffer</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </tbody></table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tbody><tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>60 min</td><td>Digestion</td></tr> | ||
+ | <tr><td>2</td><td>70℃</td><td>15 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </tbody></table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/08/14</h3> | ||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Fujita, Nishimura, Onoda</p> | ||
+ | <p>Thanatin (Mini-prep product)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Thanatin fragment</td><td>1 µL</td></tr> | ||
+ | <tr><td>T7 - promoter primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>SP6 - promoter primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 66℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>94℃</td><td>10 sec</td><td>Denaturation</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>50℃</td><td>10 sec</td><td>Annealing</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Fujita, Nishimura, Onoda, Mimata</p> | ||
+ | <p>BamHⅠ - Thanatin - BglⅡ, Thanatin fragment(PCR product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>100 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Annealing of Oligonucleotides --> | ||
+ | <h4>Annealing of Oligonucleotides</h4> | ||
+ | <p>Onoda, Nishimura, Fujita</p> | ||
+ | <p>Thanatin fragment (derived from annealing TA primers)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>TA - F - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>TA - R - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>34 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Annealing of Oligonucleotides</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td></tr> | ||
+ | <tr><td>Cycle 1</td><td>94℃</td><td>10 sec</td><td>Denaturation</td><td>10 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>10 sec</td><td>Annealing</td><td>10 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td>10 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Annealing of Oligonucleotides END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Nishimura, Onoda</p> | ||
+ | <p>Thanatin fragment (derived from annealing TA primers)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Thanatin fragment (derived from annealing TA primers)</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHⅠ - Thanatin Neo 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>BglⅡ - Asp - thanatin Neo 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 66℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>60 sec</td><td>Annealing / Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- PCR Purification --> | ||
+ | <h4>PCR Purification</h4> | ||
+ | <p>Nishimura, Onoda</p> | ||
+ | <p>Thanatin fragment from last 2 step PCR | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>Purification of PCR products</p> | ||
+ | <!-- PCR Purification END --> | ||
+ | |||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimura, Onoda</p> | ||
+ | <p>Thanatin frament (TA-primer), Thanatin fragment (BamHⅠ/BglⅡ), Thanatin fragment(PCR Purification) </p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>100 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Transformaion(プレ培養なし) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Fujita, Mitsumoto</p> | ||
+ | <p>BBa_B0031 on pSB1A2, BBa_E0040 on pSB1A2</p> | ||
+ | <ol> | ||
+ | <li>Added 1 µL of BBa_B0031 on pSB1A2, BBa_E0040 on pSB1A2 to 20 µL of thawed competent cells (DH5α) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Spread 300 µL of the culture onto plate with LBA.</li> | ||
+ | <li>Incubated the plate at 37℃ for 12 hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養なし) END --> | ||
+ | |||
+ | <!-- Transformaion(プレ培養あり) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Fujita, Mitsumoto</p> | ||
+ | <p>BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0030</p> | ||
+ | <ol> | ||
+ | <li>Added 1 µL of BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0030 to 20 µL of thawed competent cells (DH5α) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 200 µL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 300 µL of the culture onto plate with LBC.</li> | ||
+ | <li>Incubated the plate at 37℃ for 12 hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Fujita, Mitsumoto</p> | ||
+ | <p>BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031, BBa_B0030, BBa_E0040</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Ba_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031, BBa_B0030, BBa_E0040</td><td>1 µL</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>60 sec</td><td>Annealing / Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/08/15</h3> | ||
+ | |||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Fujita, Nishimura</p> | ||
+ | <p>BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031, BBa_B0030, BBa_E0040</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>100 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Fujita, Nishimura, Ono</p> | ||
+ | <p>BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031, BBa_B0030, BBa_E0040</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031, BBa_B0030, BBa_E0040</td><td>1 µL</td></tr> | ||
+ | <tr><td>100UP - EX - F 1 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 1 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>60 sec</td><td>Annealing / Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Fujita, Nishimura</p> | ||
+ | <p>BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031, BBa_B0030, BBa_E0040</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Nishimura, Ono</p> | ||
+ | <p>Thanatin fragment (derived from annealing TA primers)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Thanatin fragment (derived from annealing TA primers)</td><td>1 µL</td></tr> | ||
+ | <tr><td>NdeI - F - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHI - R - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Annealing / Elongation</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Sakai, Ono</p> | ||
+ | <p>Thanatin fragment (PCR 2STEP product)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Thanatin fragment (PCR 2STEP product)</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHI - Thanatin - F - Neo 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>BglⅡ - Tanatin - R - Neo 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Annealing / Elongation</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- Annealing Oligos and Elongation --> | ||
+ | <h4>Annealing Oligos and Elongation</h4> | ||
+ | <p>Onoda</p> | ||
+ | <p>Thanatin fragment (derived from annealing TA primers)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>TA - F - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>TA - R - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>34 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Annealing Oligos and Elongation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>1 min</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle1</td><td>95℃ to 23℃</td><td>45 min</td><td>Annealing</td><td>1 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td>1 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Annealing Oligos and Elongation --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Ono, Onoda</p> | ||
+ | <p>Thanatin fragment (Annealing and Elongation product), Thanatin fragment(PCR 2STEP product) </p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>100 V</td><td>30 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <h4>Gel Extract</h4> | ||
+ | <p>Ono</p> | ||
+ | <p>BBa_B0031, BBa_B0030, BBa_E0040 | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | <!-- Mini-prep --> | ||
+ | <h4>Mini-prep</h4> | ||
+ | <p>Ono</p> | ||
+ | <p>BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031, BBa_B0030, BBa_E0040 | ||
+ | <br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>Standard protocol</p> | ||
+ | <!-- Mini-prep END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/08/16</h3> | ||
+ | |||
+ | |||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Nishimura, Ono</p> | ||
+ | <p>Thanatin fragment (derived from annealing TA primers)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Thanatin fragment (derived from annealing TA primers)</td><td>1 µL</td></tr> | ||
+ | <tr><td>NdeI - F - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHI - R - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>60 sec</td><td>Annealing / Elongation</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimura, Ono</p> | ||
+ | <p>Thanatin fragment (PCR product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>100 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Onoda, Ono, Nishimura</p> | ||
+ | <p>Thanatin fragment (derived from annealing TA primers) into DH5α, nothing (as a negative control)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>NdeI - F - primer 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>BamHI - R - primer 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>62.9℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Onoda, Ono, Nishimura</p> | ||
+ | <p>BBa_B0031 on pSB1A2 into DH5α (as positive control) </p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>57.2℃</td><td>30 sec</td><td>Annealing</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>30 sec</td><td>Elongation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Onoda, Ono</p> | ||
+ | <p>Thanatin fragment derived from annealing TA primer (colony PCR product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>100 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Ono, Mitsumoto, Fujita</p> | ||
+ | <p>BamHI - Thanatin - BglⅡ, NdeI - Thanatin - BamHI</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Onoda</p> | ||
+ | <p>Thanatin fragment (Mini-prep product)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Thanatin fragment (Mini-prep product)</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHI - Thanatin - F - Neo 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>BglⅡ - Asp - Thanatin - R - Neo 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>45 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>65.1℃</td><td>30 sec</td><td>Annealing</td><td>45 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td>45 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Onoda</p> | ||
+ | <p>Thanatin fragment (Mini-prep product)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Thanatin fragment (Mini-prep product)</td><td>1 µL</td></tr> | ||
+ | <tr><td>NdeI - F - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHI - R - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>45 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>66.5℃</td><td>30 sec</td><td>Annealing</td><td>45 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td>45 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Onoda</p> | ||
+ | <p>Thanatin fragment for TA cloning and last PCR prduct</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>100 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Fujita, Mimata</p> | ||
+ | <p>Ba_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Ba_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031</td><td>1 µL</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>60 sec</td><td>Annealing / Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Fujita, Mimata</p> | ||
+ | <p>Ba_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Mitsumoto, Fujita</p> | ||
+ | <p>BamHI - Thanatin - BglⅡ, NdeI - Thanatin - BamHI</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Ono, Onoda</p> | ||
+ | <p>Thanatin fragment on pGEM - T vector into DH5α</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>NdeI - F - primer 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>BamHI - R - primer 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>62.9℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Ono, Onoda</p> | ||
+ | <p>Thanatin fragment on pGEM - T vector into DH5α</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>T7 promoter primer 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>SP6 promoter primer 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>51℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Ono, Onoda</p> | ||
+ | <p>BBa_B0031 on pSB1A2 into DH5α (as positive control)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>57℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Onoda</p> | ||
+ | <p>Thanatin fragment (Colony PCR product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Annealing Oligos and Elongation --> | ||
+ | <h4>Annealing Oligos and Elongation</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>Thanatin fragment (derived from annealing TA primers)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>TA - F - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>TA - R - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>34 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Annealing Oligos and Elongation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>1 min</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle1</td><td>95℃ to 23℃</td><td>60 sec</td><td>Annealing</td><td>45 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td>45 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Annealing Oligos and Elongation END --> | ||
+ | |||
+ | <!-- Annealing Oligos and Elongation --> | ||
+ | <h4>Annealing Oligos and Elongation</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>Thanatin fragment (derived from annealing TA primers)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>TA - F - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>TA - R - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>34 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Annealing Oligos and Elongation</p> | ||
+ | <table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>94℃</td><td>10 sec</td><td>Denaturation</td><td>10 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>10 sec</td><td>Annealing</td><td>10 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td>10 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Annealing Oligos and Elongation END --> | ||
+ | |||
+ | <!-- Annealing Oligos and Elongation --> | ||
+ | <h4>Annealing Oligos and Elongation</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>Thanatin fragment (derived from annealing TA primers)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>TA - F - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>TA - R - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - FX - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × PCR Buffer for KOD - FX - Neo</td><td>25 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>14 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Annealing Oligos and Elongation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>1 min</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle1</td><td>95℃ to 23℃</td><td>60 sec</td><td>Annealing</td><td>45 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td>45 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Annealing Oligos and Elongation END --> | ||
+ | |||
+ | <!-- Annealing Oligos and Elongation --> | ||
+ | <h4>Annealing Oligos and Elongation</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>Thanatin fragment (derived from annealing TA primers)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>TA - F - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>TA - R - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - FX - NEO</td><td>1 µL</td></tr> | ||
+ | <tr><td>2 × PCR Buffer for KOD - FX - Neo</td><td>25 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>14 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Annealing Oligos and Elongation</p> | ||
+ | <table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>94℃</td><td>10 sec</td><td>Denaturation</td><td>10 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>10 sec</td><td>Annealing</td><td>10 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td>10 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Annealing Oligos and Elongation END --> | ||
+ | |||
+ | <!-- Annealing Oligos and Elongation --> | ||
+ | <h4>Annealing Oligos and Elongation</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>Thanatin fragment (derived from annealing TA primers)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>25 µL</td></tr> | ||
+ | <tr><td>DW</td><td>23 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Annealing Oligos and Elongation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>1 min</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃ to 23℃</td><td>60 sec</td><td>Annealing</td><td>45 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td>45 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Annealing Oligos and Elongation END--> | ||
+ | |||
+ | <!-- Annealing Oligos and Elongation --> | ||
+ | <h4>Annealing Oligos and Elongation</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>Thanatin fragment (derived from annealing TA primers)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>25 µL</td></tr> | ||
+ | <tr><td>DW</td><td>23 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Annealing Oligos and Elongation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>94℃</td><td>10 sec</td><td>Denaturation</td><td>10 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>10 sec</td><td>Annealing</td><td>10 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td>10 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Annealing Oligos and Elongation END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>Thanatin fragment (derived from annealing TA primers)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/08/17</h3> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <!-- Annealing Oligos and Elongation --> | ||
+ | <h4>Annealing Oligos and Elongation</h4> | ||
+ | <p>Nishimura, Onoda</p> | ||
+ | <p>Thanatin fragment (Mini-prep product)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>TA - F - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>TA - R - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>34 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Annealing Oligos and Elongation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>94℃</td><td>10 sec</td><td>Denaturation</td><td>10 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>10 sec</td><td>Annealing</td><td>10 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td>10 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Annealing Oligos and Elongation END--> | ||
+ | |||
+ | <!-- Annealing Oligos and Elongation --> | ||
+ | <h4>Annealing Oligos and Elongation</h4> | ||
+ | <p>Nishimura, Onoda</p> | ||
+ | <p>Thanatin fragment (Mini-prep product)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>TA - F - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>TA - R - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>25 µL</td></tr> | ||
+ | <tr><td>DW</td><td>23 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p> (Tm value ≤ -℃)</p> | ||
+ | <table>Annealing Oligos and Elongation</p> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>94℃</td><td>10 sec</td><td>Denaturation</td><td>10 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>10 sec</td><td>Annealing</td><td>10 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>30 sec</td><td>Elongation</td><td>10 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Annealing Oligos and Elongation END--> | ||
+ | |||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Nishimura, Ono, Onoda, Mimata</p> | ||
+ | <p>NdeⅠ - Thanatin - BamHⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>NdeⅠ - Thanatin - BamHⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>NdeⅠ - F - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHⅠ - R - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Annealing / Elongation</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Nishimura, Ono, Onoda, Mimata</p> | ||
+ | <p>BamHI - Thanatin - BglⅡ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BamHI - Thanatin - BglⅡ</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHI - Asp - Thanatin - R - Neo 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>BglⅡ - D - Tanatin - R - Neo 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Annealing / Elongation</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- PCR Purification --> | ||
+ | <h4>PCR Purification</h4> | ||
+ | <p>Ono, MImata, Nishimura</p> | ||
+ | <p>Thanatin fragment (PCR 2STEP product) | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>Purification of PCR products</p> | ||
+ | <!-- PCR Purification END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimura, Ono</p> | ||
+ | <p>Thanatin fragment (PCR 2STEP product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Ito, Ono, Onoda</p> | ||
+ | <p>Thanatin fragment (derived from annealing TA cloning)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Thanatin fragment (derived from annealing TA cloning)</td><td>1 µL</td></tr> | ||
+ | <tr><td>NdeⅠ - F - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHⅠ - R - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>45 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>65.1℃</td><td>30 sec</td><td>Annealing</td><td>45 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td>45 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Ito, Ono, Onoda</p> | ||
+ | <p>BamHⅠ - Thanatin - BglⅡ </p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Thanatin fragment (derived from annealing TA cloning)</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHⅠ - Asp - Thanatin - R - Neo 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>BglⅡ - D - Tanatin - R - Neo 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>45 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>66.5℃</td><td>30 sec</td><td>Annealing</td><td>45 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td>45 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Ono, Onoda</p> | ||
+ | <p>NdeⅠ - Thanatin - BamHⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>NdeⅠ - Thanatin - BamHⅠ</td><td>20 µL</td></tr> | ||
+ | <tr><td>NdeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × K Buffer</td><td>2 µL</td></tr> | ||
+ | <tr><td>DW</td><td>5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>60 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>70℃</td><td>15 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Ono, Onoda</p> | ||
+ | <p>BamHⅠ - Thanatin - BglⅡ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BamHⅠ - Thanatin - BglⅡ</td><td>20 µL</td></tr> | ||
+ | <tr><td>BamHⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>BglⅡ</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × K Buffer</td><td>2 µL</td></tr> | ||
+ | <tr><td>DW</td><td>5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>60 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>70℃</td><td>15 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | |||
+ | <h3>2015/08/18</h3> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimura, Ono</p> | ||
+ | <p>Thanatin fragment (PCR 2STEP product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- PCR Purification --> | ||
+ | <h4>PCR Purification</h4> | ||
+ | <p>Ono, Mimata, Nishimura</p> | ||
+ | <p>Thanatin fragment (PCR 2STEP product) | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>Purification of PCR products</p> | ||
+ | <!-- PCR Purification END --> | ||
+ | |||
+ | <!-- Annealing Oligos and Elongation --> | ||
+ | <h4>Annealing Oligos and Elongation</h4> | ||
+ | <p>Mimata</p> | ||
+ | <p>Thanatin fragment (derived from annealing TA cloning)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>TA - F - primer 10 µM</td><td>5 µL</td></tr> | ||
+ | <tr><td>TA - R - primer 10 µM</td><td>5 µL</td></tr> | ||
+ | <tr><td>TE 0.8 M NaCl</td><td>10 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Annealing Oligos and Elongation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>2 min</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Step1</td><td>95℃ to 25℃</td><td>20 min</td><td>Annealing</td>1<td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | |||
+ | <!-- Annealing Oligos and Elongation END--> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Mimata</p> | ||
+ | <p>Thanatin fragment (derived from annealing)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Thanatin fragment (derived from annealing)</td><td>1 µL</td></tr> | ||
+ | <tr><td>NdeⅠ - F - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHⅠ - R - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Annealing / Elongation</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Mimata</p> | ||
+ | <p>Thanatin fragment (derived from annealing)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Thanatin fragment (derived from annealing)</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHⅠ - Asp - Thanatin - R - Neo 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>BglⅡ - D - Tanatin - R - Neo 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Annealing / Elongation</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- PCR Purification --> | ||
+ | <h4>PCR Purification</h4> | ||
+ | <p>Ono, Mimata, Nishimura</p> | ||
+ | <p>Thanatin fragment (PCR 2STEP product) | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>Purification of PCR products</p> | ||
+ | <!-- PCR Purification END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Ono, Onoda, Nishimura</p> | ||
+ | <p>NdeⅠ - Thanatin - BamHⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>NdeⅠ - Thanatin - BamHⅠ</td><td>20 µL</td></tr> | ||
+ | <tr><td>NdeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × K Buffer</td><td>2 µL</td></tr> | ||
+ | <tr><td>DW</td><td>5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>60 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>70℃</td><td>15 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Ono, Onoda, Nishimura</p> | ||
+ | <p>BamHⅠ - Thanatin - BglⅡ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BamHⅠ - Thanatin - BglⅡ</td><td>20 µL</td></tr> | ||
+ | <tr><td>BamHⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>BglⅡ</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × K Buffer</td><td>2 µL</td></tr> | ||
+ | <tr><td>DW</td><td>5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>60 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>70℃</td><td>15 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Onoda, Mimata</p> | ||
+ | <p>Thanatin fragment on pGEM T - vector / Thanatin fragment (derived from annealing TA cloning)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>pGEM T - vector</td><td>1 µL</td></tr> | ||
+ | <tr><td>Thanatin fragment</td><td>3 µL</td></tr> | ||
+ | <tr><td>2 × Ligation Buffer</td><td>5 µL</td></tr> | ||
+ | <tr><td>T4 Ligase</td><td>1 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>4℃</td><td>6 hour</td><td>Ligation</td></tr> | ||
+ | <tr><td>2</td><td>65℃</td><td>10 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/08/19</h3> | ||
+ | |||
+ | |||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Ono</p> | ||
+ | <p>Thanatin fragment (derived from annealing)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Thanatin fragment (derived from annealing)</td><td>1 µL</td></tr> | ||
+ | <tr><td>NdeⅠ - F - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHⅠ - R - primer 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>94℃</td><td>10 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Ono</p> | ||
+ | <p>Thanatin fragment (derived from annealing)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Thanatin fragment (derived from annealing)</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHⅠ - Thanatin - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>BglⅡ - Tanatin - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>94℃</td><td>10 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Mimata, Ono</p> | ||
+ | <p>NdeⅠ - Thanatin - BamHⅠ (PCR 3STEP product), BamHⅠ - Thanatin - BglⅡ (PCR 3STEP product)</p> | ||
+ | <ol> | ||
+ | <li>Added 2 µL of NaOAc, 1 µL of glycogen and 50 µL of 100% ethanol.</li> | ||
+ | <li>Left it at -80℃ for 30 min.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 15 min at 4℃.</li> | ||
+ | <li>Removed supernatant and added 100 µL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 10 min at 4℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 10 µL of TE.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Mimata</p> | ||
+ | <p>NdeⅠ - Thanatin - BamHⅠ, BamHⅠ - Thanatin - BglⅡ</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Ono</p> | ||
+ | <p>BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHⅠ - Thanatin - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>BglⅡ - Thanatin - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Annealing / Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Ono</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>XbaⅠ - Thanatin - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>NdeⅠ - Thanatin - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Annealing / Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | |||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Ono</p> | ||
+ | <p>NdeⅠ - Thanatin - BamHⅠ (PCR 2STEP product), BamHⅠ - Thanatin - BglⅡ (PCR 2STEP product)</p> | ||
+ | <ol> | ||
+ | <li>Added 2 µL of NaOAc, 1 µL of glycogen, 7 µL of DW and 50 µL of 100% ethanol.</li> | ||
+ | <li>Left it at room temperature for 15 min.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 15 min at 4℃.</li> | ||
+ | <li>Removed supernatant and added 100 µL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 10 min at 4℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 10 µL of DW.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Ono, Onoda, Mimata, Sakai</p> | ||
+ | <p>NdeⅠ - Thanatin - BamHⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>NdeⅠ - Thanatin - BamHⅠ</td><td>20 µL</td></tr> | ||
+ | <tr><td>NdeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × K Buffer</td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>60℃</td><td>15 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Ono, Onoda, Mimata, Sakai</p> | ||
+ | <p>BamHⅠ - Thanatin - BglⅡ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BamHⅠ - Thanatin - BglⅡ</td><td>20 µL</td></tr> | ||
+ | <tr><td>BamHⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>BglⅡ</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × K Buffer</td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>60℃</td><td>15 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Ono, Onoda, Mimata, Sakai</p> | ||
+ | <p>pET - 15b vector, pET - 16b vector</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>pET - 15b vector, pET - 16b vector</td><td>20 µL</td></tr> | ||
+ | <tr><td>NdeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × K Buffer</td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>60℃</td><td>15 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Transformaion(プレ培養なし) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Onoda</p> | ||
+ | <p>Thanatin fragment on pGEM - T vector</p> | ||
+ | <ol> | ||
+ | <li>Added 1 µL of Thanatin fragment on pGEM - T vector to 50 µL of thawed competent cells (DH5α) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Spread 300 µL of the culture onto plate with LBA.</li> | ||
+ | <li>Incubated the plate at 37℃ for 18 hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養なし) END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/08/20</h3> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Ono, Nishimura, Mimata</p> | ||
+ | <p>NdeⅠ - Thanatin - BamHⅠ (digestion product), BamHⅠ - Thanatin - BglⅡ digestion product), BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ (PCR 2STEP product), XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (PCR 2STEP product) | ||
+ | </p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Ono, Nishimura, Mimata</p> | ||
+ | <p>pET - 15b vector (digestion product), pET - 16b vector (digestion product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <h4>Gel Extract</h4> | ||
+ | <p>Nishimura, Ono</p> | ||
+ | <p>pET - 15b vector, pET - 16b vector | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Ono, Nishimura, Ito</p> | ||
+ | <p>BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ(PCR 2STEP poduct) | ||
+ | </p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ (PCR 2STEP poduct)</td><td>9 µL</td></tr> | ||
+ | <tr><td>BamHⅠ</td><td>5 µL</td></tr> | ||
+ | <tr><td>BglⅡ</td><td>5 µL</td></tr> | ||
+ | <tr><td>10 × K Buffer</td><td>10 µL</td></tr> | ||
+ | <tr><td>DW</td><td>71 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>100 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>70℃</td><td>15 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Ono, Nisimura, Ito</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (PCR 2STEP poduct)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (PCR 2STEP poduct)</td><td>9 µL</td></tr> | ||
+ | <tr><td>XbaⅠ</td><td>5 µL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>5 µL</td></tr> | ||
+ | <tr><td>10 × K Buffer</td><td>10 µL</td></tr> | ||
+ | <tr><td>DW</td><td>71 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>100 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>80℃</td><td>20 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Ono, Nishimura, Ito</p> | ||
+ | <p>BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_B0015 on pSB1C3</td><td>20 µL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>CutSmart Buffer</td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>6 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>80℃</td><td>20 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Ito</p> | ||
+ | <p>BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ (digestion product), XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (digestion product)</p> | ||
+ | <ol> | ||
+ | <li>Added 9 µL of NaOAc, 1.5 µL of glycogen and 270 µL of 100% ethanol.</li> | ||
+ | <li>Left it at -80℃ for 1 hr.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 15 min at 4℃.</li> | ||
+ | <li>Removed supernatant and added 220 µL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 10 min at 4℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 10 µL of TE.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p>Ito</p> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (digestion product, Ethanol Precipitation product), BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ (digestion product, Ethanol Precipitation product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | |||
+ | <h3>2015/08/21</h3> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Ono, Nishimura, Onoda</p> | ||
+ | <p>BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHⅠ - Thanatin - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>BglⅡ - Thanatin - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Annealing / Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Ono, Nishimura, Onoda</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>XbaⅠ - Thanatin - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>SpeⅠ - Thanatin - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Annealing / Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Ono, Onoda, Nishimura</p> | ||
+ | <p>XbaⅠ - Thanatin - SpeⅠ, BamHⅠ- Thanatin - BglⅡ</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Ono, Nishimura</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ, BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ</p> | ||
+ | <ol> | ||
+ | <li>Added 3 µL of NaOAc, 1 µL of glycogen and 90 µL of 100% ethanol.</li> | ||
+ | <li>Left it at -80℃ for 10 min.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 5 min at 4℃.</li> | ||
+ | <li>Removed supernatant and added 100 µL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 5 min at 4℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature.</li> | ||
+ | <li>Suspended with 10 µL of TE.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Ono, Nishimura</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (after Ethanol Prescipitation) BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ (after Ethanol Precipitation)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Ono, Nishimura, Ito</p> | ||
+ | <p>BBa_K759012 on pSB1C3 / BamHⅠ - Thanatin - BglⅡ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_K759012 on pSB1C3</td><td>5 µL</td></tr> | ||
+ | <tr><td>BamHⅠ - Thanatin - BglⅡ</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × T4 DNA Ligase Buffer</td><td>7 µL</td></tr> | ||
+ | <tr><td>T4 Ligase</td><td>1 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>14 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>16℃</td><td>30 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Ono, Nishimura, Ito</p> | ||
+ | <p>BBa_B0015 on pSB1C3 / XbaⅠ - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_B0015 on pSB1C3</td><td>5 µL</td></tr> | ||
+ | <tr><td>XbaⅠ - Thanatin - SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × T4 DNA Ligase Buffer</td><td>7 µL</td></tr> | ||
+ | <tr><td>T4 DNA Ligase</td><td>1 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>14 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>16℃</td><td>30 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <!-- Transformaion(プレ培養あり) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Onoda</p> | ||
+ | <p>Thanatin - BBa_K759012 on pSB1C3, Thanatin - BBa_B0015 on pSB1C3</p> | ||
+ | <ol> | ||
+ | <li>Added 5 µL of Thanatin - BBa_K759012 on pSB1C3, Thanatin - BBa_B0015 on pSB1C3 to 50 µL of thawed competent cells (DH5α) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 200 µL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 300 µL of the culture onto plate with LBC.</li> | ||
+ | <li>Incubated the plate at 37℃ for 16 hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Onoda, Ono</p> | ||
+ | <p>BBa_B0033 on pSB1C3, XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ, XbaⅠ - BBa_K168000</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_B0033 on pSB1C3, XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ, XbaⅠ - BBa_K168000</td><td>20 µL</td></tr> | ||
+ | <tr><td>XbaⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × M Buffer</td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>60 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>80℃</td><td>20 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Onoda</p> | ||
+ | <p>BBa_E0040 on pSB1C3, BBa_R0040 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_E0040 on pSB1C3, BBa_R0040 on pSB1C3</td><td>20 µL</td></tr> | ||
+ | <tr><td>XbaⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>CutSmart Buffer</td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>6 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>60 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>60℃</td><td>15 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/08/22</h3> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Ono, Nishimura</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (digestion product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Ono, Onoda</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - BBa_B0034 on pSB1C3</td><td>20 µL</td></tr> | ||
+ | <tr><td>SpeⅠ - HF</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × M Buffer</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>24 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Ono, Onoda</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 on pSB1C3 (Digestion product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>45 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Ono</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 on pSB1C3 (Digestion product)</p> | ||
+ | <ol> | ||
+ | <li>Added 5 µL of NaOAc, 1.5 µL of glycogen and 150 µL of 100% ethanol.</li> | ||
+ | <li>Left it at -80℃ for 1 hr.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 5 min at 4℃.</li> | ||
+ | <li>Removed supernatant and added 100 µL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 10 min at 4℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 10 µL of TE.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Ono, Onoda</p> | ||
+ | <p>Thanatin - BBa_K759012 on pSB1C3, nothing (as a negative control)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>AGSP - BamHⅠ - Spidroin 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>BglⅡ - D - Thanatin 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>65℃</td><td>40 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Ono, Onoda</p> | ||
+ | <p>BBa_B0031 on pSB1A2 (as Positive Control)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>57℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Ono, Onoda</p> | ||
+ | <p>Thanatin - BBa_K759012 on pSB1C3 (Colony PCR product), BBa_B0031 on pSB1A2 (Colony PCR product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>45 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Ono</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 on pSB1C3 / XbaⅠ - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - BBa_B0034 on pSB1C3</td><td>5 µL</td></tr> | ||
+ | <tr><td>XbaⅠ - Thanatin - SpeⅠ</td><td>4 µL</td></tr> | ||
+ | <tr><td>Mighty Mix</td><td>10 µL</td></tr> | ||
+ | <tr><td>DW</td><td>1 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>20 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>16℃</td><td>30 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | <!-- Transformaion(プレ培養あり) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Ono</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 on pSB1C3</p> | ||
+ | <ol> | ||
+ | <li>Added 1 µL of BBa_R0010 - BBa_B0034 on pSB1C3 to 50 µL of thawed competent cells (DH5α) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 200 µL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 300 µL of the culture onto plate with LBC.</li> | ||
+ | <li>Incubated the plate at 37℃ for 16 hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Onoda</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>XbaI - B0034 - XS scar - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>SpeⅠ - Thanatin - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Annealing / Elongation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Onoda</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>50 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Onoda</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>XbaI - B0034 - XS scar - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>SpeⅠ - Thanatin - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Annealing / Elongation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- Transformaion(プレ培養あり) --> | ||
+ | <h4>Transformation </h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>BBa_K206000 on pSB1C3, BBa_K206001 on pSB1C3, BBa_I0500 - BBa_B0034 - BBa_R0040 on pSB1C3, BBa_B0034 - BBa_E0040 on pSB1C3, BBa_B0034 - BBa_R0040 on pSB1C3, BBa_B0034 - BBa_E0040 - BBa_B0015 on pSB1C3, BBa_I0500 on pSB1C3, BBa_B0034 - BBa_R0040 - BBa_B0015 on pSB1C3</p> | ||
+ | |||
+ | |||
<ol> | <ol> | ||
− | <li>Added | + | <li>Added 5 μL of BBa_K206000 on pSB1C3, BBa_K206001 on pSB1C3, BBa_I0500 - BBa_B0034 - BBa_R0040 on pSB1C3, BBa_B0034 - BBa_E0040 on pSB1C3, BBa_B0034 - BBa_R0040 on pSB1C3, BBa_B0034 - BBa_E0040 - BBa_B0015 on pSB1C3, BBa_I0500 on pSB1C3, BBa_B0034 - BBa_R0040 - BBa_B0015 on pSB1C3 to 50 μL of thawed competent cells (DH5α) on ice.</li> |
<li>Incubated on ice for 30 min.</li> | <li>Incubated on ice for 30 min.</li> | ||
<li>Heat-shocked for 30 sec at 42℃.</li> | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
<li>Added 200 μL of LB.</li> | <li>Added 200 μL of LB.</li> | ||
− | <li>Spread | + | <li>Incubated the cells for 2 hrs at 37℃.</li> |
− | <li>Incubated the plate at 37℃ for | + | <li>Spread 200 μL of the culture onto plate with LBC.</li> |
+ | <li>Incubated the plate at 37℃ for 15 hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
+ | |||
+ | <!-- Transformaion(プレ培養あり) --> | ||
+ | <h4>Transformation </h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>BBa_B0034 - BBa_R0040 - BBa_B0015 on pSB1A2</p> | ||
+ | |||
+ | <ol> | ||
+ | <li>Added 5 μL of BBa_B0034 - BBa_R0040 - BBa_B0015 on pSB1A2 to 50 μL of thawed competent cells (DH5α) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Spread 200 μL of the culture onto plate with LBA.</li> | ||
+ | <li>Incubated the plate at 37℃ for 18 hours.</li> | ||
</ol> | </ol> | ||
<!-- Transformaion(プレ培養なし) END --> | <!-- Transformaion(プレ培養なし) END --> | ||
− | <h3>2015/ | + | <!-- Liquid Culture --> |
+ | <h4>Liquid Culture</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>BBa_K206000 on pSB1C3, BBa_K206001 on pSB1C3, BBa_I0500 - BBa_B0034 - BBa_R0040 on pSB1C3, BBa_B0034 - BBa_E0040 on pSB1C3, BBa_B0034 - BBa_R0040 on pSB1C3, BBa_B0034 - BBa_E0040 - BBa_B0015 on pSB1C3, BBa_I0500 on pSB1C3, BBa_B0034 - BBa_R0040 - BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>LBC</td><td>2000 μL</td></tr> | ||
+ | <tr><td>Chloramphenicol</td><td>2 μL</td></tr> | ||
+ | </table> | ||
+ | <p>Cultured for 12 hours.</p> | ||
+ | <!-- Liquid Culture END --> | ||
+ | |||
+ | <!-- Liquid Culture --> | ||
+ | <h4>Liquid Culture</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>BBa_B0034 - BBa_R0040 - BBa_B0015 on pSB1A2</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>LBA</td><td>2000 μL</td></tr> | ||
+ | <tr><td>Ampicillin</td><td>2 μL</td></tr> | ||
+ | </table> | ||
+ | <p>Cultured for 12 hours.</p> | ||
+ | <!-- Liquid Culture END --> | ||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/08/23</h3> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Ono</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (PCR 2STEP product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <h4>Gel Extract</h4> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Ito, Ono, Onoda</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - Thanatin, nothing (as a negative control)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>SpeⅠ - Thanatin - R 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>57℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Ito, Ono, Onoda</p> | ||
+ | <p>BBa_B0030 on pSB1A2 (as a positive control)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>57℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/08/24</h3> | ||
<!-- Mini-prep --> | <!-- Mini-prep --> | ||
<h4>Mini-prep</h4> | <h4>Mini-prep</h4> | ||
− | <p> | + | <p>Ono, Nishimura</p> |
− | <p> | + | <p>Thanatin - BBa_K759012 on pSB1C3 |
<br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | <br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | ||
<br>standard protocol</p> | <br>standard protocol</p> | ||
<!-- Mini-prep END --> | <!-- Mini-prep END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Ono, Nishimura</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3, nothing (as a negative control), BBa_B0030 on pSB1A2 (as a positive control)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>SpeⅠ - Thanatin - R 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>57℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Ono, Nishimura</p> | ||
+ | <p>Thanatin - BBa_K759012 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>AGSP - BamHⅠ - Spidroin 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>BBa_K759012 - R 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>65℃</td><td>40 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Ono, Nishimura</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3, Thanatin - BBa_K759012 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Ono, Nishimura</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3</td><td>20 µL</td></tr> | ||
+ | <tr><td>SpeⅠ - HF</td><td>1 µL</td></tr> | ||
+ | <tr><td>CutSmart Buffer</td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>6 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>80℃</td><td>20 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Ono, Nishimura</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3 (digestion product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Liquid Culture --> | ||
+ | <h4>Liquid Culture</h4> | ||
+ | <p>Ono, Nishimura</p> | ||
+ | <p>Thanatin - BBa_K759012 on pSB1C3 into DH5α</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>LB</td><td>2000 µL</td></tr> | ||
+ | <tr><td>Chloramphenicol</td><td>2 µL</td></tr> | ||
+ | </table> | ||
+ | <p>Cultured for 16 hours.</p> | ||
+ | <!-- Liquid Culture END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/08/25</h3> | ||
+ | |||
+ | |||
+ | |||
+ | <!-- Liquid Culture --> | ||
+ | <h4>Liquid Culture</h4> | ||
+ | <p>Ono, Nishimura</p> | ||
+ | <p>Thanatin - BBa_K759012 on pSB1C3 into DH5α, BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3 into DH5α</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>LB</td><td>2000 µL</td></tr> | ||
+ | <tr><td>Chloramphenicol</td><td>2 µL</td></tr> | ||
+ | </table> | ||
+ | <p>Cultured for 16 hours.</p> | ||
+ | <!-- Liquid Culture END --> | ||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <h4>Sequencing</h4> | ||
+ | <p>Ono, Nishimura</p> | ||
+ | <p>Thanatin - BBa_K759012 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Thanatin - BBa_K759012 on pSB1C3</td><td>1 µL</td></tr> | ||
+ | <tr><td>pbad - F2 / 200 - βdomain BBa_K759012 - R</td><td>1.5 µL</td></tr> | ||
+ | <tr><td>BigDye Terminator</td><td>1 µL</td></tr> | ||
+ | <tr><td>5 x Sequencing Buffer</td><td>1.5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Sequencing</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>96℃</td><td>10 sec</td><td>Denaturation</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>50℃</td><td>5 sec</td><td>-</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Ono, Nishimura</p> | ||
+ | <p>Thanatin - BBa_K759012 on pSB1C3</p> | ||
+ | <ol> | ||
+ | <li>Added 5 µL of NaOAc, 1.5 µL of glycogen and 150 µL of 100% ethanol.</li> | ||
+ | <li>Left it at -80℃ for 1 hr.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 15 min at 4℃.</li> | ||
+ | <li>Removed supernatant and added 220 µL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 10 min at 4℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 10 µL of DW.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Ono, Nishimura</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>XbaⅠ - BBa_B0034 - XS scar - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>SpeⅠ - Thanatin - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>55℃</td><td>10 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Fujita, Nishimura</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</p> | ||
+ | <ol> | ||
+ | <li>Added 5 µL of NaOAc, 1.5 µL of glycogen and 150 µL of 100% ethanol.</li> | ||
+ | <li>Left it at -80℃ for 1 hr.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 15 min at 4℃.</li> | ||
+ | <li>Removed supernatant and added 220 µL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 10 min at 4℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 10 µL of TE.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Fujita</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/08/26</h3> | ||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Ono、Nishimura</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>XbaⅠ - BBa_B0034 - XS scar - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>SpeⅠ - Thanatin - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>55℃</td><td>10 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Ono, Nishimura</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>XbaⅠ - BBa_B0034 - XS scar - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>SpeⅠ - Thanatin - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>53℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
<!-- PCR 2STEP--> | <!-- PCR 2STEP--> | ||
<h4>PCR</h4> | <h4>PCR</h4> | ||
− | <p> | + | <p>Ono, Nishimura, Fujita</p> |
− | <p> | + | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</p> |
<table> | <table> | ||
<tr><th>Reagent</th><th>Volume</th></tr> | <tr><th>Reagent</th><th>Volume</th></tr> | ||
− | <tr><td> | + | <tr><td>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</td><td>1 µL</td></tr> |
− | <tr><td>67-F- | + | <tr><td>XbaⅠ - BBa_B0034 - XbaⅠ / SpeⅠ scar - F 10 µM</td><td>1 µL</td></tr> |
− | <tr><td> | + | <tr><td>SpeⅠ - Thanatin - R 10 µM</td><td>1 µL</td></tr> |
− | <tr><td>KOD | + | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> |
− | <tr><td> | + | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> |
− | <tr><td>2 mM | + | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> |
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Annealing / Elongation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Ono, Nishimura, Fujita</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (PCR 2STEP, 3STEP products)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Fujita, Nishimura, Ono</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (PCR 2STEP product)</p> | ||
+ | <ol> | ||
+ | <li>Added 4 µL of NaOAc, 1.5 µL of glycogen and 120 µL of 100% ethanol.</li> | ||
+ | <li>Left it at -80℃ for 1 hr.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 5 min at 4℃.</li> | ||
+ | <li>Removed supernatant and added 100 µL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 10 min at 4℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 10 µL of TE.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
+ | |||
+ | <!-- Mini-prep --> | ||
+ | <h4>Mini-prep</h4> | ||
+ | <p>Nishimura, Ono</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3 | ||
+ | <br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>standard protocol</p> | ||
+ | <!-- Mini-prep END --> | ||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <h4>Sequencing</h4> | ||
+ | <p>Fujita, Nishimura, Ono</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3 (Mini-prep product)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3 (Mini-prep producrt)</td><td>1 µL</td></tr> | ||
+ | <tr><td>100UP - EX - F / 200DN - PS - R</td><td>1.5 µL</td></tr> | ||
+ | <tr><td>Ready Reaction Premix</td><td>1 µL</td></tr> | ||
+ | <tr><td>5 x Sequencing Buffer</td><td>1.5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Sequencing</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>96℃</td><td>10 sec</td><td>Denaturation</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>50℃</td><td>5 sec</td><td>-</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Fujita, Nishimura, Ono</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3 (Sequencing PCR product)</p> | ||
+ | <ol> | ||
+ | <li>Added 5 µL of NaOAc, 1.5 µL of glycogen and 150 µL of 100% ethanol.</li> | ||
+ | <li>Left it at -80℃ for 1 hr.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 15 min at 4℃.</li> | ||
+ | <li>Removed supernatant and added 220 µL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 10 min at 4℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 10 µL of TE.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/08/27</h3> | ||
+ | |||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Ono, Ito</p> | ||
+ | <p>BBa_K759012 on pSB1C3 (dephosphorylated) / BamHⅠ - Thanatin - BglⅡ </p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_K759012 on pSB1C3</td><td>5 µL</td></tr> | ||
+ | <tr><td>BamHⅠ - Thanatin - BglⅡ</td><td>4 µL</td></tr> | ||
+ | <tr><td>Mighty Mix</td><td>10 µL</td></tr> | ||
+ | <tr><td>DW</td><td>1 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>20 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>16℃</td><td>30 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Ono, Ito</p> | ||
+ | <p>BBa_K759012 on pSB1C3 (not phosphorylated)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_K759012 on pSB1C3</td><td>2 µL</td></tr> | ||
+ | <tr><td>Mighty Mix</td><td>2 µL</td></tr> | ||
+ | <tr><td>DW</td><td>6 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>16℃</td><td>30 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Ono, Ito</p> | ||
+ | <p>BBa_K759012 on pSB1C3 (phosphorylated)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_K759012 on pSB1C3</td><td>2 µL</td></tr> | ||
+ | <tr><td>Mighty Mix</td><td>2 µL</td></tr> | ||
+ | <tr><td>DW</td><td>6 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>16℃</td><td>30 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | <!-- Transformaion(プレ培養あり) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Ono, Ito</p> | ||
+ | <p>Thanatin - BBa_K759012 on pSB1C3, self ligated BBa_K759012 on pSB1C3, linearized BBa_K759012 on pSB1C3, self ligated BBa_K759012 on pSB1C3 (phosphorylated), linearized BBa_K759012 on pSB1C3 (phosphorylated)</p> | ||
+ | <ol> | ||
+ | <li>Added 1 µL of Thanatin - BBa_K759012 on pSB1C3, self ligated BBa_K759012 on pSB1C3, linearized BBa_K759012 on pSB1C3, self ligated BBa_K759012 on pSB1C3 (phosphorylated), linearized BBa_K759012 on pSB1C3 (phosphorylated) or linearized BBa_K759012 on pSB1C3 (phosphorylated) to 50 µL of thawed competent cells (DH5α) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 200 µL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 300 µL of the culture onto plate with LBC.</li> | ||
+ | <li>Incubated the plate at 37℃ for 12 hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Ito, Ono</p> | ||
+ | <p>Thanatin - BBa_K759012 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>Agsp - BamHⅠ - Spidroin 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>BBa_K759012 - bunit - R / BglⅡ - D - Thanatin - R 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>65℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>60 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <h3>2015/08/28</h3> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Fujita, Ono</p> | ||
+ | <p>BamHⅠ - Thanatin - BglⅡ, XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Fujita</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</p> | ||
+ | <ol> | ||
+ | <li>Added 5 µL of NaOAc, 1.5 µL of glycogen and 150 µL of 100% ethanol.</li> | ||
+ | <li>Left it at -80℃ for 1 hr.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 15 min at 4℃.</li> | ||
+ | <li>Removed supernatant and added 220 µL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 10 min at 4℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 10 µL of TE.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Fujita, Ono</p> | ||
+ | <p>BamHⅠ - Thanatin - BglⅡ</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <h4>Gel Extract</h4> | ||
+ | <p>Fujita</p> | ||
+ | <p>BamHⅠ - Thanatin - BglⅡ | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Fujita, Ono</p> | ||
+ | <p>XbaⅠ - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>XbaⅠ - Thanatin - SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>XbaⅠ - Thanatin - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>SpeⅠ - Thanatin - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Annealing / Elongation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Fujita, Ono</p> | ||
+ | <p>XbaⅠ - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>XbaⅠ - Thanatin - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>SpeⅠ - Thanatin - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>67℃</td><td>30 sec</td><td>Annealing</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Fujita, Ono</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>XbaⅠ - Thanatin - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>SpeⅠ - Thanatin - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Annealing / Elongation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Fujita, Ono</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>XbaⅠ - Thanatin - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>SpeⅠ - Thanatin - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>67℃</td><td>30 sec</td><td>Annealing</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END -- | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Fujita, Ono</p> | ||
+ | <p>BamHⅠ - Thanatin - BglⅡ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BamHⅠ - Thanatin - BglⅡ</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHⅠ - Thanatin - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>BglⅡ - Thanatin - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Annealing / Elongation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Fujita, Ono</p> | ||
+ | <p>BamHⅠ - Thanatin - BglⅡ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BamHⅠ - Thanatin - BglⅡ</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHⅠ - Thanatin - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>BglⅡ - Thanatin - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>67℃</td><td>30 sec</td><td>Annealing</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Fujita, Ono</p> | ||
+ | <p>XbaⅠ - Thanatin - SpeⅠ, XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ, BamHⅠ - Thanatin - BglⅡ</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Ono, Fujita</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</td><td>20 µL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>XbaⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × M Buffer</td><td>3 µL</td></tr> | ||
+ | <tr><td>0.1%BSA</td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Ono, Fujita</p> | ||
+ | <p>BamHⅠ - Thanatin - BglⅡ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BamHⅠ - Thanatin - BglⅡ</td><td>20 µL</td></tr> | ||
+ | <tr><td>BamHⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>BglⅡ</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × K Buffer</td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <h3>2015/08/29</h3> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Fujita, Ono</p> | ||
+ | <p>XbaⅠ - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <h4>Gel Extract</h4> | ||
+ | <p>Fujita, Ono</p> | ||
+ | <p>XbaⅠ - Thanatin - SpeⅠ</p> | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Fujita, Ono</p> | ||
+ | <p>XbaⅠ - Thanatin - SpeⅠ</p> | ||
+ | <ol> | ||
+ | <li>Added 20 µL of NaOAc, 1.5 µL of glycogen and 600 µL of 100% ethanol.</li> | ||
+ | <li>Left it at -80℃ for 1 hr.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 15 min at 4℃.</li> | ||
+ | <li>Removed supernatant and added 100 µL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 10 min at 4℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 10 µL of TE.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Fujita, Ono</p> | ||
+ | <p>XbaⅠ - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Ono</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>XbaⅠ - Thanatin - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>SpeⅠ - Thanatin - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Annealing / Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Ono</p> | ||
+ | <p>BamHⅠ - Thanatin - BglⅡ (Digestion product), XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (Digestion product)</p> | ||
+ | <ol> | ||
+ | <li>Added 3 µL of NaOAc, 1.5 µL of glycogen and 90 µL of 100% ethanol.</li> | ||
+ | <li>Left it at -80℃ for 10 min.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 5 min at 4℃.</li> | ||
+ | <li>Removed supernatant and added 100 µL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 5 min at 4℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 10 µL of TE.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Fujita, Mimata</p> | ||
+ | <p>BBa_B0033, Thanatin - BBa_K759012, BBa_R0010 - Thanatin, BBa_R0040, BBa_E0040</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Fujita, Mimata</p> | ||
+ | <p>BamHⅠ - Thanatin - BglⅡ, XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ, XbaⅠ - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Fujita</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - BBa_B0034 on pSB1C3</td><td>20 µL</td></tr> | ||
+ | <tr><td>SpeⅠ - HF</td><td>1 µL</td></tr> | ||
+ | <tr><td>CutSmart Buffer</td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>6 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>80℃</td><td>20 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | |||
+ | <!-- Transformaion(プレ培養あり) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>BBa_B0015 on pSB1C3</p> | ||
+ | <ol> | ||
+ | <li>Added 5 μL of BBa_B0015 on pSB1C3 to 50 μL of thawed competent cells (DH5α) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 200 μL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 200 μL of the culture onto plate with LBC.</li> | ||
+ | <li>Incubated the plate at 37℃ for 16 hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
+ | |||
+ | <!-- Transformaion(プレ培養あり) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>BBa_I0500 on pSB2K3</p> | ||
+ | <ol> | ||
+ | <li>Added 5 μL of BBa_I0500 on pSB2K3 to 50 μL of thawed competent cells (DH5α) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 200 μL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 200 μL of the culture onto plate with LBK.</li> | ||
+ | <li>Incubated the plate at 37℃ for 16 hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
+ | |||
+ | |||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR (2 STEP)</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>HLA on pCOLA</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>HLA on pCOLA</td><td>1 μL</td></tr> | ||
+ | <tr><td>XbaI - HLA - F - primer 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>SpeI - HLA - R - primer 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 μL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 μL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 μL</td></tr> | ||
<tr><td>25 mM MgSO<sub>4</sub></td><td>3 μL</td></tr> | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 μL</td></tr> | ||
<tr><td>DW</td><td>33 μL</td></tr> | <tr><td>DW</td><td>33 μL</td></tr> | ||
<tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
</table> | </table> | ||
− | <p> | + | |
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>elongation time</td><td>Annealing / Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR (3 STEP)</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>HLZ on pCOLA</p> | ||
<table> | <table> | ||
<tr><th>Reagent</th><th>Volume</th></tr> | <tr><th>Reagent</th><th>Volume</th></tr> | ||
− | <tr><td> | + | <tr><td>HLZ on pCOLA</td><td>1 μL</td></tr> |
− | <tr><td> | + | <tr><td>XbaI - HLZ - F - primer 10 μM</td><td>1 μL</td></tr> |
− | <tr><td> | + | <tr><td>SpeI - HLZ - R - primer 10 μM</td><td>1 μL</td></tr> |
− | <tr><td>KOD | + | <tr><td>KOD - Plus - Neo</td><td>1 μL</td></tr> |
− | <tr><td> | + | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 μL</td></tr> |
− | <tr><td>2 mM | + | <tr><td>2 mM dNTPs</td><td>5 μL</td></tr> |
<tr><td>25 mM MgSO<sub>4</sub></td><td>3 μL</td></tr> | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 μL</td></tr> | ||
<tr><td>DW</td><td>33 μL</td></tr> | <tr><td>DW</td><td>33 μL</td></tr> | ||
<tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
</table> | </table> | ||
− | <p> | + | <p>3 Step Cycle (Tm value ≤ 63℃)</p> |
<table> | <table> | ||
<tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
<tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
− | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td> | + | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>35 cycle</td></tr> |
− | <tr><td>Cycle 2</td><td> | + | <tr><td>Cycle 2</td><td>62.7℃</td><td>30 sec</td><td>Annealing</td><td>35 cycle</td></tr> |
+ | <tr><td>Cycle 3</td><td>68℃</td><td>elongation time</td><td>Elongation</td><td>35 cycle</td></tr> | ||
<tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | |||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR (3 STEP)</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>BLA on pCOLA</p> | ||
+ | <table> | ||
+ | |||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BLA on pCOLA</td><td>1 μL</td></tr> | ||
+ | <tr><td>XbaI - BLA - F - primer 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>SpeI - BLA - R - primer 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 μL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 μL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 μL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 μL</td></tr> | ||
+ | <tr><td>DW</td><td>33 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
+ | </table> | ||
+ | |||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60.9℃</td><td>30 sec</td><td>Annealing</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>elongation time</td><td>Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | |||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR (3 STEP)</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>BBa_B0015, BBa_B0032, BBa_B0033, BBa_B0034 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_B0015, BBa_B0032, BBa_B0033, BBa_B0034 on pSB1C3</td><td>1 μL</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 μL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 μL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 μL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 μL</td></tr> | ||
+ | <tr><td>DW</td><td>33 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
+ | </table> | ||
+ | |||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>62.6℃</td><td>30 sec</td><td>Annealing</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>elongation time</td><td>Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | |||
+ | <p>BBa_B0015, BBa_B0032, BBa_B0033, BBa_B0034 on pSB1C3, BLA on pCOLA, HLA on pCOLA</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>100 V</td><td>30 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Dephosphorylation --> | ||
+ | <h4>Dephosphorylation</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>BBa_R0040 on pSB1C3, BBa_E0040 on pSB1A2 XbaI (Digestion product)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0040 on pSB1C3, BBa_E0040 on pSB1A2 XbaI (Digestion product)</td><td>10 μL</td></tr> | ||
+ | <tr><td>Antarctic Phosphatase</td><td>1 μL</td></tr> | ||
+ | <tr><td>Antarctic Phosphatase Buffer</td><td>2 μL</td></tr> | ||
+ | <tr><td>DW</td><td>7 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>20 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Dephosphorylation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>15 min</td><td>Dephosphorylation</td></tr> | ||
+ | <tr><td>2</td><td>65℃</td><td>5 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Dephosphorylation END --> | ||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR (3 STEP)</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>BBa_I0500, BBa_B0015, BBa_B0032, BBa_B0033, BBa_B0034 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_I0500, BBa_B0015, BBa_B0032, BBa_B0033, BBa_B0034 on pSB1C3</td><td>1 μL</td></tr> | ||
+ | <tr><td>100UP - EX -F 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 μL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 μL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 μL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 μL</td></tr> | ||
+ | <tr><td>DW</td><td>33 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>62.6℃</td><td>30 sec</td><td>Annealing</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>elongation time</td><td>Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | |||
+ | |||
+ | <h3>2015/08/30</h3> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Mimata</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 on pSB1C3, Thanatin - BBa_K759012 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Mimata, Toyooka</p> | ||
+ | <p>XbaⅠ - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>XbaⅠ - Thanatin - SpeⅠ</td><td>20 µL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>XbaⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × M Buffer </td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>70℃</td><td>15 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Mimata, Toyooka</p> | ||
+ | <p>BBa_R0040 on pSB1A2, BBa_E0040 on pSB1A2</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0040 on pSB1A2, BBa_E0040 on pSB1A2</td><td>20 µL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>CutSmart Buffer</td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>6 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>70℃</td><td>15 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Mimata, Toyooka</p> | ||
+ | <p>BBa_B0030 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_B0030 on pSB1C3</td><td>20 µL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>XbaⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × M Buffer </td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> | ||
+ | </table> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>70℃</td><td>15 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <h3>2015/08/31</h3> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Nishimura, Ono, Toyooka, Fujita</p> | ||
+ | <p>XbaⅠ - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>XbaⅠ - Thanatin - SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>XbaⅠ - Thanatin - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>SpeⅠ - Thanatin - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Annealing / Elongation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
</table> | </table> | ||
<!-- PCR 2STEP END --> | <!-- PCR 2STEP END --> | ||
− | < | + | <!-- PCR 2STEP--> |
+ | <h4>PCR</h4> | ||
+ | <p>Nishimura, Ono, Toyooka, Fujita</p> | ||
+ | <p>BamHⅠ- Thanatin - BglⅡ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BamHⅠ- Thanatin - BglⅡ</td><td>1 µL</td></tr> | ||
+ | <tr><td>BamHⅠ- Thanatin - F 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>BglⅡ - D - Thanatin - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Annealing / Elongation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
<!-- Electrophoresis --> | <!-- Electrophoresis --> | ||
<h4>Electrophoresis</h4> | <h4>Electrophoresis</h4> | ||
− | <p> | + | <p>Ono, Nishimura, Toyooka, Fujita</p> |
− | <p> | + | <p>BamHⅠ- Thanatin - BglⅡ, XbaⅠ - Thanatin - SpeⅠ</p> |
<table> | <table> | ||
<tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
− | <tr><td>2 | + | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> |
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Ono, Nishimura, Toyooka, Fujita</p> | ||
+ | <p>BamHⅠ- Thanatin - BglⅡ, XbaⅠ - Thanatin - SpeⅠ</p> | ||
+ | <ol> | ||
+ | <li>Added 5 µL of NaOAc, 1.5 µL of glycogen and 150 µL of 100% ethanol.</li> | ||
+ | <li>Left it at -80℃ for 1 hr.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 15 min at 4℃.</li> | ||
+ | <li>Removed supernatant and added 100 µL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 10 min at 4℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 10 µL of TE.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Ono, Fujita, Toyooka, Nishimura </p> | ||
+ | <p>Thanatin fragment (Ethanol Precipitation product)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Thanatin fragment (Ethanol Precipitation product)</td><td>20 µL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>2 µL</td></tr> | ||
+ | <tr><td>XbaⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>CutSmart Buffer</td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>60 min</td><td>Digestion</tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Ono, Fujita, Toyooka, Nishimura </p> | ||
+ | <p>Thanatin fragment (Ethanol Precipitation product)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Thanatin fragment (Ethanol Precipitation product)</td><td>20 µL</td></tr> | ||
+ | <tr><td>BamHⅠ</td><td>2 µL</td></tr> | ||
+ | <tr><td>BglⅡ</td><td>6 µL</td></tr> | ||
+ | <tr><td>10 × K Buffer</td><td>10 µL</td></tr> | ||
+ | <tr><td>DW</td><td>60 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>100 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>60 min</td><td>Digestion</tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Ono, Nishimura, Toyooka, Fujita</p> | ||
+ | <p>BamHⅠ- Thanatin - BglⅡ, XbaⅠ - Thanatin - SpeⅠ (Digestion product)</p> | ||
+ | <ol> | ||
+ | <li>Added 5 µL of NaOAc, 1.5 µL of glycogen and 280 µL of 100% ethanol.</li> | ||
+ | <li>Left it at -80℃ for 1 hr.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 15 min at 4℃.</li> | ||
+ | <li>Removed supernatant and added 100 µL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 10 min at 4℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 10 µL of TE.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Ono, Nishimura, Toyooka, Fujita, Mimata</p> | ||
+ | <p>BamHⅠ- Thanatin - BglⅡ, XbaⅠ - Thanatin - SpeⅠ (Ethanol Presipitation product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Ono</p> | ||
+ | <p>BBa_K759012 on pSB1C3 / BamHⅠ- Thanatin - BglⅡ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_K759012 on pSB1C3</td><td>95 µL</td></tr> | ||
+ | <tr><td>BamHⅠ- Thanatin - BglⅡ</td><td>0.5 µL</td></tr> | ||
+ | <tr><td>Mighty Mix</td><td>10 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>20 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>16℃</td><td>30 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Ono, Mimata</p> | ||
+ | <p>BBa_K759012 on pSB1C3, BBa_R0010 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Onoda, </p> | ||
+ | <p>BBa_E1010 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_E1010 on pSB1C3</td><td>10 µL</td></tr> | ||
+ | <tr><td>EcoRⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>XbaⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × M Buffer </td><td>2 µL</td></tr> | ||
+ | <tr><td>DW</td><td>6 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>20 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>60℃</td><td>15 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Onoda</p> | ||
+ | <p>BBa_E1010 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_E1010 on pSB1C3</td><td>10 µL</td></tr> | ||
+ | <tr><td>XbaⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>CutSmart Buffer</td><td>2 µL</td></tr> | ||
+ | <tr><td>DW</td><td>7 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>20 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>60℃</td><td>15 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Toyooka</p> | ||
+ | <p>BBa_E1010 on pSB1C3 (Digestion product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>40 min</td><td>1/2 x TBE</td></tr> | ||
</table> | </table> | ||
<!-- Electrophoresis END --> | <!-- Electrophoresis END --> | ||
Line 286: | Line 4,755: | ||
<!-- Gel Extract --> | <!-- Gel Extract --> | ||
<h4>Gel Extract</h4> | <h4>Gel Extract</h4> | ||
− | <p> | + | <p>Toyooka</p> |
− | <p> | + | <p>BBa_E1010 on pSB1C3 (Digestion product) |
+ | <br>FastGene<sup>TM</sup> Gel Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Ito, Sakai</p> | ||
+ | <p>HLA family</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>HLA, HLZ, BLA, BLZ</td><td>20 µL</td></tr> | ||
+ | <tr><td>XbaⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × M Buffer </td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>80℃</td><td>20 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Ito, Sakai</p> | ||
+ | <p>HLA, HLZ, BLA, BLZ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>HLA, HLZ, BLA, BLZ</td><td>10 µL</td></tr> | ||
+ | <tr><td>XbaⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x M buffer </td><td>2 µL</td></tr> | ||
+ | <tr><td>DW</td><td>6 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>20 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>80℃</td><td>20 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Ito, Sakai</p> | ||
+ | <p>HLA family XbaⅠ & SpeⅠ (Digestion product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>40 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <h4>Gel Extract</h4> | ||
+ | <p>Ito, Sakai</p> | ||
+ | <p>HLA family XbaⅠ & SpeⅠ (Digestion product) | ||
+ | <br>FastGene<sup>TM</sup> Gel Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h2 id="september">September</h2> | ||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/09/01</h3> | ||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <h4>Gel Extract</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_B0032, BBa_B0033, BBa_B0034, BBa_B0015, BBa_I0500 | ||
<br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
<br>DNA extraction from gel</p> | <br>DNA extraction from gel</p> | ||
<!-- Gel Extract END --> | <!-- Gel Extract END --> | ||
+ | <!-- Mini-prep --> | ||
+ | <h4>Mini-prep</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 on pSB1C3, BBa_I0500 on pSB1C3 | ||
+ | <br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>standard protocol</p> | ||
+ | <!-- Mini-prep END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 on pSB1C3 (Dephosphorylated product), BBa_R0010 - BBa_B0034 on pSB1C3 (Gel extract product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>100 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Fujita, Nishimura</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 on pSB1C3 / XbaⅠ - Thanatin - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - BBa_B0034 on pSB1C3</td><td>9.5 µL</td></tr> | ||
+ | <tr><td>XbaⅠ - Thanatin - SpeⅠ</td><td>0.5 µL</td></tr> | ||
+ | <tr><td>Mighty Mix</td><td>10 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>20 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>16℃</td><td>30 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Fujita</p> | ||
+ | <p>Ag43 on pSB1C3 / BamHⅠ - Thanatin - BglⅡ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - BBa_B0034 on pSB1C3</td><td>9.5 µL</td></tr> | ||
+ | <tr><td>BamHⅠ - Thanatin - BglⅡ</td><td>0.5 µL</td></tr> | ||
+ | <tr><td>Mighty Mix</td><td>10 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>20 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>16℃</td><td>30 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Fujita</p> | ||
+ | <p>Thanatin - Ag43 on pSB1C3</p> | ||
+ | <ol> | ||
+ | <li>Added 2 µL of NaOAc, 1.5 µL of glycogen and 60 µL of 100% ethanol.</li> | ||
+ | <li>Left it at -80℃ for 1 hr.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 15 min at 4℃.</li> | ||
+ | <li>Removed supernatant and added 100 µL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 10 min at 4℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 10 µL of TE.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
+ | |||
+ | <!-- Transformaion(プレ培養あり) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Nishimura, Toyooka</p> | ||
+ | <p>BBa_I0500 - BBa_B0033 on pSB1C3, </p> | ||
+ | <ol> | ||
+ | <li>Added 5 µL of BBa_B0033 on pSB1C3, BBa_R0040, BBa_I0500 BBa_B0032 on pSB1C3, BBa_I0500 BBa_B0033 on pSB1C3 to 50 µL of thawed competent cells (DH5α) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 200 µL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 300 µL of the culture onto plate with LBC.</li> | ||
+ | <li>Incubated the plate at 37℃ for 16 hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
<!-- Digestion --> | <!-- Digestion --> | ||
<h4>Digestion</h4> | <h4>Digestion</h4> | ||
− | <p> | + | <p>Nishimura, Onoda</p> |
− | <p> | + | <p>HLA, HLZ, BLA, BLZ, BBa_B0030</p> |
<table> | <table> | ||
<tr><th>Reagent</th><th>Volume</th></tr> | <tr><th>Reagent</th><th>Volume</th></tr> | ||
− | <tr><td> | + | <tr><td>HLA, HLZ, BLA, BLZ, BBa_B0030</td><td>10 µL</td></tr> |
− | <tr><td>DW</td><td>5 μL</td></tr> | + | <tr><td>SpeⅠ</td><td>1 µL</td></tr> |
− | <tr><td> | + | <tr><td>XbaⅠ</td><td>1 µL</td></tr> |
− | <tr><td> | + | <tr><td>10 × M Buffer</td><td>2 µL</td></tr> |
− | <tr><td> | + | <tr><td>DW</td><td>6 µL</td></tr> |
+ | <tr><td><b>Total</b></td><td><b>20 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>60℃</td><td>15 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>HLA, HLZ, BLA, BLZ</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>100 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <h4>Gel Extract</h4> | ||
+ | <p>Nishimura, Sakai, Ito, Kusumi</p> | ||
+ | <p>HLA, HLZ, BLA, BLZ | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Fujita, Sakai, Nishimura</p> | ||
+ | <p>BBa_B0015 on pSB1C3 / HLA, BLA, BLZ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_B0015 on pSB1C3</td><td>10 µL</td></tr> | ||
+ | <tr><td>HLA , BLA, BLZ</td><td>30 µL</td></tr> | ||
+ | <tr><td>T4 Ligase</td><td>4.5 µL</td></tr> | ||
+ | <tr><td>10 × T4 DNA Ligase Buffer</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>0.5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>16℃</td><td>30 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Onoda, Nishimura, Fujita, Sakai</p> | ||
+ | <p>HLZ / BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_B0015 on pSB1C3</td><td>10 µL</td></tr> | ||
+ | <tr><td>HLZ</td><td>20 µL</td></tr> | ||
+ | <tr><td>T4 Ligase</td><td>3.5 µL</td></tr> | ||
+ | <tr><td>10 × T4 DNA Ligase Buffer</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>1.5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>16℃</td><td>30 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Sakai</p> | ||
+ | <p>HLA, HLZ, BLA, BLZ </p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>50 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Sakai</p> | ||
+ | <p> BBa_R0010 - BBa_B0034 on pSB1C3 / XbaⅠ - Thanatin - SpeⅠ (Digestion product) </p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0100 - BBa_B0034 on pSB1C3</td><td>15 µL</td></tr> | ||
+ | <tr><td>XbaⅠ - Thanatin - SpeⅠ</td><td>1.0 µL</td></tr> | ||
+ | <tr><td>T4 Ligase</td><td>1.6 µL</td></tr> | ||
+ | <tr><td>10 X T4 DNA Ligase Buffer</td><td>2.0 µL</td></tr> | ||
+ | <tr><td>DW</td><td>0.4 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>20 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>16℃</td><td>30 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | <!-- Transformaion --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Sakai</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - XbaⅠ - Thanatin - SpeⅠ on pSB1C3</p> | ||
+ | <ol> | ||
+ | <li>Added 1.0 µL of BBa_R0010 - BBa_B0034 - XbaⅠ - Thanatin - SpeⅠ on pSB1C3 to 50 µL of thawed competent cells (DH5α) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 200 µL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 300 µL of the culture onto plate with LBC.</li> | ||
+ | <li>Incubated the plate at 37℃ for 2 hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion END --> | ||
+ | |||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Ono</p> | ||
+ | <p>ABF-2, BLA, Thanatin, 10 × His tag - TEV - Thanatin, BLZ, HLZ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>ABF-2, BLA, Thanatin, 10 × His tag - TEV - Thanatin, BLZ, HLZ</td><td>1 µL</td></tr> | ||
+ | <tr><td>EX - F - Universal 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>PS - R 10 µM</td><td>1 µL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo </td><td>5 µL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 µL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 µL</td></tr> | ||
+ | <tr><td>DW</td><td>33 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>30 sec</td><td>Annealing / Elongation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <h3>2015/09/02</h3> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <h4>Gel Extract</h4> | ||
+ | <p>Mimata</p> | ||
+ | <p>EcoRⅠ - BBa_B0032 - XbaⅠ, EcoRⅠ - BBa_B0033 - XbaⅠ, EcoRⅠ - BBa_B0034 - XbaⅠ, SpeⅠ - BBa_B0015 - PstⅠ, EcoRⅠ - BBa_I0500 - SpeⅠ | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | <!-- Transformaion(プレ培養あり) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>HLA, BLA, HLZ, BLZ</p> | ||
+ | <ol> | ||
+ | <li>Added 1 µL of HLA, BLA, HLZ, BLZ to 10 µL of thawed competent cells (DH5α) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 200 µL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 300 µL of the culture onto plate with LBC.</li> | ||
+ | <li>Incubated the plate at 37℃ for 16 hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Nishimura, Ono, Onoda, Mimata</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - Thanatin</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>57℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Nishimura, Ono, Onoda, Mimata</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - Thanatin</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>SpeⅠ - Thanatin - Rv 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>57℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Nishimura, Ono, Onoda, Mimata</p> | ||
+ | <p>Ag43 - Thanatin</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>AGSP - BamHⅠ - Spindorin 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>BglⅡ - D - Thanatin - Rv 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>65℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Nishimura, Ono, Onoda, Mimata</p> | ||
+ | <p>Ag43 - Thanatin</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>AGSP - BamHⅠ - Spindorin 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>Ag43 - bunit - Rv 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>65℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Nishimura, Ono, Onoda, Mimata</p> | ||
+ | <p>BBa_B0031 on pSB1A2</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>57℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimura, Ono, Onoda</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - Thanatin (colony PCR product), Ag43 Thanatin (colony PCR product), BBa_B0031 on pSB1C3(colony PCR product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>50 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimura, Ono, Mimata</p> | ||
+ | <p>BBa_I0500</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>50 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | |||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Nisimura, Ono, Mimata</p> | ||
+ | <p>BLZ, HLZ, ABF-2</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BLZ, HLZ, ABF-2</td><td>30 µL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>31 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>60 min</td><td>Digestion</tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | |||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimura, Ono, Mimata</p> | ||
+ | <p>BLZ, HLZ, ABF-2,</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>100 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <h4>Gel Extract</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>BLZ, HLZ, ABF-2 | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | |||
+ | <!-- Transformaion(プレ培養あり) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Mimata</p> | ||
+ | <p>HLA on pSB1C3, HLZ on pSB1C3, BLA on pSB1C3, BLZ on pSB1C3, BBa_B0015 on pSB1C3</p> | ||
+ | <ol> | ||
+ | <li>Added 1 µL of HLA on pSB1C3, HLZ on pSB1C3, BLA on pSB1C3, BLZ on pSB1C3, BBa_B0015 on pSB1C3 to 50 µL of thawed competent cells (DH5α) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 2000 µL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 300 µL of the culture onto plate with LBC.</li> | ||
+ | <li>Incubated the plate at 37℃ for 16 hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
+ | |||
+ | |||
+ | <h3>2015/09/03</h3> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_B0015 on pSB1C3 / HLZ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_B0015 on pSB1C3</td><td>6 µL</td></tr> | ||
+ | <tr><td>HLZ</td><td>8 µL</td></tr> | ||
+ | <tr><td>Mighty Mix</td><td>14 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>28 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>16℃</td><td>30 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_B0015 on pSB1C3 / HLA, BLA, BLZ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_B0015 on pSB1C3</td><td>6 µL</td></tr> | ||
+ | <tr><td>HLA, BLA, BLZ</td><td>14 µL</td></tr> | ||
+ | <tr><td>Mighty Mix</td><td>20 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>40 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>16℃</td><td>30 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | <!-- Dephosphorylation --> | ||
+ | <h4>Dephosphorylation</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_B0015 on pSB1C3</td><td>40 µL</td></tr> | ||
+ | <tr><td>Antarctic Phosphatase</td><td>4 µL</td></tr> | ||
+ | <tr><td>Antarctic Phosphatase Buffer</td><td>8 µL</td></tr> | ||
+ | <tr><td>DW</td><td>28 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>80 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Dephosphorylation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>30 min</td><td>Dephosphorylation</td></tr> | ||
+ | <tr><td>2</td><td>65℃</td><td>10 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Dephosphorylation END --> | ||
+ | |||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Nishimura, Ono, Fujita</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - Thanatin</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>57℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Nishimura, Ono, Fujita</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - Thanatin</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>SpeⅠ - Thanatin - Rv 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>57℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Nishimura, Ono, Fujita</p> | ||
+ | <p>Ag43 - Thanatin</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>AGSP - BamHⅠ - Spindorin 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>BglⅡ - D - Thanatin - Rv 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>65℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Nishimura, Ono, Fujita</p> | ||
+ | <p>Ag43 - Thanatin</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>AGSP - BamHⅠ - Spindorin 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>Ag43 - bunit - Rv 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>65℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Nishimura, Ono, Fujita</p> | ||
+ | <p>BBa_B0031 on pSB1A2</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>57℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimura, Ono, Fujita</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - Thanatin (colony PCR product), Ag43 Thanatin (colony PCR product), BBa_B0031 on pSB1C3(colony PCR product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>50 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Transformaion(プレ培養あり) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Nishimura, Fujita</p> | ||
+ | <p>HLA, BLA, HLZ, BLZ</p> | ||
+ | <ol> | ||
+ | <li>Added 40 µL of HLA, BLA, HLZ, BLZ to 1 µL of thawed competent cells (DH5α) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 200 µL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 300 µL of the culture onto plate with LBC.</li> | ||
+ | <li>Incubated the plate at 37℃ for 16 hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
+ | |||
+ | <!-- Mini-prep --> | ||
+ | <h4>Mini-prep</h4> | ||
+ | <p>Ono, Fujita</p> | ||
+ | <p>Ag43 - Thanatin on pSB1C3 | ||
+ | <br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>standard protocol</p> | ||
+ | <!-- Mini-prep END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Onoda</p> | ||
+ | <p>EcoRⅠ - BBa_R0010 - SpeⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>EcoRⅠ - BBa_R0010 - SpeⅠ</td><td>28.5 µL</td></tr> | ||
+ | <tr><td>EcoRⅠ</td><td>1.5 µL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>1.5 µL</td></tr> | ||
+ | <tr><td>10 × H Buffer</td><td>3.5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>35 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <h3>2015/09/04</h3> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>ABF-2, BLA, Thanatin, 10 × His tag - TEV - Thanatin, BLZ, HLZ, ABF-2</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>2%</td><td>100 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | |||
+ | <!-- Mini-prep --> | ||
+ | <h4>Mini-prep</h4> | ||
+ | <p>Nishimura, Ono</p> | ||
+ | <p>Ag43 - thanatin | ||
+ | <br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>standard protocol</p> | ||
+ | <!-- Mini-prep END --> | ||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <h4>Sequencing</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>thanatin - Ag43</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Ag43 thanatin</td><td>1 µL</td></tr> | ||
+ | <tr><td>BBa_I0500 - Fw, Ag43 - Rv</td><td>1.5 µL</td></tr> | ||
+ | <tr><td>BigDye Terminator</td><td>1 µL</td></tr> | ||
+ | <tr><td>5 x Sequencing Buffer</td><td>1.5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Sequencing</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>96℃</td><td>10 sec</td><td>Denaturation</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>50℃</td><td>5 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <h4>Sequencing</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_I0500 - BBa_B0032, BBa_I0500 - BBa_B0033, BBa_I0500 - BBa_B0034</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>100UP - EX - F</td><td>1 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R</td><td>1.5 µL</td></tr> | ||
+ | <tr><td>Ready Reaction Premix</td><td>1 µL</td></tr> | ||
+ | <tr><td>5 x Sequencing Buffer</td><td>1.5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Sequencing</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>96℃</td><td>10 sec</td><td>Denaturation</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>50℃</td><td>5 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Nishimura, Fujita, Mimata</p> | ||
+ | <p>Ag43 - thanatin, BBa_I0500 - BBa_B0032, BBa_I0500 - BBa_B0033, BBa_I0500 - BBa_B0034</p> | ||
+ | <ol> | ||
+ | <li>Added 1 µL of NaOAc, 1.5 µL of glycogen and 30 µL of 100% ethanol.</li> | ||
+ | <li>Left it at -80℃ for 10 min.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 15 min at 4℃.</li> | ||
+ | <li>Removed supernatant and added 100 µL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 10 min at 4℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 10 µL of HiDi.</li> | ||
+ | |||
+ | <!-- Transformaion(プレ培養あり) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Fujita, Mimata</p> | ||
+ | <p>BLZ - BBa_B0015, HLZ - BBa_B0015, ABF-2 - BBa_B0015, BBa_R0010 - BBa_B0034 - 10 x His tag - TEV - Thanatin - BBa_B0015, BBa_R0010 - BBa_B0034 - Thanatin - BBa_B0015, BBa_R0010 - BBa_B0034 - ABF-2 - BBa_B0015, BBa_R0010 - BBa_B0034 - BLA - BBa_B0015</p> | ||
+ | <ol> | ||
+ | <li>Added 5 µL of BLZ - BBa_B0015, HLZ - BBa_B0015, ABF-2 - BBa_B0015, BBa_R0010 - BBa_B0034 - 10 x His tag - TEV - Thanatin - BBa_B0015, BBa_R0010 - BBa_B0034 - Thanatin - BBa_B0015, BBa_R0010 - BBa_B0034 - ABF-2 - BBa_B0015, BBa_R0010 - BBa_B0034 - BLA - BBa_B0015 to 50 µL of thawed competent cells (DH5a) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 200 µL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 300 µL of the culture onto plate with LBC.</li> | ||
+ | <li>Incubated the plate at 37℃ for 18 hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Fujita, Mimata</p> | ||
+ | <p>pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>pSB1C3</td><td>5 µL</td></tr> | ||
+ | <tr><td>EcoRⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>PstⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 × H Buffer</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>38 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>80℃</td><td>20 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Fujita, Mimata</p> | ||
+ | <p>pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>pSB1C3</td><td>5 µL</td></tr> | ||
+ | <tr><td>XbaⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>CutSmart Buffer</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>38 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>80℃</td><td>20 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Fujita, Mimata</p> | ||
+ | <p>ABF-2, Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 - Suffix, 10 x His tag - TEV - Thanatin</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>ABF-2, Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 - Suffix, 10 x His tag - TEV - Thanatin</td><td>20 µL</td></tr> | ||
+ | <tr><td>EcoRⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>PstⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x H Buffer</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>23 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>80℃</td><td>20 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | |||
+ | <p>Fujita, Mimata</p> | ||
+ | <p>BLA</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BLA</td><td>20 µL</td></tr> | ||
+ | <tr><td>XbaⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>PstⅠ</td><td>1 µL</td></tr> | ||
+ | |||
+ | <tr><td>CutSmart Buffer</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>23 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>80℃</td><td>20 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Fujita, Mimata</p> | ||
+ | <p>BLZ, HLZ, ABF-2</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BLZ, HLZ, ABF-2</td><td>20 µL</td></tr> | ||
+ | <tr><td>EcoRⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>1 µL</td></tr> | ||
+ | <tr><td>10 x H Buffer</td><td>5 µL</td></tr> | ||
+ | <tr><td>DW</td><td>23 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>80℃</td><td>20 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | |||
+ | <!-- Transformaion(プレ培養あり) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>BLZ - BBa_B0015 on pSB1C3, | ||
+ | HLZ - BBa_B0015 on pSB1C3, ABF-2 - BBa_B0015 on pSB1C3, | ||
+ | BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 x His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, | ||
+ | BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3, | ||
+ | BBa_R0010 - BBa_B0034 - ABF-2 - BBa_B0015 on pSB1C3, | ||
+ | BBa_I0500 - BBa_B0034 - BLA - BBa_B0015 on pSB1C3</p> | ||
+ | <ol> | ||
+ | <li>Added 5 μL of BLZ - BBa_B0015 on pSB1C3, | ||
+ | HLZ - BBa_B0015 on pSB1C3, ABF-2 - BBa_B0015 on pSB1C3, | ||
+ | BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 x His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, | ||
+ | BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3, | ||
+ | BBa_R0010 - BBa_B0034 - ABF-2 - BBa_B0015 on pSB1C3, | ||
+ | BBa_I0500 - BBa_B0034 - BLA - BBa_B0015 on pSB1C3 to 50 μL of thawed competent cells (DH5a) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 200 μL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 300 μL of the culture onto plate with LBCp.</li> | ||
+ | <li>Incubated the plate at 37℃ for 2 hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
+ | |||
+ | |||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 x His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, | ||
+ | BBa_R0010 - BBa_B0034 - XbaⅠ/SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>XbaⅠ - Thanatin - F 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>59.3℃</td><td>30 sec</td><td>Annealing</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>90 sec</td><td>Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>HLZ - BBa_B0015 on pSB1C3, nothing(other negative control)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>XbaⅠ - HLZ - F 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>59.3℃</td><td>30 sec</td><td>Annealing</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>90 sec</td><td>Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>BLA - BBa_B0015 on pSB1C3, nothing(other negative control)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>XbaⅠ - BLA - F 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>56.2℃</td><td>30 sec</td><td>Annealing</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>90 sec</td><td>Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>BBa_B0031 on pSB1A2</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>56.2℃</td><td>30 sec</td><td>Annealing</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>90 sec</td><td>Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - Thanatin - BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>61.6℃</td><td>30 sec</td><td>Annealing</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>90 sec</td><td>Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | |||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - 10 x His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, | ||
+ | nothing(other negative control)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>61.6℃</td><td>30 sec</td><td>Annealing</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>90 sec</td><td>Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>SpeⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - ABF-2 - BBa_B0015 - PstⅠ, | ||
+ | EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 - PstⅠ, | ||
+ | EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 x His tag - TEV - Thanatin - BBa_B0015 - PstⅠ, | ||
+ | pSB1C3 EcoRⅠ & PstⅠ(Digestion product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>40 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - XbaⅠ / PstⅠ scar - BLA - BBa_B0015 - PstⅠ (Digestion product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>40 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>pSB1C3 XbaⅠ & SpeⅠ(Digestion product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>40 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>EcoRⅠ - standardized BLZ - SpeⅠ, EcoRⅠ - standardized HLZ - SpeⅠ, | ||
+ | EcoRⅠ - codon optimized ABF-2 - SpeⅠ (Digestion product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>40 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p> | ||
+ | EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - ABF-2 - BBa_B0015 - PstⅠ, | ||
+ | EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ - Thanatin - BBa_B0015 - SpeⅠ, | ||
+ | EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 x His tag - TEV - Thanatin - BBa_B0015 - SpeⅠ, pSB1C3 (Digestion product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>40 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>pSB1C3 XbaⅠ & SpeⅠ(Digestion product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>40 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>XbaⅠ - BBa_B0034 - XbaⅠ / SpeⅠ scar - BLA - BBa_B0015 - PstⅠ XbaⅠ & PstⅠ (Digestion product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>40 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>EcoRⅠ - BLZ - SpeⅠ, EcoRⅠ - HLZ - SpeⅠ, | ||
+ | EcoRⅠ - ABF-2 - SpeⅠ (Digestion product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>40 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>BBa_I0500 - BBa_B0034 on pSB1C3, BBa_I0500 - B0033 on pSB1C3, BBa_I0500 - B0032 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_I0500 - BBa_B0034 on pSB1C3, BBa_I0500 - B0033 on pSB1C3, BBa_I0500 - B0032 on pSB1C3</td><td>20 μL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>2 μL</td></tr> | ||
+ | <tr><td>PstⅠ</td><td>2 μL</td></tr> | ||
+ | <tr><td>10 x H Buffer</td><td>3 μL</td></tr> | ||
+ | <tr><td>DW</td><td>3 μL</td></tr> | ||
<tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | <tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | ||
</table> | </table> | ||
− | <p> | + | <p>Digestion</p> |
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>60℃</td><td>15 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>Ag43 - Thanatin (1mer)</p> | ||
<table> | <table> | ||
<tr><th>Reagent</th><th>Volume</th></tr> | <tr><th>Reagent</th><th>Volume</th></tr> | ||
− | <tr><td> | + | <tr><td>Ag43 - Thanatin (1mer)</td><td>20 μL</td></tr> |
− | + | <tr><td>BglⅡ</td><td>2 μL</td></tr> | |
− | <tr><td> | + | <tr><td>CutSmart Buffer</td><td>3 μL</td></tr> |
− | <tr><td> | + | <tr><td>DW</td><td>5 μL</td></tr> |
− | <tr><td> | + | |
<tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | <tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | ||
</table> | </table> | ||
Line 324: | Line 6,088: | ||
</table> | </table> | ||
<!-- Digestion END --> | <!-- Digestion END --> | ||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/09/05</h3> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Fujita, Mimata</p> | ||
+ | <p>BLZ - BBa_B0015 on pSB1C3, HLZ - BBa_B0015 on pSB1C3, ABF-2 - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - 10 x His tag - TEV - Thanatin - BBa_B0015, BBa_R0010 - BBa_B0034 - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - ABF-2 - BBa_B0015 on pSB1C3, BBa_I0500 - BBa_B0034 - BLA - BBa_B0015 on pSB1C3 | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 µM</td><td>0.4 µL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5.0 µL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>57.6℃</td><td>30 sec</td><td>Annealing</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>210 sec</td><td>Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Fujita, Mimata</p> | ||
+ | <p><p>BLZ - BBa_B0015 on pSB1C3, HLZ - BBa_B0015 on pSB1C3, ABF-2 - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - 10 x His tag - TEV - Thanatin - BBa_B0015, BBa_R0010 - BBa_B0034 - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - ABF-2 - BBa_B0015 on pSB1C3, BBa_I0500 - BBa_B0034 - BLA - BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td><span class="kinyuu"100 V</td><td>30 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Mini-prep --> | ||
+ | <h4>Mini-prep</h4> | ||
+ | <p>Mimata</p> | ||
+ | <p>BLZ - BBa_B0015 on pSB1C3, HLZ - BBa_B0015 on pSB1C3, ABF-2 - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - 10 x His tag - TEV - Thanatin - BBa_B0015, BBa_R0010 - BBa_B0034 - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - ABF-2 - BBa_B0015 on pSB1C3, BBa_I0500 - BBa_B0034 - BLA - BBa_B0015 on pSB1C3 | ||
+ | <br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>standard protocol</p> | ||
+ | <!-- Mini-prep END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Mimata</p> | ||
+ | <p>pSB1C3 / Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 - Suffix</p> | ||
+ | <table> | ||
+ | <tbody><tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>pSB1C3</td><td>2.5 µL</td></tr> | ||
+ | <tr><td>Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 - Suffix</td><td>40 µL</td></tr> | ||
+ | <tr><td>Mighty Mix</td><td>42.5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>85 µL</b></td></tr> | ||
+ | </tbody></table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tbody><tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>16℃</td><td>30 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>2</td><td>70℃</td><td>10 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </tbody></table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Mimata</p> | ||
+ | <p>pSB1C3 / Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015</p> | ||
+ | <table> | ||
+ | <tbody><tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>pSB1C3</td><td>2.5 µL</td></tr> | ||
+ | <tr><td>Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015</td><td>40 µL</td></tr> | ||
+ | <tr><td>Mighty Mix</td><td>42.5 µL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>85 µL</b></td></tr> | ||
+ | </tbody></table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tbody><tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>16℃</td><td>30 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>2</td><td>70℃</td><td>10 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </tbody></table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Mimata</p> | ||
+ | <p>Thanatin on pSB1C3, TEV - Thanatin on pSB1C3</p> | ||
+ | <table> | ||
+ | <tbody><tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </tbody></table> | ||
+ | <!-- Electrophoresis END --> | ||
<!-- Digestion --> | <!-- Digestion --> | ||
<h4>Digestion</h4> | <h4>Digestion</h4> | ||
− | <p> | + | <p>Sakai</p> |
− | <p> | + | <p>BBa_I0500 - BBa_B0034, BBa_I0500 - BBa_B0033, BBa_I0500 - BBa_B0032</p> |
<table> | <table> | ||
<tr><th>Reagent</th><th>Volume</th></tr> | <tr><th>Reagent</th><th>Volume</th></tr> | ||
− | <tr><td> | + | <tr><td>BBa_I0500 - BBa_B0034, BBa_I0500 - BBa_B0033, BBa_I0500 - BBa_B0032</td><td>20 µL</td></tr> |
− | + | <tr><td>PstⅠ</td><td>1.5 µL</td></tr> | |
− | <tr><td> | + | <tr><td>SpeⅠ</td><td>1.5 µL</td></tr> |
− | <tr><td> | + | <tr><td>10 x H Buffer</td><td>3 µL</td></tr> |
− | + | <tr><td>DW</td><td>4 µL</td></tr> | |
− | <tr><td><b>Total</b></td><td><b> | + | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> |
</table> | </table> | ||
− | <p> | + | <p>Digestion</p> |
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>80℃</td><td>20 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Sakai</p> | ||
+ | <p>Ag43 - Thanatin</p> | ||
<table> | <table> | ||
<tr><th>Reagent</th><th>Volume</th></tr> | <tr><th>Reagent</th><th>Volume</th></tr> | ||
− | <tr><td> | + | <tr><td>Ag43 - Thanatin</td><td>20 µL</td></tr> |
− | + | <tr><td>BglⅡ</td><td>2.0 µL</td></tr> | |
− | <tr><td> | + | <tr><td>CutSmart Buffer</td><td>3 µL</td></tr> |
− | <tr><td> | + | <tr><td>DW</td><td>5 µL</td></tr> |
− | + | <tr><td><b>Total</b></td><td><b>30 µL</b></td></tr> | |
− | <tr><td><b>Total</b></td><td><b> | + | |
</table> | </table> | ||
− | <p> | + | <p>Digestion</p> |
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>80℃</td><td>20 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/09/06</h3> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Fujita</p> | ||
+ | <p>BLZ - BBa_B0015 on pSB1C3, HLZ - BBa_B0015 on pSB1C3, ABF-2 - BBa_B0015 on pSB1C3, BBa_I0500 - BBa_B0034 - BLA - BBa_B0015 on pSB1C3</p> | ||
<table> | <table> | ||
<tr><th>Reagent</th><th>Volume</th></tr> | <tr><th>Reagent</th><th>Volume</th></tr> | ||
− | <tr><td> | + | <tr><td>Single Colony</td><td>-</td></tr> |
− | + | <tr><td>100UP - EX - F 10 µM</td><td>0.4 µL</td></tr> | |
− | <tr><td> | + | <tr><td>200DN - PS - R 10 µM</td><td>0.4 µL</td></tr> |
− | <tr><td> | + | <tr><td>KAPA Taq</td><td>5.0 µL</td></tr> |
− | <tr><td> | + | <tr><td>DW</td><td>4.2 µL</td></tr> |
− | <tr><td><b>Total</b></td><td><b> | + | <tr><td><b>Total</b></td><td><b>10 µL</b></td></tr> |
</table> | </table> | ||
− | <p> | + | <p>3 Step Cycle (Tm value ≤ 63℃)</p> |
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>57.6℃</td><td>30 sec</td><td>Annealing</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>210 sec</td><td>Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Fujita</p> | ||
+ | <p>BLZ - BBa_B0015 on pSB1C3, HLZ - BBa_B0015 on pSB1C3, ABF-2 - BBa_B0015 on pSB1C3, BBa_I0500 - BBa_B0034 - BLA - BBa_B0015 on pSB1C3 (Colony PCR product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>30 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | |||
+ | <h3>2015/09/07</h3> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>Ag43 - Thanatin -BglⅡ (Dephosphorylation and Digestion product, Mini-prep product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>60 min</td><td>1/2x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <h4>Sequencing</h4> | ||
+ | <p>Nishimura、Fujita</p> | ||
+ | <p>Ag43 Thanatin</p> | ||
<table> | <table> | ||
<tr><th>Reagent</th><th>Volume</th></tr> | <tr><th>Reagent</th><th>Volume</th></tr> | ||
− | <tr><td> | + | <tr><td>Ag43 Thanatin</td><td>1 μL</td></tr> |
− | + | <tr><td>pBAD Fw / Ag43-Rv</td><td>1.5 μL</td></tr> | |
− | <tr><td> | + | <tr><td>BigDye Terminator</td><td>1 μL</td></tr> |
− | <tr><td> | + | <tr><td>5x Sequencing Buffer</td><td>1.5 μL</td></tr> |
− | <tr><td> | + | <tr><td>DW</td><td>5 μL</td></tr> |
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Sequencing</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>96℃</td><td>10 sec</td><td>Denaturation</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>50℃</td><td>5 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <h4>Sequencing</h4> | ||
+ | <p>Nishimura, Fujita</p> | ||
+ | <p>pBAD_B0031</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>pBAD_B0031</td><td>1 μL</td></tr> | ||
+ | <tr><td>100UP - EX - F / 200DN - PS - R</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>BigDye Terminator</td><td>1 μL</td></tr> | ||
+ | <tr><td>5x Sequencing Buffer</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Sequencing</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>96℃</td><td>10 sec</td><td>Denaturation</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>50℃</td><td>5 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>Ag43 thanatin on pSB1C3, pBAD_B0031</p> | ||
+ | <ol> | ||
+ | <li>Added 2 μL of NaOAc, 1.5 μL of glycogen and 50 μL of 100% ethanol.</li> | ||
+ | <li>Left it at 24℃ for 15 min.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 15 min at 24℃.</li> | ||
+ | <li>Removed supernatant and added 100 μL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 10 min at 24℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 11 μL of Hidi.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
+ | |||
+ | <!-- Liquid Culture --> | ||
+ | <h4>Liquid Culture</h4> | ||
+ | <p>Mimata, Nishimura</p> | ||
+ | <p>Ag43 - Thanatin on pSB1C3, BBa_I0500 - BBa_B0032 on pSB1C3, BBa_I0500 - BBa_B0033 on pSB1C3, BBa_I0500 - BBa_B0034 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tbody><tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>LBC</td><td>2000 μL</td></tr> | ||
+ | <tr><td>Chloramphenicol</td><td>2 μL</td></tr> | ||
+ | </tbody></table> | ||
+ | <p>Cultured for 16 hours.</p> | ||
+ | <!-- Liquid Culture END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Ono</p> | ||
+ | <p>Ag43 - Thanatin pSB1C3 (Mini-prep product)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Ag43 - Thanatin pSB1C3 (Mini-prep product)</td><td>20 μL</td></tr> | ||
+ | <tr><td>BglⅡ</td><td>1 μL</td></tr> | ||
+ | <tr><td>DW</td><td>6 μL</td></tr> | ||
+ | <tr><td>10 × H Buffer</td><td>3 μL</td></tr> | ||
<tr><td><b>Total</b></td><td><b>20 μL</b></td></tr> | <tr><td><b>Total</b></td><td><b>20 μL</b></td></tr> | ||
</table> | </table> | ||
<p>Digestion</p> | <p>Digestion</p> | ||
<table> | <table> | ||
− | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | + | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> |
<tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
− | <tr><td>2</td><td> | + | <tr><td>2</td><td>70℃</td><td>15 min</td><td>Inactivation</td></tr> |
<tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
</table> | </table> | ||
<!-- Digestion END --> | <!-- Digestion END --> | ||
− | < | + | <!-- Electrophoresis --> |
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>Ag43 - Thanatin -BglⅡ (Digestion product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>60 min</td><td>1/2x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Ono, Sakai</p> | ||
+ | <p>Ag43 - Thanatin on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>Agsp-BamH1-Spidroin 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>Ag43 - bunit - R 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>65℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Ono, Sakai</p> | ||
+ | <p>Ag43 - Thanatin on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>Agsp-BamH1-Spidroin 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>BglⅡ - D - Thanatin - R 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>65℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Ono, Sakai</p> | ||
+ | <p>BBa_B0031 on pSB1C3 (as a positive control)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>57℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
<!-- Electrophoresis --> | <!-- Electrophoresis --> | ||
<h4>Electrophoresis</h4> | <h4>Electrophoresis</h4> | ||
− | <p> | + | <p>Ono</p> |
− | <p> | + | <p>Ag43 - Thanatin on pSB1C3 (Colony PCR 3STEP product), BBa_B0031 on pSB1C3 (as a positive control)</p> |
<table> | <table> | ||
<tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
− | <tr><td>1%</td><td>100 V</td><td> | + | <tr><td>1%</td><td>100 V</td><td>40 min</td><td>1/2x TBE</td></tr> |
</table> | </table> | ||
<!-- Electrophoresis END --> | <!-- Electrophoresis END --> | ||
− | <!-- | + | <!-- Transformaion--> |
− | <h4> | + | <h4>Transformation</h4> |
− | <p> | + | <p>Sakai</p> |
− | <p> | + | <p>Ag43 - Thanatin on pSB1C3, oripAMβ1 - repE - Erythromycin resistant gene - P<sub>casei</sub> - RBS<sub>casei</sub> - Sec signal sequence on pSB1C3</p> |
− | < | + | <ol> |
− | < | + | <li>Added 1.0 μL of Ag43-Thanatin on pSB1C3, oripAMβ1 - repE - Erythromycin resistant gene - P<sub>casei</sub> - RBS<sub>casei</sub> - Sec signal sequence on pSB1C3 to 50 μL of thawed competent cells (JM1O9) on ice.</li> |
− | <!-- | + | <li>Incubated on ice for 30 min.</li> |
+ | <li>Heat-shocked for 60 sec at 42℃.</li> | ||
+ | <li>Added 200 μL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 300 μL of the culture onto plate with LBChloramphenicol.</li> | ||
+ | <li>Incubated the plate at 37℃ for 2 hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Onoda</p> | ||
+ | <p>HLA, BLA, HLZ, BLZ(going through GP3 solution)</p> | ||
+ | <ol> | ||
+ | <li>Added 25 μL of NaOAc, 1.5 μL of glycogen and 750 μL of 100% ethanol.</li> | ||
+ | <li>Left it at -80℃ for 1 hr.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 15 min at 4℃.</li> | ||
+ | <li>Removed supernatant and added 100 μL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 10 min at 4℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 10 μL of TE.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
<!-- Electrophoresis --> | <!-- Electrophoresis --> | ||
<h4>Electrophoresis</h4> | <h4>Electrophoresis</h4> | ||
− | <p> | + | <p>Onoda</p> |
− | <p> | + | <p>HLA, BLA, HLZ, BLZ (Ethanol Precipitation)</p> |
<table> | <table> | ||
<tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
− | <tr><td>1%</td><td>100 V</td><td> | + | <tr><td>1%</td><td>100 V</td><td>40 min</td><td>1/2x TBE</td></tr> |
</table> | </table> | ||
<!-- Electrophoresis END --> | <!-- Electrophoresis END --> | ||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Onoda</p> | ||
+ | <p>HLA, HLZ, BLZ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>XbalⅠ - HLA - F, XbalⅠ - HLZ - F, XbalⅠ - BLZ - F 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>Kapa-Taq</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>61.5℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>60 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Onoda</p> | ||
+ | <p>BLA, BBa_B0031 (as a positive control)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>BalⅠ - BLA - F, 100UP - EX - F 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>Kapa-Taq</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>57℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>60 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Sakai</p> | ||
+ | <p>HLA - BBa_B0015, HLZ - BBa_B0015, BLA - BBa_B0015, BLZ - BBa_B0015</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>60 min</td><td>1/2x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Nishimura, Ono, Fujita</p> | ||
+ | <p>BBa_B0015 on pSB1C3 / BamHⅠ - Thanatin - BglⅡ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_B0015 on pSB1C3</td><td>10 μL</td></tr> | ||
+ | <tr><td>BamHⅠ - Thanatin - BglⅡ</td><td>1 μL</td></tr> | ||
+ | <tr><td>T4 Ligase</td><td>1 μL</td></tr> | ||
+ | <tr><td>10 × T4 Ligase</td><td>2 μL</td></tr> | ||
+ | <tr><td>DW</td><td>6 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>20 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>16℃</td><td>60 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/09/08</h3> | ||
+ | |||
+ | |||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>HLA, HLZ, BLZ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>XbalⅠ - HLA - F, XbalⅠ - HLZ - F, XbalⅠ - BLZ - F 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>Kapa-Taq</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>61.5℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>60 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BLA, BBa_B0031 (as a positive control)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>BalⅠ - BLA - F, 100UP - EX - F 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>Kapa-Taq</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>57℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>60 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Transformaion(プレ培養あり) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>Ag43 - Thanatin on pSB1C3 (Ligation product)</p> | ||
+ | <ol> | ||
+ | <li>Added 5 μL of Ag43 - Thanatin on pSB1C3 (Ligation product) to 50 μL of thawed competent cells (DH5α) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 200 μL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 300 μL of the culture onto plate with LBC.</li> | ||
+ | <li>Incubated the plate at 37℃ for 16 hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p></p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>50 min</td><td>1/2x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | →failed | ||
+ | |||
+ | <!-- Mini-prep --> | ||
+ | <h4>Mini-prep</h4> | ||
+ | <p>Fujita</p> | ||
+ | <p>BLZ - BBa_B0015, HLZ - BBa_B0015, ABF-2 - BBa_B0015, BBa_R0010 - BBa_B0034 - ABF-2-BBa_B0015, BBa_I0500 - BBa_B0034 - BLA - BBa_B0015 | ||
+ | <br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>standard protocol</p> | ||
+ | <!-- Mini-prep END --> | ||
+ | |||
+ | <!-- Liquid Culture --> | ||
+ | <h4>Liquid Culture</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>Ag43 - Thanatin on pSB1C3 into DH5α</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>LB</td><td>2000 μL</td></tr> | ||
+ | <tr><td>Chloramphenicol</td><td>2 μL</td></tr> | ||
+ | </table> | ||
+ | <p>Cultured for 16 hours.</p> | ||
+ | <!-- Liquid Culture END --> | ||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <h4>Sequencing</h4> | ||
+ | <p>Ito</p> | ||
+ | <p>Ag43 - Thanatin</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Ag43 - Thanatin</td><td>1 μL</td></tr> | ||
+ | <tr><td>BBa_I0500 - f2 / 200 - β domain - Ag43 - R</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>BigDye Terminator</td><td>1 μL</td></tr> | ||
+ | <tr><td>5 x Sequencing Buffer</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Sequencing</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>96℃</td><td>10 sec</td><td>Denaturation</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>50℃</td><td>5 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <h4>Sequencing</h4> | ||
+ | <p>Ito</p> | ||
+ | <p>ABF-2, BLZ - BBa_B0015, BBa_I0500 - BLA, BBa_R0010 - ABF-2, HLZ, BBa_I0500 on pSB1A2, BBa_I0500 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>ABF - 2</td><td>1 μL</td></tr> | ||
+ | <tr><td>100UP - EX - F / 200DN - PS - R</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>Ready Reaction Premix</td><td>1 μL</td></tr> | ||
+ | <tr><td>5 x Sequencing Buffer</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Sequencing</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>96℃</td><td>10 sec</td><td>Denaturation</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>50℃</td><td>5 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/09/09</h3> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 x His tag - TEV - Thanatin - BBa_B0015 - PstⅠ, | ||
+ | EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 - PstⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>57.6℃</td><td>30 sec</td><td>Annealing</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>150 sec</td><td>Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>ABF-2,BLZ - BBa_B0015, BBa_I0500, BBa_R0010 - ABF-2, HLZ, BBa_I0500, BBa_I0500</p> | ||
+ | <ol> | ||
+ | <li>Added 2 μL of NaOAc, 1.5 μL of glycogen and 50 μL of 100% ethanol.</li> | ||
+ | <li>Left it at 24℃ for 15min.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 15 min at 24℃.</li> | ||
+ | <li>Removed supernatant and added 100 μL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 10 min at 24℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 11 μL of Hidi.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
+ | |||
+ | <!-- Mini-prep --> | ||
+ | <h4>Mini-prep</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>Ag43 - Thanatin (Liquid culturing product) | ||
+ | <br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>standard protocol</p> | ||
+ | <!-- Mini-prep END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Ono</p> | ||
+ | <p>Ag43 - Thanatin (Mini-prep product)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Ag43 - Thanatin (Mini-prep product)</td><td>10 μL</td></tr> | ||
+ | <tr><td>BglⅡ</td><td>1 μL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>1 μL</td></tr> | ||
+ | <tr><td>10 × H Buffer</td><td>2 μL</td></tr> | ||
+ | <tr><td>DW</td><td>6 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>20 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>60 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td800℃</td><td>20 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
<!-- PCR 2STEP--> | <!-- PCR 2STEP--> | ||
<h4>PCR</h4> | <h4>PCR</h4> | ||
− | <p> | + | <p>Nishimura</p> |
− | <p> | + | <p>Ag43 - Thanatin (Mini-prep product) </p> |
<table> | <table> | ||
<tr><th>Reagent</th><th>Volume</th></tr> | <tr><th>Reagent</th><th>Volume</th></tr> | ||
− | <tr><td> | + | <tr><td>Ag43 - Thanatin (Mini-prep product) </td><td>1 μL</td></tr> |
− | <tr><td> | + | <tr><td>BamHⅠ - thanatin - F 10 μM</td><td>1 μL</td></tr> |
− | <tr><td> | + | <tr><td>200DN - PS - R 10 μM</td><td>1 μL</td></tr> |
<tr><td>KOD Plus NEO</td><td>1 μL</td></tr> | <tr><td>KOD Plus NEO</td><td>1 μL</td></tr> | ||
<tr><td>KOD Plus NEO 10x Buffer</td><td>5 μL</td></tr> | <tr><td>KOD Plus NEO 10x Buffer</td><td>5 μL</td></tr> | ||
Line 425: | Line 6,853: | ||
<tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
</table> | </table> | ||
− | <p> | + | <p>2 Step Cycle (Tm value ≥ 63℃)</p> |
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>120 sec</td><td>Annealing / Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>Ag43 - Thanatin (Digestion product, PCR 2STEP Product)</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>50 min</td><td>1/2x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <h4>Sequencing</h4> | ||
+ | <p>Nishimura, Ono</p> | ||
+ | <p>Ag43 - Thanatin (Mini-prep product)</p> | ||
<table> | <table> | ||
<tr><th>Reagent</th><th>Volume</th></tr> | <tr><th>Reagent</th><th>Volume</th></tr> | ||
− | <tr><td> | + | <tr><td>Ag43 - Thanatin (Mini-prep product)</td><td>1 μL</td></tr> |
− | <tr><td> | + | <tr><td>pbad - F / 200DN Ag43 - R</td><td>1.5 μL</td></tr> |
− | <tr><td> | + | <tr><td>Ready Reaction Premix</td><td>1 μL</td></tr> |
− | <tr><td>KOD Plus | + | <tr><td>BigDye Terminator</td><td>1.5 μL</td></tr> |
− | <tr><td>KOD Plus | + | <tr><td>DW</td><td>5 μL</td></tr> |
− | <tr><td>2 mM | + | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> |
+ | </table> | ||
+ | <p>Sequencing</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>96℃</td><td>10 sec</td><td>Denaturation</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>50℃</td><td>5 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Ono, Nishimura</p> | ||
+ | <p>Signal peptide - Thanatin - BglⅡ - β domain (Mini-prep product)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Signal peptide - Thanatin - BglⅡ - β domain (Mini-prep product)</td><td>1 μL</td></tr> | ||
+ | <tr><td>Agsp - BamHⅠ - Spidroin 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 μL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 μL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 μL</td></tr> | ||
<tr><td>25 mM MgSO<sub>4</sub></td><td>3 μL</td></tr> | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 μL</td></tr> | ||
<tr><td>DW</td><td>33 μL</td></tr> | <tr><td>DW</td><td>33 μL</td></tr> | ||
<tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
</table> | </table> | ||
− | <p> | + | <p>3 Step Cycle (Tm value ≤ 63℃)</p> |
<table> | <table> | ||
<tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
− | <tr><td>Start</td><td> | + | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> |
<tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
− | <tr><td>Cycle 2</td><td> | + | <tr><td>Cycle 2</td><td>65℃</td><td>30 sec</td><td>Annealing</td><td>30 cycle</td></tr> |
+ | <tr><td>Cycle 3</td><td>68℃</td><td>120 sec</td><td>Elongation</td><td>30 cycle</td></tr> | ||
<tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
</table> | </table> | ||
− | <!-- PCR | + | <!-- PCR 3STEP END --> |
− | < | + | <!-- PCR 3STEP--> |
+ | <h4>PCR</h4> | ||
+ | <p>Ono, Nishimura</p> | ||
+ | <p>Signal peptide - Thanatin - BglⅡ - β domain (Mini-prep product)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Signal peptide - Thanatin - BglⅡ - β domain (Mini-prep product)</td><td>1 μL</td></tr> | ||
+ | <tr><td>Ag43 - F4 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>200 β - domain Ag43 - R 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>KOD - FX - NEO</td><td>1 μL</td></tr> | ||
+ | <tr><td>10 × PCR Buffer for KOD -FX - NEO </td><td>25 μL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 μL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 μL</td></tr> | ||
+ | <tr><td>DW</td><td>13 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>20 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>15 sec</td><td>Annealing</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>180 sec</td><td>Elongation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- PCR Purification --> | ||
+ | <h4>PCR Purification</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p> | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>Purification of PCR products</p> | ||
+ | <!-- PCR Purification END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>Thanatin - β domain - BBa_B0015, pSB1C3 - BBa_R0010 - Signal peptide - Thanatin (PCR 3STEP product, PCR purifying product) </p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>40 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
− | |||
<!-- Digestion --> | <!-- Digestion --> | ||
<h4>Digestion</h4> | <h4>Digestion</h4> | ||
− | <p> | + | <p>Ito</p> |
− | <p> | + | <p>BBa_I0500 - B0034 - Thanatin - BglⅡ - Ag43 β domain - BBa_B0015 on pSB1C3</p> |
<table> | <table> | ||
<tr><th>Reagent</th><th>Volume</th></tr> | <tr><th>Reagent</th><th>Volume</th></tr> | ||
− | <tr><td> | + | <tr><td>BBa_I0500 - B0034 - Thanatin - BglⅡ - Ag43 β domain - BBa_B0015 on pSB1C3</td><td>10 μL</td></tr> |
+ | <tr><td>BglⅡ</td><td>1 μL</td></tr> | ||
<tr><td>Spe1</td><td>1 μL</td></tr> | <tr><td>Spe1</td><td>1 μL</td></tr> | ||
− | <tr><td> | + | <tr><td>10 x H Buffer</td><td>2 μL</td></tr> |
− | + | <tr><td>DW</td><td>6 μL</td></tr> | |
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
− | + | ||
<tr><td><b>Total</b></td><td><b>20 μL</b></td></tr> | <tr><td><b>Total</b></td><td><b>20 μL</b></td></tr> | ||
</table> | </table> | ||
Line 475: | Line 6,984: | ||
<table> | <table> | ||
<tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
− | <tr><td>1</td><td>37℃</td><td> | + | <tr><td>1</td><td>37℃</td><td>60 min</td><td>Digestion</tr> |
− | <tr><td>2</td><td> | + | <tr><td>2</td><td>80℃</td><td>20 min</td><td>Inactivation</td></tr> |
<tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
</table> | </table> | ||
<!-- Digestion END --> | <!-- Digestion END --> | ||
− | <h3>2015/ | + | |
+ | <!-- PCR 2STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Ito</p> | ||
+ | <p>Ag43 - Thanatin on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Ag43 - Thanatin on pSB1C3</td><td>1 μL</td></tr> | ||
+ | <tr><td>BamHⅠ - Thanatin - Fw 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 μL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 μL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 μL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 μL</td></tr> | ||
+ | <tr><td>DW</td><td>33 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td>120 sec</td><td>Annealing / Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <h4>Sequencing</h4> | ||
+ | <p>Ito</p> | ||
+ | <p>BBa_I0500 - BLA, ABF-2</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_I0500 - BLA, ABF-2</td><td>1 μL</td></tr> | ||
+ | <tr><td>100UP - EX - F / 200DN - PS - R</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>Ready Reaction Premix</td><td>1 μL</td></tr> | ||
+ | <tr><td>5 x Sequencing Buffer</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Sequencing</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>96℃</td><td>10 sec</td><td>Denaturation</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>50℃</td><td>5 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <h4>Sequencing</h4> | ||
+ | <p>Ito</p> | ||
+ | <p>BBa_I0500 - BLA</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_I0500 - BLA</td><td>1 μL</td></tr> | ||
+ | <tr><td>pbad - f2 / 200 - β domain - Ag43 - Rv</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>Ready Reaction Premix</td><td>1 μL</td></tr> | ||
+ | <tr><td>5 x Sequencing Buffer</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Sequencing</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>96℃</td><td>10 sec</td><td>Denaturation</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>50℃</td><td>5 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/09/10</h3> | ||
+ | <!-- Mini-prep --> | ||
+ | <h4>Mini-prep</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 x His tag - TEV - Thanatin - BBa_B0015 - PstⅠ | ||
+ | <br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>standard protocol</p> | ||
+ | <!-- Mini-prep END --> | ||
<!-- PCR 3STEP--> | <!-- PCR 3STEP--> | ||
<h4>PCR</h4> | <h4>PCR</h4> | ||
− | <p> | + | <p>Nishimura</p> |
− | <p> | + | <p> Signal peptide - Thanatin - BglⅡ - β domain(Mini-prep product)</p> |
<table> | <table> | ||
<tr><th>Reagent</th><th>Volume</th></tr> | <tr><th>Reagent</th><th>Volume</th></tr> | ||
− | <tr><td> | + | <tr><td>Signal peptide - Thanatin - BglⅡ - β domain (Mini-prep product)</td><td>1 μL</td></tr> |
− | <tr><td> | + | <tr><td>Agsp - BamHⅠ - Spidroin 10 μM</td><td>1 μL</td></tr> |
− | <tr><td> | + | <tr><td>200DN - PS - R 10 μM</td><td>1 μL</td></tr> |
− | <tr><td>DW</td><td> | + | <tr><td>KOD - Plus - Neo</td><td>1 μL</td></tr> |
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 μL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 μL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 μL</td></tr> | ||
+ | <tr><td>DW</td><td>33 μL</td></tr> | ||
<tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
</table> | </table> | ||
Line 498: | Line 7,095: | ||
<table> | <table> | ||
<tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
− | <tr><td>Start</td><td>95℃</td><td> | + | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> |
− | <tr><td>Cycle 1</td><td> | + | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycle</td></tr> |
− | <tr><td>Cycle 2</td><td> | + | <tr><td>Cycle 2</td><td>65℃</td><td>30 sec</td><td>Annealing</td><td>30 cycle</td></tr> |
− | <tr><td>Cycle 3</td><td> | + | <tr><td>Cycle 3</td><td>68℃</td><td>120 sec</td><td>Elongation</td><td>30 cycle</td></tr> |
− | + | ||
<tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
</table> | </table> | ||
<!-- PCR 3STEP END --> | <!-- PCR 3STEP END --> | ||
− | < | + | <!-- PCR 3STEP--> |
+ | <h4>PCR</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>Signal peptide - Thanatin - BglⅡ - β domain (Mini-prep product)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Signal peptide - Thanatin - BglⅡ - β domain (Mini-prep product)</td><td>1 μL</td></tr> | ||
+ | <tr><td>Ag43 - F4 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>200 β - domain Ag43 - R 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>KOD - FX - NEO</td><td>1 μL</td></tr> | ||
+ | <tr><td>10 × PCR Buffer for KOD -FX - NEO </td><td>25 μL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 μL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 μL</td></tr> | ||
+ | <tr><td>DW</td><td>13 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>20 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>15 sec</td><td>Annealing</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>180 sec</td><td>Elongation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- PCR Purification --> | ||
+ | <h4>PCR Purification</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>Thanatin - β domain BBa_B0015, pSB1C3 - BBa_R0010 - Signal peptide - Thanatin (PCR 3STEP product) | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>Purification of PCR products</p> | ||
+ | <!-- PCR Purification END --> | ||
<!-- Electrophoresis --> | <!-- Electrophoresis --> | ||
<h4>Electrophoresis</h4> | <h4>Electrophoresis</h4> | ||
− | <p> | + | <p>Nishimjura</p> |
− | <p> | + | <p>Thanatin - β domain BBa_B0015 (PCR 3STEP product, PCR purifying product) </p> |
<table> | <table> | ||
<tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
− | <tr><td> | + | <tr><td>1%</td><td>100 V</td><td>40 min</td><td>1/2 x TBE</td></tr> |
</table> | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimjura</p> | ||
+ | <p>pSB1C3 - BBa_R0010 - Signal peptide - Thanatin (PCR 3STEP product, PCR purifying product) </p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>40 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
→failed | →failed | ||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>Signal peptide - Thanatin - BglⅡ - β domain (Mini-prep product)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Signal peptide - Thanatin - BglⅡ - β domain (Mini-prep product)</td><td>1 μL</td></tr> | ||
+ | <tr><td>Ag43 - F4 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>200 β - domain Ag43 - R 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>KOD - FX - NEO</td><td>1 μL</td></tr> | ||
+ | <tr><td>10 × PCR Buffer for KOD -FX - NEO </td><td>25 μL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 μL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 μL</td></tr> | ||
+ | <tr><td>DW</td><td>13 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>20 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>15 sec</td><td>Annealing</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>180 sec</td><td>Elongation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- PCR Purification --> | ||
+ | <h4>PCR Purification</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>pSB1C3 - BBa_R0010 - Signal peptide - Thanatin (PCR 3STEP product) | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>Purification of PCR products</p> | ||
+ | <!-- PCR Purification END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimjura</p> | ||
+ | <p>pSB1C3 - BBa_R0010 - Signal peptide - Thanatin (PCR 3STEP product, PCR purifying product) </p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>40 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
<!-- Electrophoresis END --> | <!-- Electrophoresis END --> | ||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Nishimura, Fujita</p> | ||
+ | <p></p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Thanatin - β domain BBa_B0015</td><td>25 μL</td></tr> | ||
+ | <tr><td>BamHⅠ</td><td>3 μL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>0.5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>16.5 μL</td></tr> | ||
+ | <tr><td>10 × K Buffer</td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>70℃</td><td>20 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
− | <!-- | + | <!-- Digestion --> |
− | <h4> | + | <h4>Digestion</h4> |
− | <p> | + | <p>Nishimura, Fujita</p> |
− | <p> | + | <p></p> |
<table> | <table> | ||
<tr><th>Reagent</th><th>Volume</th></tr> | <tr><th>Reagent</th><th>Volume</th></tr> | ||
− | <tr><td> | + | <tr><td>pSB1C3 - BBa_R0010 - Signal peptide - Thanatin</td><td>25 μL</td></tr> |
− | <tr><td> | + | <tr><td>BglⅡ</td><td>4 μL</td></tr> |
− | <tr><td> | + | <tr><td>SpeⅠ</td><td>0.5 μL</td></tr> |
− | <tr><td>DW</td><td> | + | <tr><td>DW</td><td>15.5 μL</td></tr> |
+ | <tr><td>10 × H Buffer</td><td>5 μL</td></tr> | ||
<tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
</table> | </table> | ||
− | <p> | + | <p>Digestion</p> |
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>70℃</td><td>20 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>Thanatin - β domain BBa_B0015, pSB1C3 - BBa_R0010 - Signal peptide - Thanatin (Digestion product) </p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>40 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <h4>Gel Extract</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>Thanatin - β domain BBa_B0015, pSB1C3 - BBa_R0010 - Signal peptide - Thanatin (Digestion product) | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>pSB1C3 - BBa_R0010 - Signal peptide - Thanatin / Thanatin - β domain BBa_B0015</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>pSB1C3 - BBa_R0010 - Signal peptide - Thanatin</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>Thanatin - β domain BBa_B0015</td><td>3.5 μL</td></tr> | ||
+ | <tr><td>Mighty Mix</td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>60℃</td><td>60 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>2</td><td>80℃</td><td>20 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | <!-- Transformaion(プレ培養あり) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar - Thanatin - β domain BBa_B0015 on pSB1C3</p> | ||
+ | <ol> | ||
+ | <li>Added 5 μL of BBa_R0010 - Signal peptide - Thanatin - Bam / Bgl scar- Thanatin - β domain BBa_B0015 on pSB1C3 to 50 μL of thawed competent cells (HIT) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 500 μL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 500, 50 μL of the culture onto two plates with LBC.</li> | ||
+ | <li>Incubated the plate at 37℃ for hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
+ | |||
+ | <!-- Transformaion(プレ培養あり) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar - Thanatin - β domain BBa_B0015 on pSB1C3</p> | ||
+ | <ol> | ||
+ | <li>Added 5 μL of BBa_R0010 - Signal peptide - Thanatin - Bam / Bgl scar- Thanatin - β domain BBa_B0015 on pSB1C3 to 50 μL of thawed competent cells (DH5α) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 500 μL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 500, 50 μL of the culture onto two plates with LBC.</li> | ||
+ | <li>Incubated the plate at 37℃ for hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Ito</p> | ||
+ | <p>Thanatin ( 2mer )</p> | ||
+ | <ol> | ||
+ | <li>Added 4 μL of NaOAc, 1.5 μL of glycogen and 120 μL of 100% ethanol.</li> | ||
+ | <li>Left it at -80℃ for 1 hr.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 15 min at 4℃.</li> | ||
+ | <li>Removed supernatant and added 220 μL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 10 min at 4℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 10 μL of TE.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
+ | 1</p> | ||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <h4>Sequencing</h4> | ||
+ | <p>Ito</p> | ||
+ | <p>Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015</td><td>1 μL</td></tr> | ||
+ | <tr><td>100UP - EX - F / 200DN - PS - R</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>Ready Reaction Premix</td><td>1 μL</td></tr> | ||
+ | <tr><td>5 x Sequencing Buffer</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Sequencing</p> | ||
<table> | <table> | ||
<tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
− | <tr><td>Start</td><td> | + | <tr><td>Start</td><td>96℃</td><td>10 sec</td><td>Denaturation</td><td></td></tr> |
− | <tr><td> | + | <tr><td>Cycle 1</td><td>50℃</td><td>5 sec</td><td>-</td><td>25 cycle</td></tr> |
− | <tr><td>Cycle 2</td><td> | + | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td>25 cycle</td></tr> |
<tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
</table> | </table> | ||
− | <!-- | + | <!-- Sequencing END --> |
− | |||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <h4>Sequencing</h4> | ||
+ | <p>Ito</p> | ||
+ | <p>Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015</td><td>1 μL</td></tr> | ||
+ | <tr><td>BBa_I0500 - f2 / 200 - β domain - Ag43 - Rv</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>Ready Reaction Premix</td><td>1 μL</td></tr> | ||
+ | <tr><td>5 x Sequencing Buffer</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Sequencing</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>96℃</td><td>10 sec</td><td>Denaturation</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>50℃</td><td>5 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/09/11</h3> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / PstⅠ scar - 10 x His tag - TEV - Thanatin - BBa_B0015 - PstⅠ, | ||
+ | EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 - PstⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>57.6℃</td><td>30 sec</td><td>Annealing</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>90 sec</td><td>Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <h4>Sequencing</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</td><td>1 μL</td></tr> | ||
+ | <tr><td>100UP - EX - F / 200DN - PS - R</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>BigDye Terminator</td><td>1 μL</td></tr> | ||
+ | <tr><td>5 x Sequencing Buffer</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Sequencing</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>96℃</td><td>10 sec</td><td>Denaturation</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>50℃</td><td>5 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BLA</p> | ||
+ | <ol> | ||
+ | <li>Added μL of NaOAc, 1.5 μL of glycogen and 150 μL of 100% ethanol.</li> | ||
+ | <li>Left it at -80℃ for 1 hr.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 15 min at 4℃.</li> | ||
+ | <li>Removed supernatant and added 220 μL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 10 min at 4℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 10 μL of TE.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>Agsp - BamHⅠ - Spidroin 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>Ag43 - bunit - R 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>65℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>Agsp - BamHⅠ - Spidroin 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>BglⅡ - D - Thanatin - R 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>65℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015, Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 - Suffix, BBa_B0031 (as a positive control)</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>65℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
<!-- Electrophoresis --> | <!-- Electrophoresis --> | ||
<h4>Electrophoresis</h4> | <h4>Electrophoresis</h4> | ||
− | <p> | + | <p>Nishimura</p> |
− | <p> | + | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015, Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 - Suffix (Colony PCR procduct)</p> |
<table> | <table> | ||
<tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
− | <tr><td>2%</td><td> | + | <tr><td>1%</td><td>100 V</td><td>50 min</td><td>1/2 x TBE</td></tr> |
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | |||
+ | <h3>2015/09/12</h3> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <!-- Dephosphorylation --> | ||
+ | <h4>Dephosphorylation</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BglⅡ on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>pSB1C3 - BBa_R0010 - Signal peptide - Thanatin - BglⅡ</td><td>20 μL</td></tr> | ||
+ | <tr><td>Antarctic Phosphatase</td><td>2 μL</td></tr> | ||
+ | <tr><td>Antarctic Phosphatase Buffer</td><td>4 μL</td></tr> | ||
+ | <tr><td>DW</td><td>14 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>40 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Dephosphorylation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>30 min</td><td>Dephosphorylation</td></tr> | ||
+ | <tr><td>2</td><td>65℃</td><td>10 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Dephosphorylation END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>pSB1C3 - BBa_R0010 - Signal peptide - Thanatin (Dephosphorylation product) / Thanatin - β domain - BBa_B0015</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>pSB1C3 - BBa_R0010 - Signal peptide - Thanatin</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>Thanatin - β domain - BBa_B0015</td><td>3.5 μL</td></tr> | ||
+ | <tr><td>Mighty Mix</td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>16℃</td><td>60 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin on pSB1C3 (Dephosphorylation product) / Thanatin - β domain - BBa_B0015</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - Signal peptide - Thanatin on pSB1C3</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>Thanatin - β domain - BBa_B0015</td><td>3.5 μL</td></tr> | ||
+ | <tr><td>Mighty Mix</td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>60℃</td><td>60 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>2</td><td>80℃</td><td>20 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
+ | |||
+ | <!-- Transformaion(プレ培養あり) --> | ||
+ | <h4>Transformation</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3 (Ligation product)</p> | ||
+ | <ol> | ||
+ | <li>Added 5 μL of BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3 to 50 μL of thawed competent cells (DH5α) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added 400 μL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 300 μL of the culture onto plate with LBC.</li> | ||
+ | <li>Incubated the plate at 37℃ for 16 hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
+ | |||
+ | <!-- Mini-prep --> | ||
+ | <h4>Mini-prep</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3 | ||
+ | <br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>standard protocol</p> | ||
+ | <!-- Mini-prep END --> | ||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <h4>Sequencing</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</td><td>1 μL</td></tr> | ||
+ | <tr><td>pbad - f2 / 200 βdomein Ag43 Rv</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>Ready Reaction Premix</td><td>1 μL</td></tr> | ||
+ | <tr><td>5 x Sequencing Buffer</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Sequencing</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>96℃</td><td>10 sec</td><td>Denaturation</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>50℃</td><td>10 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</p> | ||
+ | <ol> | ||
+ | <li>Added 7 μL of DW, 2 μL of NaOAc, 1 μL of glycogen and 50 μL of 100% ethanol.</li> | ||
+ | <li>Left it at 24℃ for 15 min.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 15 min at 24℃.</li> | ||
+ | <li>Removed supernatant and added 100 μL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 10 min at 24℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 11 μL of HiDi.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, | ||
+ | BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>57℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Liquid Culture --> | ||
+ | <h4>Liquid Culture</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, | ||
+ | BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>LB</td><td>2000 μL</td></tr> | ||
+ | <tr><td>Chloramphenicol</td><td>2 μL</td></tr> | ||
+ | </table> | ||
+ | <p>Cultured for 16 hours.</p> | ||
+ | <!-- Liquid Culture END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, | ||
+ | BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>30 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Mitsumoto</p> | ||
+ | <p>EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / PstⅠ scar - 10 x His tag - TEV - Thanatin - BBa_B0015 - PstⅠ, | ||
+ | EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 - PstⅠ</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>100UP - EX - F 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>95℃</td><td>30 sec</td><td>Denaturation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>57.6℃</td><td>30 sec</td><td>Annealing</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>90 sec</td><td>Elongation</td><td>35 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- MIC Test --> | ||
+ | |||
+ | |||
+ | <h4>MIC Test</h4> | ||
+ | |||
+ | <p>Onoda, Sakai, Ito</p> | ||
+ | <p> | ||
+ | 50μM Thanatin</p> | ||
+ | |||
+ | <ol> | ||
+ | <li>Cultured <i>E. coli</i> DH5α, JM109 in 2 ml of LB overnight.</li> | ||
+ | |||
+ | <li>Took 80 μl of it and cultured for 1 hr in 2 mL of LB culture until the OD<sub>600</sub> became 0.4.</li> | ||
+ | |||
+ | <li>100,000 fold dilutied it with PB culture.</li> | ||
+ | <li>Spread them on LB plate and counted the number of colony.</li> | ||
+ | |||
+ | <li>Made 20 μl of dilution series of supernatant and cultured 80 μL of diluted DH5α, JM109 at 30℃, 120,000 rpm for 18 hrs.</li> | ||
+ | |||
+ | <li>Incubated in refrigerator.</li> | ||
+ | |||
+ | <li>Observed the appearance of colony and decided the effective concentration of supernatant.</li></ol> | ||
+ | |||
+ | |||
+ | <!-- MIC Test END --> | ||
+ | |||
+ | |||
+ | <h3>2015/09/13</h3> | ||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</td><td>1 μL</td></tr> | ||
+ | <tr><td>Agsp - BamHⅠ - Spidroin 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 μL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 μL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 μL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 μL</td></tr> | ||
+ | <tr><td>DW</td><td>33 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>65℃</td><td>15 sec</td><td>Annealing</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>120 sec</td><td>Elongation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</td><td>1 μL</td></tr> | ||
+ | <tr><td>Ag43 - f4 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>Xba - RBS - scar 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>KOD - FX - Neo</td><td>1 μL</td></tr> | ||
+ | <tr><td>2x PCR Buffer for KOD - FX - Neo</td><td>25 μL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 μL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 μL</td></tr> | ||
+ | <tr><td>DW</td><td>13 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>15 sec</td><td>Annealing</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>180 sec</td><td>Elongation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- PCR Purification --> | ||
+ | <h4>PCR Purification</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3 | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>Purification of PCR products</p> | ||
+ | <!-- PCR Purification END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BglⅡ - Thanatin - β domain BBa_B0015</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BglⅡ - Thanatin - β domain BBa_B0015</td><td>25 μL</td></tr> | ||
+ | <tr><td>BamHⅠ</td><td>3 μL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>0.5 μL</td></tr> | ||
+ | <tr><td>10 × K Buffer</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>16.5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>70℃</td><td>20 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <h4>Digestion</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BglⅡ on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - Signal peptide - Thanatin - BglⅡ on pSB1C3</td><td>25 μL</td></tr> | ||
+ | <tr><td>BglⅡ</td><td>4 μL</td></tr> | ||
+ | <tr><td>SpeⅠ</td><td>0.5 μL</td></tr> | ||
+ | <tr><td>10 × H Buffer</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>15.5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Digestion</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>37℃</td><td>120 min</td><td>Digestion</tr> | ||
+ | <tr><td>2</td><td>70℃</td><td>20 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Digestion END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BglⅡ - Thanatin - β domain BBa_B0015, BBa_R0010 - Signal peptide - Thanatin - BglⅡ on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
</table> | </table> | ||
<!-- Electrophoresis END --> | <!-- Electrophoresis END --> | ||
Line 560: | Line 7,901: | ||
<!-- Gel Extract --> | <!-- Gel Extract --> | ||
<h4>Gel Extract</h4> | <h4>Gel Extract</h4> | ||
− | <p> | + | <p>Nishimura</p> |
− | <p> | + | <p>BglⅡ - Thanatin - β domain BBa_B0015, BBa_R0010 - Signal peptide - Thanatin - BglⅡ on pSB1C3 |
<br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
<br>DNA extraction from gel</p> | <br>DNA extraction from gel</p> | ||
<!-- Gel Extract END --> | <!-- Gel Extract END --> | ||
+ | <!-- Ligation --> | ||
+ | <h4>Ligation</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BglⅡ on pSB1C3 ( 2mer ) / Thanatin - β domain - BBa_B0015 ( 1mer )</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - Signal peptide - Thanatin - BglⅡ on pSB1C3 ( 2mer )</td><td>3.5 μL</td></tr> | ||
+ | <tr><td>Thanatin - β domain - BBa_B0015 ( 1mer )</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>Mighty Mix</td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>16℃</td><td>30 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>2</td><td>65℃</td><td>10 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
<!-- Ligation --> | <!-- Ligation --> | ||
<h4>Ligation</h4> | <h4>Ligation</h4> | ||
− | <p> | + | <p>Nishimura</p> |
− | <p> | + | <p>BBa_R0010 - Signal peptide - Thanatin - BglⅡ on pSB1C3 ( 2mer ) / Thanatin - β domain - BBa_B0015 ( 1mer )</p> |
<table> | <table> | ||
<tr><th>Reagent</th><th>Volume</th></tr> | <tr><th>Reagent</th><th>Volume</th></tr> | ||
− | <tr><td> | + | <tr><td>BBa_R0010 - Signal peptide - Thanatin - BglⅡ on pSB1C3 ( 2mer )</td><td>1.5 μL</td></tr> |
− | <tr><td> | + | <tr><td>Thanatin - β domain - BBa_B0015 ( 1mer )</td><td>3.5 μL</td></tr> |
− | <tr><td>Mighty Mix</td><td> | + | <tr><td>Mighty Mix</td><td>5 μL</td></tr> |
− | + | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | |
− | + | ||
− | <tr><td><b>Total</b></td><td><b> | + | |
</table> | </table> | ||
<p>Ligation</p> | <p>Ligation</p> | ||
Line 589: | Line 7,947: | ||
<!-- Ligation END --> | <!-- Ligation END --> | ||
− | < | + | <!-- Ligation --> |
+ | <h4>Ligation</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BglⅡ on pSB1C3 ( 2mer ) / Thanatin - β domain - BBa_B0015 ( 2mer )</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - Signal peptide - Thanatin - BglⅡ on pSB1C3 ( 2mer )</td><td>3.5 μL</td></tr> | ||
+ | <tr><td>Thanatin - β domain - BBa_B0015 ( 2mer )</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>Mighty Mix</td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Ligation</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th></tr> | ||
+ | <tr><td>1</td><td>16℃</td><td>30 min</td><td>Ligation</td></tr> | ||
+ | <tr><td>2</td><td>65℃</td><td>10 min</td><td>Inactivation</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td></tr> | ||
+ | </table> | ||
+ | <!-- Ligation END --> | ||
− | <!-- | + | <!-- Transformaion(プレ培養あり) --> |
<h4>Transformation</h4> | <h4>Transformation</h4> | ||
− | <p> | + | <p>Nishimura</p> |
− | <p> | + | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</p> |
<ol> | <ol> | ||
− | <li>Added | + | <li>Added 5 μL of BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3 to 50 μL of thawed competent cells (DH5α) on ice.</li> |
<li>Incubated on ice for 30 min.</li> | <li>Incubated on ice for 30 min.</li> | ||
<li>Heat-shocked for 30 sec at 42℃.</li> | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
− | <li>Spread 300 μL of the culture onto plate with | + | <li>Added 400 μL of LB.</li> |
− | <li>Incubated the plate at 37℃ for | + | <li>Incubated the cells for 2 hrs at 37℃.</li> |
+ | <li>Spread 300 μL of the culture onto plate with LBC.</li> | ||
+ | <li>Incubated the plate at 37℃ for 16 hours.</li> | ||
</ol> | </ol> | ||
− | <!-- | + | <!-- Transformaion(プレ培養あり) END --> |
+ | |||
+ | <h3>2015/09/14</h3> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <h4>Colony PCR</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>Agsp - BamHⅠ - Spindroin 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>200 - β domein - Ag43 - Rv 10 μM</td><td>0.4 μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td>5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>4.2 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>94℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>30 sec</td><td>Denaturation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>65℃</td><td>30 sec</td><td>Annealing</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td>40 cycle</td></tr> | ||
+ | <tr><td>Finish</td><td>72℃</td><td>120 sec</td><td>Final Elongation</td><td></td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Colony PCR 3STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>30 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <h3>2015/09/15</h3> | ||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <h4>Sequencing</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</td><td>1 μL</td></tr> | ||
+ | <tr><td>pbad - f2</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>Ready Reaction Premix</td><td>1 μL</td></tr> | ||
+ | <tr><td>5 x Sequencing Buffer</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Sequencing</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>96℃</td><td>10 sec</td><td>Denaturation</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>50℃</td><td>5 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <h4>Sequencing</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</td><td>1 μL</td></tr> | ||
+ | <tr><td>200 - β domein - Ag43 - Rv</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>Ready Reaction Premix</td><td>1 μL</td></tr> | ||
+ | <tr><td>5 x Sequencing Buffer</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Sequencing</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>96℃</td><td>10 sec</td><td>Denaturation</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>50℃</td><td>5 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | <!-- Mini-prep --> | ||
+ | <h4>Mini-prep</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3 | ||
+ | <br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>standard protocol</p> | ||
+ | <!-- Mini-prep END --> | ||
+ | |||
+ | <!-- Liquid Culture --> | ||
+ | <h4>Liquid Culture</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>LB</td><td>2000 μL</td></tr> | ||
+ | <tr><td>Chloramphenicol</td><td>2 μL</td></tr> | ||
+ | </table> | ||
+ | <p>Cultured for 16 hours.</p> | ||
+ | <!-- Liquid Culture END --> | ||
+ | |||
+ | <!-- Mini-prep --> | ||
+ | <h4>Mini-prep</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3 | ||
+ | <br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>standard protocol</p> | ||
+ | <!-- Mini-prep END --> | ||
+ | |||
+ | |||
+ | |||
+ | <!-- Mini-prep --> | ||
+ | <h4>Mini-prep</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3 | ||
+ | <br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>Standard Protocol</p> | ||
+ | <!-- Mini-prep END --> | ||
+ | |||
+ | <!-- Liquid Culture --> | ||
+ | <h4>Liquid Culture</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, | ||
+ | BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td>LB</td><td>15000 μL</td></tr> | ||
+ | <tr><td>Chloramphenicol</td><td>1.5 μL</td></tr> | ||
+ | </table> | ||
+ | <p>Cultured for 16 hours.</p> | ||
+ | <!-- Liquid Culture END --> | ||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <h4>Sequencing</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, | ||
+ | BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, | ||
+ | BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3</td><td>1 μL</td></tr> | ||
+ | <tr><td>100UP - EX - F</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>Ready Reaction Premix</td><td>1 μL</td></tr> | ||
+ | <tr><td>5 x Sequencing Buffer</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Sequencing</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>96℃</td><td>10 sec</td><td>Denaturation</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>50℃</td><td>5 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <h4>Sequencing</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, | ||
+ | BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, | ||
+ | BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3</td><td>1 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>Ready Reaction Premix</td><td>1 μL</td></tr> | ||
+ | <tr><td>5 x Sequencing Buffer</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Sequencing</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>96℃</td><td>10 sec</td><td>Denaturation</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>50℃</td><td>5 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | |||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <h4>Sequencing</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, | ||
+ | BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, | ||
+ | BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3</td><td>1 μL</td></tr> | ||
+ | <tr><td>100UP - EX - F</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>Ready Reaction Premix</td><td>1 μL</td></tr> | ||
+ | <tr><td>5 x Sequencing Buffer</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Sequencing</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>96℃</td><td>10 sec</td><td>Denaturation</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>50℃</td><td>5 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <h4>Sequencing</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, | ||
+ | BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, | ||
+ | BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3</td><td>1 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>Ready Reaction Premix</td><td>1 μL</td></tr> | ||
+ | <tr><td>5 x Sequencing Buffer</td><td>1.5 μL</td></tr> | ||
+ | <tr><td>DW</td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>10 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>Sequencing</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>96℃</td><td>10 sec</td><td>Denaturation</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>50℃</td><td>5 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td>25 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | <h3>2015/09/16</h3> | ||
+ | |||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</td><td>1 μL</td></tr> | ||
+ | <tr><td>Agsp - BamHⅠ - Spidroin 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>200DN - PS - R 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 μL</td></tr> | ||
+ | <tr><td>10 x PCR Buffer for KOD - Plus - Neo</td><td>5 μL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 μL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 μL</td></tr> | ||
+ | <tr><td>DW</td><td>33 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>65℃</td><td>15 sec</td><td>Annealing</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>120 sec</td><td>Elongation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <h4>PCR</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</td><td>1 μL</td></tr> | ||
+ | <tr><td>Ag43 - f4 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>XbaⅠ - RBS - scar 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>KOD - FX - Neo</td><td>1 μL</td></tr> | ||
+ | <tr><td>2x PCR Buffer for KOD - FX - Neo</td><td>25 μL</td></tr> | ||
+ | <tr><td>2 mM dNTPs</td><td>5 μL</td></tr> | ||
+ | <tr><td>25 mM MgSO<sub>4</sub></td><td>3 μL</td></tr> | ||
+ | <tr><td>DW</td><td>13 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p>3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table> | ||
+ | <tr><th>Step</th><th>Temp.</th><th>Time</th><th>Process</th><th>Cycle</th></tr> | ||
+ | <tr><td>Start</td><td>95℃</td><td>120 sec</td><td>Initialization</td><td></td></tr> | ||
+ | <tr><td>Cycle 1</td><td>98℃</td><td>10 sec</td><td>Denaturation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>15 sec</td><td>Annealing</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>180 sec</td><td>Elongation</td><td>30 cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <h4>Electrophoresis</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3</p> | ||
+ | <table> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td>1%</td><td>100 V</td><td>60 min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- PCR Purification --> | ||
+ | <h4>PCR Purification</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3 | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>Purification of PCR products</p> | ||
+ | <!-- PCR Purification END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <h4>Ethanol Precipitation</h4> | ||
+ | <p>Nishimura</p> | ||
+ | <p>BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, | ||
+ | BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3</p> | ||
+ | <ol> | ||
+ | <li>Added 7 μL of DW, 2 μL of NaOAc, 1 μL of glycogen and 50 μL of 100% ethanol.</li> | ||
+ | <li>Left it at 24℃ for 15 min.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 15 min at 24℃.</li> | ||
+ | <li>Removed supernatant and added 100 μL of 70% ethanol.</li> | ||
+ | <li>Centrifuged at 15,000 rpm for 10 min at 24℃.</li> | ||
+ | <li>Removed supernatant and air-dried at room temperature with light shield.</li> | ||
+ | <li>Suspended with 10 μL of HiDi.</li> | ||
+ | </ol> | ||
+ | <!-- Ethanol Precipitation END --> | ||
+ | |||
+ | |||
+ | |||
+ | <h3>2015/09/17</h3> | ||
+ | |||
+ | <!-- Measurement of Optical Density --> | ||
+ | <h4>Measurement of Optical Density</h4> | ||
+ | <p>Mimata</p> | ||
+ | <p>Ag43 - Thanatin (1mer) into DH5α</p> | ||
+ | <ol> | ||
+ | <li>Cultured the colony for 10 hours.</li> | ||
+ | <li>Diluted with midium to set OD<sub>600</sub> to 0.1.</li> | ||
+ | <li>Measured OD<sub>600</sub> 12 times with an hour interval each.</li> | ||
+ | </ol> | ||
+ | <!-- Measurement of Optical Density --> | ||
+ | |||
+ | <!-- Measurement of Optical Density --> | ||
+ | <h4>Measurement of Optical Density</h4> | ||
+ | <p>Mimata</p> | ||
+ | <p>Ag43 - Thanatin (2mer) into DH5α</p> | ||
+ | <ol> | ||
+ | <li>Cultured the colony for 10 hours.</li> | ||
+ | <li>Diluted with midium to set OD<sub>600</sub> to 0.1.</li> | ||
+ | <li>Measured OD<sub>600</sub> 12 times with an hour interval each.</li> | ||
+ | </ol> | ||
+ | <!-- Measurement of Optical Density --> | ||
+ | |||
+ | <!-- Measurement of Optical Density --> | ||
+ | <h4>Measurement of Optical Density</h4> | ||
+ | <p>Mimata</p> | ||
+ | <p>Ag43 - Thanatin (3mer) into DH5α</p> | ||
+ | <ol> | ||
+ | <li>Cultured the colony for 10 hours.</li> | ||
+ | <li>Diluted with midium to set OD<sub>600</sub> to 0.1.</li> | ||
+ | <li>Measured OD<sub>600</sub> 12 times with an hour interval each.</li> | ||
+ | </ol> | ||
+ | <!-- Measurement of Optical Density --> | ||
+ | |||
+ | <!-- Measurement of Optical Density --> | ||
+ | <h4>Measurement of Optical Density</h4> | ||
+ | <p>Mimata</p> | ||
+ | <p>Ag43 - Thanatin (4mer) into DH5α</p> | ||
+ | <ol> | ||
+ | <li>Cultured the colony for 10 hours.</li> | ||
+ | <li>Diluted with midium to set OD<sub>600</sub> to 0.1.</li> | ||
+ | <li>Measured OD<sub>600</sub> 12 times with an hour interval each.</li> | ||
+ | </ol> | ||
+ | <!-- Measurement of Optical Density --> | ||
+ | |||
+ | <!-- Measurement of Optical Density --> | ||
+ | <h4>Measurement of Optical Density</h4> | ||
+ | <p>Mimata</p> | ||
+ | <p>Ag43 (without Thanatin) into DH5α</p> | ||
+ | <ol> | ||
+ | <li>Cultured the colony for 10 hours.</li> | ||
+ | <li>Diluted with midium to set OD<sub>600</sub> to 0.1.</li> | ||
+ | <li>Measured OD<sub>600</sub> 12 times with an hour interval each.</li> | ||
+ | </ol> | ||
+ | <!-- Measurement of Optical Density --> | ||
+ | |||
+ | <!-- MIC Test --> | ||
+ | |||
+ | |||
+ | <h4>MIC Test</h4> | ||
+ | |||
+ | <p>Ito, Ono</p> | ||
+ | <p> | ||
+ | Thanatin (1mer, 2mer, 3mer, 4mer, nothing (as a negative control))</p> | ||
+ | |||
+ | <ol> | ||
+ | <li>Cultured <i>E. coli</i> DH5α in 2 ml of LB overnight.</li> | ||
+ | |||
+ | <li>Took 80 μl of it and cultured for 1 hr in 2 mL of LB culture until the OD<sub>600</sub> became 0.4.</li> | ||
+ | |||
+ | <li>100,000 fold dilutied it with PB culture.</li> | ||
+ | <li>Spread them on LB plate and counted the number of colony.</li> | ||
+ | |||
+ | <li>Made 20 μl of dilution series of supernatant and cultured 80 μL of diluted JM109 at 30℃, 120,000 rpm for 18 hrs.</li> | ||
+ | |||
+ | <li>Incubated in refrigerator.</li> | ||
+ | |||
+ | <li>Observed the appearance of colony and decided the effective concentration of supernatant.</li></ol> | ||
+ | |||
+ | |||
+ | <!-- MIC Test END --> | ||
+ | |||
+ | |||
+ | <h3>2015/09/18</h3> | ||
+ | <!-- MIC Test --> | ||
+ | |||
+ | |||
+ | <h4>MIC Test</h4> | ||
+ | |||
+ | <p>Ito, Onoda</p> | ||
+ | <p> | ||
+ | Thanatin (4mer)</p> | ||
+ | |||
+ | <ol> | ||
+ | <li>Cultured <i>E. coli</i> DH5α in 2 ml of LB overnight.</li> | ||
+ | |||
+ | <li>Took 80 μl of it and cultured for 1 hr in 2 mL of LB culture until the OD<sub>600</sub> became 0.4.</li> | ||
+ | |||
+ | <li>100,000 fold dilutied it with PB culture.</li> | ||
+ | <li>Spread them on LB plate and counted the number of colony.</li> | ||
+ | |||
+ | <li>Made 20 μl of dilution series of supernatant and cultured 80 μL of diluted DH5α at 30℃, 120,000 rpm for 18 hrs.</li> | ||
+ | |||
+ | <li>Incubated in refrigerator.</li> | ||
+ | |||
+ | <li>Observed the appearance of colony and decided the effective concentration of supernatant.</li></ol> | ||
+ | |||
+ | |||
+ | <!-- MIC Test END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
Latest revision as of 03:48, 19 September 2015
E. coli
January
2015/01/21
Transformation
Sakurai
BBa_K1524100
- Added 5 µL of antiBBa_E1010 on BBa_K1524100 to 20 µL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Spread 300 µL of the culture onto plate with LBA.
- Incubate 2ml regent with ampicillin at 37℃ for 20 hrs.
2015/01/22
Colony PCR
Sakurai
BBa_K1524100
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 µM | 0.8 µL |
XhoⅠ - RBS - NcoⅠ 10 µM | 0.8 µL |
KAPA Taq | 10 µL |
DW | 8.4 µL |
Total | 20 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 35 cycle |
Cycle 2 | 68℃ | 60 sec | Annealing / Elongation | 35 cycle |
Finish | 68℃ | 60 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Electrophoresis
Sakurai
BBa_K1524100
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 30 min | 1/2 x TBE |
Liquid Culture
Sakurai
BBa_K1524100
Reagent | Volume |
---|---|
Single Colony | - |
LB | 2 µL |
Cultured for 16 hrs.
2015/01/26
Colony PCR
Sakurai
BBa_K1524100
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 µM | 0.4 µL |
XhoⅠ - RBS - NcoⅠ 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 35 cycle |
Cycle 2 | 68℃ | 60 sec | Annealing / Elongation | 35 cycle |
Finish | 68℃ | 60 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Electrophoresis
Sakurai
BBa_K1524100
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 30 min | 1/2 x TBE |
Colony PCR
Sakurai
BBa_K1524100
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 µM | 0.4 µL |
XhoⅠ - RBS - NcoⅠ 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 35 cycle |
Cycle 2 | 68℃ | 60 sec | Annealing / Elongation | 35 cycle |
Finish | 68℃ | 60 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Colony PCR
Sakurai
BBa_K1524100
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 µM | 0.4 µL |
200DN - PS - R 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 35 cycle |
Cycle 2 | 68℃ | 60 sec | Annealing / Elongation | 35 cycle |
Finish | 68℃ | 60 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
March
2015/03/10
Competent Cells
Tanaka,Sakurai
BL21 (DE3) pLysS
- Thawed original competent cells (BL21 (DE3) pLysS) on ice.
- Added 5 µL of original competent cells to 2 mL of LB.
- Incubated the cells for 16 hrs at 37℃.
- Added 5 µL, 50 µL, and 500 µL of original cells to 100 mL of LB.
- Incubated the cells at 130 rpm for 14 hrs at 20℃, until OD600 reach 0.5.
- Took 50 mL of incubated cells to two differnt culture tubes and centrifuged them at 3,000 rpm for 20 min at 4℃.
- Removed supernatant and added 75 mL of TB to each tube.
- Brought them to a one tube and centrifuged at 3,000 rpm for 20 min at 4℃.
- Removed supernatant and added 32 mL of TB.
- Added 32 µL of DMSO 10 times.
- Took 50 µL and froze with liquid nitrogen.
2015/03/11
PCR
Sakurai
BBa_R0011
Reagent | Volume |
---|---|
BBa_R0011 | 1 µL |
100UP - EX - F 10 µM | 1.5 µL |
200DN - PS - R 10 µM | 1.5 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 32 µL |
Total | 50 µL |
BBa_0030 - BBa_E1010
Reagent | Volume |
---|---|
BBa_0030 - BBa_E1010 | 1 µL |
100UP - EX - F 10 µM | 1.5 µL |
200DN - PS - R 10 µM | 1.5 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 32 µL |
Total | 50 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 30 cycle |
Cycle 2 | 62.6℃ | 30 sec | Annealing | 30 cycle |
Cycle 3 | 68℃ | 1 min | Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
PCR Purification
Sakurai
BBa_R0011, BBa_0030 - BBa_E1010
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
Purification of PCR products
Digestion
Sakurai
BBa_R0011
Reagent | Volume |
---|---|
BBa_R0011 | 44 µL |
XbaⅠ | 1 µL |
CutSmart Buffer | 5 µL |
Total | 50 µL |
BBa_0030 - BBa_E1010
Reagent | Volume |
---|---|
BBa_0030 - BBa_E1010 | 44 µL |
XbaⅠ | 1 µL |
CutSmart Buffer | 5 µL |
Total | 50 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 300 min | Digestion |
2 | 60℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
Electrophoresis
Sakurai
BBa_R0011, BBa_0030 - BBa_E1010
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 30 min | 1/2 x TBE |
Gel Extract
Sakurai
BBa_R0011, BBa_0030 - BBa_E1010
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
Electrophoresis
Sakurai
BBa_R0011, BBa_0030 - BBa_E1010
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 30 min | 1/2 x TBE |
May
2015/05/13
Transformation
Onoda
pET15b
- Added 1 µL of pET15b to 50 µL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Spread 50 µL of the culture onto plate with LBA.
- Incubated the plate at 37℃ for 16 hrs.
Transformation
Onoda, Sakurai
pET16b
- Added 1 µL of pET16b to 50 µL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Spread 50 µL of the culture onto plate with LBA.
- Incubated the plate at 37℃ for 16 hrs.
Competent Cells
Onoda
Rosetta
- Thawed original competent cells (Rosetta) on ice.
- Added 5 µL of original competent cells to 2 mL of LB.
- Incubated the cells for 16 hrs at 37℃.
- Added 5 µL, 50 µL, and 500 µL of original cells to 100 mL of LB.
- Incubated the cells at 130 rpm for 24 hrs at 20℃, until OD600 reach 0.5.
- Took 50 mL of incubated cells to two differnt culture tubes and centrifuged them at 3,000 rpm for 20 min at 4℃.
- Removed supernatant and added 75 mL of TB to each tube.
- Brought them to a one tube and centrifuged at 3,000 rpm for 20 min at 4℃.
- Removed supernatant and added 32 mL of TB.
- Added 32 µL of DMSO 10 times.
- Took 50 µL and froze with liquid nitrogen.
2015/05/27
Transformation
Mimata, Onoda, Nishimura
BBa_E0040
- Added 1 µL of BBa_E0040 to thawed competent cells (Rosetta and DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 200 µL of LB.
- Spread 300 µL of the culture onto plate with LBA.
- Incubated the plate at 37℃ for 16 hrs.
Transformation
Mimata, Onoda, Ono, Nishimura
mBBa_R0040
- Added 1 µL of mBBa_R0040 to thawed competent cells (Rosetta and DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 200 µL of LB.
- Spread 300 µL of the culture onto plate with LBA.
- Incubated the plate at 37℃ for 16 hrs.
2015/05/29
Mini-prep
Mimata, Onoda, Ono, Nishimura
BBa_E0040, mBBa_R0040
FastGeneTM Plasmid mini kit (Nippon Genetics Co.,Ltd)
standard protocol
PCR
Onoda, Ono
BBa_E0040
Reagent | Volume |
---|---|
BBa_E0040 | 1 µL |
100UP- EX - F 10 µM | 1 µL |
200DN - PS - R 10 µM | 1 µL |
KOD - FX - Neo | 1 µL |
2 x PCR Buffer for KOD - FX - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
mBBa_R0040
Reagent | Volume |
---|---|
mBBa_R0040 | 1 µL |
100UP - EX - F 10 µM | 1 µL |
200DN - PS - R 10 µM | 1 µL |
KOD - FX - Neo | 1 µL |
2 x PCR Buffer for KOD - FX - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 30 cycles |
Cycle 2 | 68℃ | 60 sec | Annealing / Elongation | 30 cycles |
Store | 4℃ | Hold | Store |
2015/05/30
Electrophoresis
Mimata, Onoda, Ono, Nishimura
BBa_E0040, mBBa_R0040
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100 V | 30 min | 1/2 x TBE |
Gel Extract
Onoda, Ono, Nishimura
BBa_E0040, mBBa_R0040
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
Digestion
Onoda, Ono, Nishimura
BBa_E0040
Reagent | Volume |
---|---|
BBa_E0040 | 20 µL |
DW | 5 µL |
SpeⅠ | 1 µL |
EcoRⅠ | 1 µL |
CutSmart Buffer | 3 µL |
Total | 30 µL |
mBBa_R0040
Reagent | Volume |
---|---|
mBBa_R0040 | 20 µL |
DW | 5 µL |
SpeⅠ | 1 µL |
EcoRⅠ | 1 µL |
CutSmart Buffer | 3 µL |
Total | 30 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 60℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
Digestion
Onoda, Ono
pET15b
Reagent | Volume |
---|---|
pET15b | 10 µL |
DW | 6 µL |
SpeⅠ | 1 µL |
EcoRⅠ | 1 µL |
CutSmart Buffer | 2 µL |
Total | 20 µL |
pET16b
Reagent | Volume |
---|---|
pET16b | 10 µL |
DW | 6 µL |
SpeⅠ | 1 µL |
EcoRⅠ | 1 µL |
CutSmart Buffer | 2 µL |
Total | 20 µL |
pSB1A3
Reagent | Volume |
---|---|
pSB1A3 | 10 µL |
DW | 6 µL |
SpeⅠ | 1 µL |
EcoRⅠ | 1 µL |
CutSmart Buffer | 2 µL |
Total | 20 µL |
pSB4C5
Reagent | Volume |
---|---|
pSB4C5 | 2 µL |
DW | 14 µL |
SpeⅠ | 1 µL |
EcoRⅠ | 1 µL |
CutSmart Buffer | 2 µL |
Total | 20 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 60℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
2015/05/31
Electrophoresis
Mimata, Onoda, Ono, Nishimura
BBa_E0040, BBa_R0040, pET15b, pET16b, pSB1A3, pSB4C5
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 30 min | 1/2 x TBE |
Gel Extract
Mimata, Onoda, Ono, Nishimura
BBa_E0040, BBa_R0040, pET15b, pET16b, pSB1A3
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
Electrophoresis
Mimata, Onoda, Ono, Nishimura
BBa_E0040, mBBa_R0040
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 30 min | 1/2 x TBE |
PCR
Mimata, Onoda
BBa_E0040
Reagent | Volume |
---|---|
BBa_E0040 | 1 µL |
100UP - EX - F 10 µM | 1 µL |
200DN - PS - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
mBBa_R0040
Reagent | Volume |
---|---|
mBBa_R0040 | 1 µL |
100UP - EX - F 10 µM | 1 µL |
200DN - PS - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 30 cycle |
Cycle 2 | 68℃ | 60 sec | Annealing / Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
June
2015/06/10
Digestion
Mimata, Onoda
BBa_E0040
Reagent | Volume |
---|---|
BBa_E0040 | 16 µL |
SpeⅠ | 1 µL |
EcoRⅠ | 1 µL |
CutSmart Buffer | 2 µL |
Total | 20 µL |
mBBa_R0040
Reagent | Volume |
---|---|
mBBa_R0040 | 16 µL |
SpeⅠ | 1 µL |
EcoRⅠ | 1 µL |
CutSmart Buffer | 2 µL |
Total | 20 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 60 min | Digestion |
2 | 60℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
2015/06/16
PCR
Mimata
thanatin fragment for TA cloning
Reagent | Volume |
---|---|
TA - F - primer | 1 µL |
TA - R - primer | 1 µL |
KAPA Taq | 25 µL |
DW | 23 µL |
Total | 50 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 180 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 35 cycle |
Cycle 2 | 63℃ | 30 sec | Annealing | 35 cycle |
Cycle 3 | 72℃ | 10 sec | Elongation | 35 cycle |
Finish | 72℃ | 60 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
2015/06/17
Electrophoresis
Mimata
thanatin fragment for TA cloning
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100 V | 30 min | 1/2 x TBE |
Annealing Oligos and Elongation
Ito
thanatin fragment for TA cloning
Reagent | Volume |
---|---|
TA - F - primer 1 µM | 1 µL |
TA - R - primer 1 µM | 1 µL |
KAPA Taq | 25 µL |
DW | 23 µL |
Total | 50 µL |
Annealing Oligos and Elongation
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 1 min | Initialization | |
Cycle1 | 95℃ to 23℃ | 45 min | Annealing | 1 cycle |
Cycle 2 | 72℃ | 1 min | Elongation | 1 cycle |
Store | 4℃ | Hold | Store |
2015/06/19
Electrophoresis
Ito
thanatin fragment for TA cloning
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100 V | 30min | 1/2 x TBE |
Gel Extract
Ito
thanatin fragment for TA cloning
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
Ligation
Ito
pGEM - T vector / Thanatin fragment for TA cloning
Reagent | Volume |
---|---|
pGEM - T vector | 1.7µL |
Thanatin fragment for TA cloning | 0.15µL |
Mighty Mix | 1.85µL |
T4 Ligase | 0.18µL |
DW | 6.12µL |
Total | 10µL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 16℃ | 30 min | Ligation |
2 | 65℃ | 10 min | Inactivation |
Store | 4℃ | Hold | Store |
2015/06/21
Transformation
Ito
pGEM - T vector
- Added 1 µL of Thanatin fragment to 50 µL of thawed competent cells (Rosseta/DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Spread 300 µL of the culture onto plate with LBA.
- Incubated the plate at 37℃ for 19 hrs.
July
2015/07/25
Transformation
Onoda
BBa_B0015 on pSB1C3
- Added 1 µL of BBa_B0015 on pSB1C3 to 50 µL of thawed competent cells (DH5α Turbo) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 500 µL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 300 µL of the culture onto plate with LBC.
- Incubated the plate at 37℃ for 16 hrs.
Transformation
Onoda
BBa_R0010 - BBa_B0034 on pSB1C3
- Added 1 µL of BBa_R0010 - BBa_B0034 on pSB1C3 to 50 µL of thawed competent cells (DH5α Turbo) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 500 µL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 300 µL of the culture onto plate with LBC.
- Incubated the plate at 37℃ for 16 hrs.
Transformation
Onoda
BBa_I0500 - BBa_B0034 on pSB1C3
- Added 1 µL of BBa_I0500 - BBa_B0034 on pSB1C3 to 50 µL of thawed competent cells (DH5α Turbo) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 500 µL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 300 µL of the culture onto plate with LBC.
- Incubated the plate at 37℃ for 16 hrs.
Transformation
Onoda
BBa_B0034 on pSB1A2
- Added 1 µL of BBa_B0034 on pSB1A2 to 50 µL of thawed competent cells (DH5α Turbo) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 500 µL of LB.
- Spread 300 µL of the culture onto plate with LBA.
- Incubated the plate at 37℃ for 16 hrs.
PCR
Onoda
BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
BBa_B0015 on pSB1C3 | 1 µL |
100UP - EX - F 10 µM | 1 µL |
200DN - PS - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
BBa_R0010 - BBa_B0034 on pSB1C3
Reagent | Volume |
---|---|
BBa_R0010 - BBa_B0034 on pSB1C3 | 1 µL |
100UP - EX - F 10 µM | 1 µL |
200DN - PS - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
BBa_I0500 - BBa_B0034 on pSB1C3
Reagent | Volume |
---|---|
BBa_I0500 - BBa_B0034 on pSB1C3 | 1 µL |
100UP - EX - F 10 µM | 1 µL |
200DN - PS - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
BBa_B0034 on pSB1A2
Reagent | Volume |
---|---|
BBa_B0034 on pSB1A2 | 1 µL |
100UP - EX - F 10 µM | 1 µL |
200DN - PS - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 30 cycle |
Cycle 2 | 62.6℃ | 30 sec | Annealing | 30 cycle |
Cycle 3 | 68℃ | 60 sec | Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
Electrophoresis
Onoda
BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 on pSB1C3, BBa_I0500 - BBa_B0034 on pSB1C3, BBa_B0034 on pSB1A2
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100 V | 30 min | 1/2 x TBE |
2015/07/26
Liquid Culture
Ono
BBa_I0500 - BBa_B0034 on pSB1A2
Reagent | Volume |
---|---|
Single Colony | - |
LB | 2000 µL |
Ampicillin | 2 µL |
Cultured for 15 hours.
Mini-prep
Ito
BBa_R0010 - BBa_B0034 on pSB1C3, BBa_B0015 on pSB1C3, BBa_B0034 on pSB1A2
FastGeneTM Plasmid mini kit (Nippon Genetics Co.,Ltd)
standard protocol
Electrophoresis
Ito
BBa_I0500 - BBa_B0034 on pSB1C3, BBa_R0010 - BBa_B0034 on pSB1C3, BBa_B0034 on pSB1A3, BBa_B0015 on pSB1C3
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100 V | 30 min | 1/2 x TBE |
Gel Extract
Ono
BBa_R0010 - BBa_B0034 on pSB1C3, BBa_I0500 - BBa_B0034 on pSB1C3, BBa_B0034 on pSB1A2, BBa_B0015 on pSB1C3
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
2015/07/27
Mini-prep
Ono
BBa_I0500 - BBa_B0034 on pSB1A2
FastGeneTM Plasmid mini kit (Nippon Genetics Co.,Ltd)
standard protocol
August
2015/08/04
Transformation
Ito
pGEM T vector
- Added 1 µL of pGEM T vector to 50 µL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Spread 300 µL of the culture onto plate with LBA.
- Incubated the plate at 37℃ for 16 hrs.
2015/08/05
Colony PCR
Ito
pGEM T vector
Reagent | Volume |
---|---|
Single Colony | - |
NdeⅠ - F - primer 10 µM | 0.4 µL |
BamHⅠ - R - primer 10 µM | 0.4 µL |
KAPA Taq | 5.0 µL |
DW | 4.2 µL |
Total | 10 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 30 sec | Denaturation | 35 cycle |
Cycle 2 | 68℃ | 20 sec | Annealing / Elongation | 35 cycle |
Store | 4℃ | Hold | Store |
Electrophoresis
Ito
NdeⅠ - Thanatin - BamHⅠ
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100V | 60 min | 1/2 x TBE |
Gel Extract
Ito
NdeⅠ - Thanatin - BamHⅠ
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
Ligation
Ito
pET vector / NdeⅠ - Thanatin - BamHⅠ
Reagent | Volume |
---|---|
pET vector | 1 µL |
NdeⅠ - Thanatin - BamHⅠ | 3 µL |
10 × T4 DNA Ligase Buffer | 5 µL |
T4 Ligase | 1 µL |
Total | 10 µL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 4℃ | 30 min | Ligation |
2 | 65℃ | 10 min | Inactivation |
Store | 4℃ | Hold | Store |
Transformation
Ito
BBa_E1010 - BBa_B0034 - BBa_E0040 - BBa_B0015 on pSB1C3
- Added 1 µL of Thanatin on pET vector to 50 µL of thawed competent cells (Rosetta) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Spread 300 µL of the culture onto plate with LBA.
- Incubated the plate at 37℃ for 16 hrs.
2015/08/10
Streaking (Single Colony Isolation)
Ito, Mimata, Mitsumoto, Onoda, Sakai
BBa_I0500 - BBa_B0034 - BBa_K759012 (signal and β-domain) - BBa_B0015 on pSB1C3, BBa_E1010 - BBa_B0034 - BBa_R0040 - BBa_B0015 on pSB1C3, BBa_E1010 - BBa_B0034 - BBa_E0400 - BBa_B0015 on pSB1C3
- Picked the colony with an inoculating loop from the agar plate.
- Draged the loop across on a new agar plate.
- Re-sterilised the loop and drag it across again.
2015/08/11
Mini-prep
Ito, Mimata, Mitsumoto, Onoda, Sakai
BBa_I0500 - BBa_B0034 - BBa_K759012 (Signal - β domain) - BBa_B0015 on pSB1C3
FastGeneTM Plasmid mini kit (Nippon Genetics Co.,Ltd)
Fast protocol
Digestion
Ito, Mimata, Onoda, Sakai, Kusumi
BBa_I0500 - BBa_B0034 - BBa_K759012 (Signal - β domain) - BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
pSB1C3 | 20 µL |
DW | 23 µL |
Bgl Ⅱ | 2 µL |
3.1 Buffer | 5 µL |
Total | 50 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 60 min | Digestion |
2 | 70℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
Electrophoresis
Ito, Mimata, Onoda, Sakai, Nishimura, Kusumi
BBa_I0500 - BBa_B0034 - BBa_K759012 (signal and β-domain) - BBa_B0015 on pSB1C3
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 60 min | 1/2 x TBE |
2015/08/12
Gel Extract
Nishimura, Sakai
BBa_I0500 - BBa_B0034 - BBa_K759012 (Signal - β domain) - BBa_B0015 on pSB1C3
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
Electrophoresis
Ito, Sakai, Fujita
BBa_I0500 - BBa_B0034 - BBa_K759012 (Signal - β domain) - BBa_B0015 on pSB1C3 (Gel Extract Poduct)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 60 min | 1/2 x TBE |
2015/08/13
Sequencing
Ito, Onoda, Nishimura, Fujita
BBa_I0500 - BBa_B0034 - BBa_K759012 (signal and β-domain) - BBa_B0015 on pSB1C3 (Gel Extract Product)
Reagent | Volume |
---|---|
pSB1C3 | 1 µL |
T7 promoter primer / SP6 promoter primer | 1.5 µL |
Ready Reaction Premix | 1 µL |
5 x Sequencing Buffer | 1.5 µL |
DW | 5 µL |
Total | 10 µL |
Sequencing
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 96℃ | 10 sec | Denaturation | |
Cycle 1 | 50℃ | 5 sec | - | 25 cycle |
Cycle 2 | 60℃ | 240 sec | - | 25 cycle |
Store | 4℃ | Hold | Store |
Ethanol Precipitation
Ito, Onoda, Nishimura, Fujita, Mimata
BBa_I0500 - BBa_B0034 - BBa_K759012 (signal and β-domain) - BBa_B0015 on pSB1C3 (Sequencing PCR product)
- Added 2 µL of NaOAc, 1.5 µL of glycogen and 50 µL of 100% ethanol.
- Left it at -80℃ for 1 hr.
- Centrifuged at 15,000 rpm for 15 min at 4℃.
- Removed supernatant and added 100 µL of 70% ethanol.
- Centrifuged at 15,000 rpm for 10 min at 4℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 10 µL of DW.
PCR
Ito, Onoda, Tanaka, Nishimura, Mimata
XbaⅠ - BBa_B0034 - XbaⅠ / SpeⅠ scar - Met - 10 × His tag - Thanatin - SpeⅠ
Reagent | Volume |
---|---|
XbaⅠ - BBa_B0034 - XbaⅠ / SpeⅠ scar - Met - 10 × His tag - Thanatin - SpeⅠ | 1 µL |
BamHⅠ - Thanatin forward Neo 10 µM | 1 µL |
BglⅡ - Asp - Thanatin reverese Neo 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 25 cycle |
Cycle 2 | 68℃ | 20 sec | Annealing / Elongation | 25 cycle |
Store | 4℃ | Hold | Store |
Digestion
Mimata
NdeⅠ - Thanatin - BamHⅠ on pET vector
Reagent | Volume |
---|---|
NdeⅠ - Thanatin - BamHⅠ on pET vector | 10 µL |
NdeⅠ | 1 µL |
BamHⅠ | 1 µL |
CutSmart Buffer | 5 µL |
DW | 33 µL |
Total | 50 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 60 min | Digestion |
2 | 70℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
2015/08/14
PCR
Fujita, Nishimura, Onoda
Thanatin (Mini-prep product)
Reagent | Volume |
---|---|
Thanatin fragment | 1 µL |
T7 - promoter primer 10 µM | 1 µL |
SP6 - promoter primer 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 × PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
3 Step Cycle (Tm value ≤ 66℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 94℃ | 10 sec | Denaturation | 25 cycle |
Cycle 2 | 50℃ | 10 sec | Annealing | 25 cycle |
Cycle 3 | 68℃ | 30 sec | Elongation | 25 cycle |
Store | 4℃ | Hold | Store |
Electrophoresis
Fujita, Nishimura, Onoda, Mimata
BamHⅠ - Thanatin - BglⅡ, Thanatin fragment(PCR product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100 V | 60 min | 1/2 x TBE |
Annealing of Oligonucleotides
Onoda, Nishimura, Fujita
Thanatin fragment (derived from annealing TA primers)
Reagent | Volume |
---|---|
TA - F - primer 10 µM | 1 µL |
TA - R - primer 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 34 µL |
Total | 50 µL |
Annealing of Oligonucleotides
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 94℃ | 10 sec | Denaturation | 10 cycle |
Cycle 2 | 60℃ | 10 sec | Annealing | 10 cycle |
Cycle 3 | 68℃ | 30 sec | Elongation | 10 cycle |
Store | 4℃ | Hold | Store |
PCR
Nishimura, Onoda
Thanatin fragment (derived from annealing TA primers)
Reagent | Volume |
---|---|
Thanatin fragment (derived from annealing TA primers) | 1 µL |
BamHⅠ - Thanatin Neo 10 µM | 1 µL |
BglⅡ - Asp - thanatin Neo 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 66℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 35 cycle |
Cycle 2 | 68℃ | 60 sec | Annealing / Elongation | 35 cycle |
Store | 4℃ | Hold | Store |
PCR Purification
Nishimura, Onoda
Thanatin fragment from last 2 step PCR
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
Purification of PCR products
Electrophoresis
Nishimura, Onoda
Thanatin frament (TA-primer), Thanatin fragment (BamHⅠ/BglⅡ), Thanatin fragment(PCR Purification)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100 V | 60 min | 1/2 x TBE |
Transformation
Fujita, Mitsumoto
BBa_B0031 on pSB1A2, BBa_E0040 on pSB1A2
- Added 1 µL of BBa_B0031 on pSB1A2, BBa_E0040 on pSB1A2 to 20 µL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Spread 300 µL of the culture onto plate with LBA.
- Incubated the plate at 37℃ for 12 hours.
Transformation
Fujita, Mitsumoto
BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0030
- Added 1 µL of BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0030 to 20 µL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 200 µL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 300 µL of the culture onto plate with LBC.
- Incubated the plate at 37℃ for 12 hours.
PCR
Fujita, Mitsumoto
BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031, BBa_B0030, BBa_E0040
Reagent | Volume |
---|---|
Ba_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031, BBa_B0030, BBa_E0040 | 1 µL |
100UP - EX - F 10 µM | 1 µL |
200DN - PS - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 × PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 35 cycle |
Cycle 2 | 68℃ | 60 sec | Annealing / Elongation | 35 cycle |
Store | 4℃ | Hold | Store |
2015/08/15
Electrophoresis
Fujita, Nishimura
BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031, BBa_B0030, BBa_E0040
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100 V | 60 min | 1/2 x TBE |
PCR
Fujita, Nishimura, Ono
BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031, BBa_B0030, BBa_E0040
Reagent | Volume |
---|---|
BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031, BBa_B0030, BBa_E0040 | 1 µL |
100UP - EX - F 1 µM | 1 µL |
200DN - PS - R 1 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 × PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 35 cycle |
Cycle 2 | 68℃ | 60 sec | Annealing / Elongation | 35 cycle |
Store | 4℃ | Hold | Store |
Electrophoresis
Fujita, Nishimura
BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031, BBa_B0030, BBa_E0040
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
PCR
Nishimura, Ono
Thanatin fragment (derived from annealing TA primers)
Reagent | Volume |
---|---|
Thanatin fragment (derived from annealing TA primers) | 1 µL |
NdeI - F - primer 10 µM | 1 µL |
BamHI - R - primer 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 × PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 25 cycle |
Cycle 2 | 68℃ | 30 sec | Annealing / Elongation | 25 cycle |
Store | 4℃ | Hold | Store |
PCR
Sakai, Ono
Thanatin fragment (PCR 2STEP product)
Reagent | Volume |
---|---|
Thanatin fragment (PCR 2STEP product) | 1 µL |
BamHI - Thanatin - F - Neo 10 µM | 1 µL |
BglⅡ - Tanatin - R - Neo 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 25 cycle |
Cycle 2 | 68℃ | 30 sec | Annealing / Elongation | 25 cycle |
Store | 4℃ | Hold | Store |
Annealing Oligos and Elongation
Onoda
Thanatin fragment (derived from annealing TA primers)
Reagent | Volume |
---|---|
TA - F - primer 10 µM | 1 µL |
TA - R - primer 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 34 µL |
Total | 50 µL |
Annealing Oligos and Elongation
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 1 min | Initialization | |
Cycle1 | 95℃ to 23℃ | 45 min | Annealing | 1 cycle |
Cycle 2 | 68℃ | 30 sec | Elongation | 1 cycle |
Store | 4℃ | Hold | Store |
Electrophoresis
Ono, Onoda
Thanatin fragment (Annealing and Elongation product), Thanatin fragment(PCR 2STEP product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100 V | 30 min | 1/2 x TBE |
Gel Extract
Ono
BBa_B0031, BBa_B0030, BBa_E0040
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
Mini-prep
Ono
BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031, BBa_B0030, BBa_E0040
FastGeneTM Plasmid mini kit (Nippon Genetics Co.,Ltd)
Standard protocol
2015/08/16
PCR
Nishimura, Ono
Thanatin fragment (derived from annealing TA primers)
Reagent | Volume |
---|---|
Thanatin fragment (derived from annealing TA primers) | 1 µL |
NdeI - F - primer 10 µM | 1 µL |
BamHI - R - primer 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 25 cycle |
Cycle 2 | 68℃ | 60 sec | Annealing / Elongation | 25 cycle |
Store | 4℃ | Hold | Store |
Electrophoresis
Nishimura, Ono
Thanatin fragment (PCR product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100 V | 60 min | 1/2 x TBE |
Colony PCR
Onoda, Ono, Nishimura
Thanatin fragment (derived from annealing TA primers) into DH5α, nothing (as a negative control)
Reagent | Volume |
---|---|
Single Colony | - |
NdeI - F - primer 10 µM | 0.4 µL |
BamHI - R - primer 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 62.9℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Colony PCR
Onoda, Ono, Nishimura
BBa_B0031 on pSB1A2 into DH5α (as positive control)
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 µM | 0.4 µL |
200DN - PS - R 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 30 cycle |
Cycle 2 | 57.2℃ | 30 sec | Annealing | 30 cycle |
Cycle 3 | 72℃ | 30 sec | Elongation | 30 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Electrophoresis
Onoda, Ono
Thanatin fragment derived from annealing TA primer (colony PCR product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100 V | 60 min | 1/2 x TBE |
Electrophoresis
Ono, Mitsumoto, Fujita
BamHI - Thanatin - BglⅡ, NdeI - Thanatin - BamHI
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
PCR
Onoda
Thanatin fragment (Mini-prep product)
Reagent | Volume |
---|---|
Thanatin fragment (Mini-prep product) | 1 µL |
BamHI - Thanatin - F - Neo 10 µM | 1 µL |
BglⅡ - Asp - Thanatin - R - Neo 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 × PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 45 cycle |
Cycle 2 | 65.1℃ | 30 sec | Annealing | 45 cycle |
Cycle 3 | 68℃ | 30 sec | Elongation | 45 cycle |
Store | 4℃ | Hold | Store |
PCR
Onoda
Thanatin fragment (Mini-prep product)
Reagent | Volume |
---|---|
Thanatin fragment (Mini-prep product) | 1 µL |
NdeI - F - primer 10 µM | 1 µL |
BamHI - R - primer 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 × PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 45 cycle |
Cycle 2 | 66.5℃ | 30 sec | Annealing | 45 cycle |
Cycle 3 | 68℃ | 30 sec | Elongation | 45 cycle |
Store | 4℃ | Hold | Store |
Electrophoresis
Onoda
Thanatin fragment for TA cloning and last PCR prduct
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100 V | 60 min | 1/2 x TBE |
PCR
Fujita, Mimata
Ba_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031
Reagent | Volume |
---|---|
Ba_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031 | 1 µL |
100UP - EX - F 10 µM | 1 µL |
200DN - PS - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 35 cycle |
Cycle 2 | 68℃ | 60 sec | Annealing / Elongation | 35 cycle |
Store | 4℃ | Hold | Store |
Electrophoresis
Fujita, Mimata
Ba_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
Electrophoresis
Mitsumoto, Fujita
BamHI - Thanatin - BglⅡ, NdeI - Thanatin - BamHI
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
Colony PCR
Ono, Onoda
Thanatin fragment on pGEM - T vector into DH5α
Reagent | Volume |
---|---|
Single Colony | - |
NdeI - F - primer 10 µM | 0.4 µL |
BamHI - R - primer 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 62.9℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Colony PCR
Ono, Onoda
Thanatin fragment on pGEM - T vector into DH5α
Reagent | Volume |
---|---|
Single Colony | - |
T7 promoter primer 10 µM | 0.4 µL |
SP6 promoter primer 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 51℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Colony PCR
Ono, Onoda
BBa_B0031 on pSB1A2 into DH5α (as positive control)
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 µM | 0.4 µL |
200DN - PS - R 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 57℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Electrophoresis
Onoda
Thanatin fragment (Colony PCR product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 60 min | 1/2 x TBE |
Annealing Oligos and Elongation
Mitsumoto
Thanatin fragment (derived from annealing TA primers)
Reagent | Volume |
---|---|
TA - F - primer 10 µM | 1 µL |
TA - R - primer 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 34 µL |
Total | 50 µL |
Annealing Oligos and Elongation
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 1 min | Initialization | |
Cycle1 | 95℃ to 23℃ | 60 sec | Annealing | 45 cycle |
Cycle 2 | 68℃ | 30 sec | Elongation | 45 cycle |
Store | 4℃ | Hold | Store |
Annealing Oligos and Elongation
Mitsumoto
Thanatin fragment (derived from annealing TA primers)
Reagent | Volume |
---|---|
TA - F - primer 10 µM | 1 µL |
TA - R - primer 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 34 µL |
Total | 50 µL |
Annealing Oligos and Elongation
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 94℃ | 10 sec | Denaturation | 10 cycle |
Cycle 2 | 60℃ | 10 sec | Annealing | 10 cycle |
Cycle 3 | 68℃ | 30 sec | Elongation | 10 cycle |
Store | 4℃ | Hold | Store |
Annealing Oligos and Elongation
Mitsumoto
Thanatin fragment (derived from annealing TA primers)
Reagent | Volume |
---|---|
TA - F - primer 10 µM | 1 µL |
TA - R - primer 10 µM | 1 µL |
KOD - FX - Neo | 1 µL |
10 × PCR Buffer for KOD - FX - Neo | 25 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 14 µL |
Total | 50 µL |
Annealing Oligos and Elongation
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 1 min | Initialization | |
Cycle1 | 95℃ to 23℃ | 60 sec | Annealing | 45 cycle |
Cycle 2 | 68℃ | 30 sec | Elongation | 45 cycle |
Store | 4℃ | Hold | Store |
Annealing Oligos and Elongation
Mitsumoto
Thanatin fragment (derived from annealing TA primers)
Reagent | Volume |
---|---|
TA - F - primer 10 µM | 1 µL |
TA - R - primer 10 µM | 1 µL |
KOD - FX - NEO | 1 µL |
2 × PCR Buffer for KOD - FX - Neo | 25 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 14 µL |
Total | 50 µL |
Annealing Oligos and Elongation
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 94℃ | 10 sec | Denaturation | 10 cycle |
Cycle 2 | 60℃ | 10 sec | Annealing | 10 cycle |
Cycle 3 | 68℃ | 30 sec | Elongation | 10 cycle |
Store | 4℃ | Hold | Store |
Annealing Oligos and Elongation
Mitsumoto
Thanatin fragment (derived from annealing TA primers)
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 µM | 1 µL |
200DN - PS - R 10 µM | 1 µL |
KAPA Taq | 25 µL |
DW | 23 µL |
Total | 50 µL |
Annealing Oligos and Elongation
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 1 min | Initialization | |
Cycle 1 | 95℃ to 23℃ | 60 sec | Annealing | 45 cycle |
Cycle 2 | 68℃ | 30 sec | Elongation | 45 cycle |
Store | 4℃ | Hold | Store |
Annealing Oligos and Elongation
Mitsumoto
Thanatin fragment (derived from annealing TA primers)
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 µM | 1 µL |
200DN - PS - R 10 µM | 1 µL |
KAPA Taq | 25 µL |
DW | 23 µL |
Total | 50 µL |
Annealing Oligos and Elongation
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 94℃ | 10 sec | Denaturation | 10 cycle |
Cycle 2 | 60℃ | 10 sec | Annealing | 10 cycle |
Cycle 3 | 68℃ | 30 sec | Elongation | 10 cycle |
Store | 4℃ | Hold | Store |
Electrophoresis
Mitsumoto
Thanatin fragment (derived from annealing TA primers)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
2015/08/17
Annealing Oligos and Elongation
Nishimura, Onoda
Thanatin fragment (Mini-prep product)
Reagent | Volume |
---|---|
TA - F - primer 10 µM | 1 µL |
TA - R - primer 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 34 µL |
Total | 50 µL |
Annealing Oligos and Elongation
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 94℃ | 10 sec | Denaturation | 10 cycle |
Cycle 2 | 60℃ | 10 sec | Annealing | 10 cycle |
Cycle 3 | 68℃ | 30 sec | Elongation | 10 cycle |
Store | 4℃ | Hold | Store |
Annealing Oligos and Elongation
Nishimura, Onoda
Thanatin fragment (Mini-prep product)
Reagent | Volume |
---|---|
TA - F - primer 10 µM | 1 µL |
TA - R - primer 10 µM | 1 µL |
KAPA Taq | 25 µL |
DW | 23 µL |
Total | 50 µL |
(Tm value ≤ -℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 94℃ | 10 sec | Denaturation | 10 cycle |
Cycle 2 | 60℃ | 10 sec | Annealing | 10 cycle |
Cycle 3 | 72℃ | 30 sec | Elongation | 10 cycle |
Store | 4℃ | Hold | Store |
PCR
Nishimura, Ono, Onoda, Mimata
NdeⅠ - Thanatin - BamHⅠ
Reagent | Volume |
---|---|
NdeⅠ - Thanatin - BamHⅠ | 1 µL |
NdeⅠ - F - primer 10 µM | 1 µL |
BamHⅠ - R - primer 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 25 cycle |
Cycle 2 | 68℃ | 30 sec | Annealing / Elongation | 25 cycle |
Store | 4℃ | Hold | Store |
PCR
Nishimura, Ono, Onoda, Mimata
BamHI - Thanatin - BglⅡ
Reagent | Volume |
---|---|
BamHI - Thanatin - BglⅡ | 1 µL |
BamHI - Asp - Thanatin - R - Neo 10 µM | 1 µL |
BglⅡ - D - Tanatin - R - Neo 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 25 cycle |
Cycle 2 | 68℃ | 30 sec | Annealing / Elongation | 25 cycle |
Store | 4℃ | Hold | Store |
PCR Purification
Ono, MImata, Nishimura
Thanatin fragment (PCR 2STEP product)
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
Purification of PCR products
Electrophoresis
Nishimura, Ono
Thanatin fragment (PCR 2STEP product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
PCR
Ito, Ono, Onoda
Thanatin fragment (derived from annealing TA cloning)
Reagent | Volume |
---|---|
Thanatin fragment (derived from annealing TA cloning) | 1 µL |
NdeⅠ - F - primer 10 µM | 1 µL |
BamHⅠ - R - primer 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 45 cycle |
Cycle 2 | 65.1℃ | 30 sec | Annealing | 45 cycle |
Cycle 3 | 68℃ | 30 sec | Elongation | 45 cycle |
Store | 4℃ | Hold | Store |
PCR
Ito, Ono, Onoda
BamHⅠ - Thanatin - BglⅡ
Reagent | Volume |
---|---|
Thanatin fragment (derived from annealing TA cloning) | 1 µL |
BamHⅠ - Asp - Thanatin - R - Neo 10 µM | 1 µL |
BglⅡ - D - Tanatin - R - Neo 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 45 cycle |
Cycle 2 | 66.5℃ | 30 sec | Annealing | 45 cycle |
Cycle 3 | 68℃ | 30 sec | Elongation | 45 cycle |
Store | 4℃ | Hold | Store |
Digestion
Ono, Onoda
NdeⅠ - Thanatin - BamHⅠ
Reagent | Volume |
---|---|
NdeⅠ - Thanatin - BamHⅠ | 20 µL |
NdeⅠ | 1 µL |
BamHⅠ | 1 µL |
10 × K Buffer | 2 µL |
DW | 5 µL |
Total | 30 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 60 min | Digestion |
2 | 70℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
Digestion
Ono, Onoda
BamHⅠ - Thanatin - BglⅡ
Reagent | Volume |
---|---|
BamHⅠ - Thanatin - BglⅡ | 20 µL |
BamHⅠ | 1 µL |
BglⅡ | 1 µL |
10 × K Buffer | 2 µL |
DW | 5 µL |
Total | 30 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 60 min | Digestion |
2 | 70℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
2015/08/18
Electrophoresis
Nishimura, Ono
Thanatin fragment (PCR 2STEP product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
PCR Purification
Ono, Mimata, Nishimura
Thanatin fragment (PCR 2STEP product)
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
Purification of PCR products
Annealing Oligos and Elongation
Mimata
Thanatin fragment (derived from annealing TA cloning)
Reagent | Volume |
---|---|
TA - F - primer 10 µM | 5 µL |
TA - R - primer 10 µM | 5 µL |
TE 0.8 M NaCl | 10 µL |
Total | 50 µL |
Annealing Oligos and Elongation
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 2 min | Initialization | |
Step1 | 95℃ to 25℃ | 20 min | Annealing | 1|
Store | 4℃ | Hold | Store |
PCR
Mimata
Thanatin fragment (derived from annealing)
Reagent | Volume |
---|---|
Thanatin fragment (derived from annealing) | 1 µL |
NdeⅠ - F - primer 10 µM | 1 µL |
BamHⅠ - R - primer 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 25 cycle |
Cycle 2 | 68℃ | 30 sec | Annealing / Elongation | 25 cycle |
Store | 4℃ | Hold | Store |
PCR
Mimata
Thanatin fragment (derived from annealing)
Reagent | Volume |
---|---|
Thanatin fragment (derived from annealing) | 1 µL |
BamHⅠ - Asp - Thanatin - R - Neo 10 µM | 1 µL |
BglⅡ - D - Tanatin - R - Neo 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 25 cycle |
Cycle 2 | 68℃ | 30 sec | Annealing / Elongation | 25 cycle |
Store | 4℃ | Hold | Store |
PCR Purification
Ono, Mimata, Nishimura
Thanatin fragment (PCR 2STEP product)
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
Purification of PCR products
Digestion
Ono, Onoda, Nishimura
NdeⅠ - Thanatin - BamHⅠ
Reagent | Volume |
---|---|
NdeⅠ - Thanatin - BamHⅠ | 20 µL |
NdeⅠ | 1 µL |
BamHⅠ | 1 µL |
10 × K Buffer | 2 µL |
DW | 5 µL |
Total | 30 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 60 min | Digestion |
2 | 70℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
Digestion
Ono, Onoda, Nishimura
BamHⅠ - Thanatin - BglⅡ
Reagent | Volume |
---|---|
BamHⅠ - Thanatin - BglⅡ | 20 µL |
BamHⅠ | 1 µL |
BglⅡ | 1 µL |
10 × K Buffer | 2 µL |
DW | 5 µL |
Total | 30 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 60 min | Digestion |
2 | 70℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
Ligation
Onoda, Mimata
Thanatin fragment on pGEM T - vector / Thanatin fragment (derived from annealing TA cloning)
Reagent | Volume |
---|---|
pGEM T - vector | 1 µL |
Thanatin fragment | 3 µL |
2 × Ligation Buffer | 5 µL |
T4 Ligase | 1 µL |
Total | 10 µL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 4℃ | 6 hour | Ligation |
2 | 65℃ | 10 min | Inactivation |
Store | 4℃ | Hold | Store |
2015/08/19
PCR
Ono
Thanatin fragment (derived from annealing)
Reagent | Volume |
---|---|
Thanatin fragment (derived from annealing) | 1 µL |
NdeⅠ - F - primer 10 µM | 1 µL |
BamHⅠ - R - primer 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 94℃ | 10 sec | Denaturation | 40 cycle |
Cycle 2 | 60℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 68℃ | 30 sec | Elongation | 40 cycle |
Store | 4℃ | Hold | Store |
PCR
Ono
Thanatin fragment (derived from annealing)
Reagent | Volume |
---|---|
Thanatin fragment (derived from annealing) | 1 µL |
BamHⅠ - Thanatin - F 10 µM | 1 µL |
BglⅡ - Tanatin - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 94℃ | 10 sec | Denaturation | 40 cycle |
Cycle 2 | 60℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 68℃ | 30 sec | Elongation | 40 cycle |
Store | 4℃ | Hold | Store |
Ethanol Precipitation
Mimata, Ono
NdeⅠ - Thanatin - BamHⅠ (PCR 3STEP product), BamHⅠ - Thanatin - BglⅡ (PCR 3STEP product)
- Added 2 µL of NaOAc, 1 µL of glycogen and 50 µL of 100% ethanol.
- Left it at -80℃ for 30 min.
- Centrifuged at 15,000 rpm for 15 min at 4℃.
- Removed supernatant and added 100 µL of 70% ethanol.
- Centrifuged at 15,000 rpm for 10 min at 4℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 10 µL of TE.
Electrophoresis
Mimata
NdeⅠ - Thanatin - BamHⅠ, BamHⅠ - Thanatin - BglⅡ
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
PCR
Ono
BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ
Reagent | Volume |
---|---|
BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ | 1 µL |
BamHⅠ - Thanatin - F 10 µM | 1 µL |
BglⅡ - Thanatin - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 40 cycle |
Cycle 2 | 68℃ | 30 sec | Annealing / Elongation | 40 cycle |
Store | 4℃ | Hold | Store |
PCR
Ono
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ
Reagent | Volume |
---|---|
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ | 1 µL |
XbaⅠ - Thanatin - F 10 µM | 1 µL |
NdeⅠ - Thanatin - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 40 cycle |
Cycle 2 | 68℃ | 30 sec | Annealing / Elongation | 40 cycle |
Store | 4℃ | Hold | Store |
Ethanol Precipitation
Ono
NdeⅠ - Thanatin - BamHⅠ (PCR 2STEP product), BamHⅠ - Thanatin - BglⅡ (PCR 2STEP product)
- Added 2 µL of NaOAc, 1 µL of glycogen, 7 µL of DW and 50 µL of 100% ethanol.
- Left it at room temperature for 15 min.
- Centrifuged at 15,000 rpm for 15 min at 4℃.
- Removed supernatant and added 100 µL of 70% ethanol.
- Centrifuged at 15,000 rpm for 10 min at 4℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 10 µL of DW.
Digestion
Ono, Onoda, Mimata, Sakai
NdeⅠ - Thanatin - BamHⅠ
Reagent | Volume |
---|---|
NdeⅠ - Thanatin - BamHⅠ | 20 µL |
NdeⅠ | 1 µL |
BamHⅠ | 1 µL |
10 × K Buffer | 3 µL |
DW | 5 µL |
Total | 30 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 60℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
Digestion
Ono, Onoda, Mimata, Sakai
BamHⅠ - Thanatin - BglⅡ
Reagent | Volume |
---|---|
BamHⅠ - Thanatin - BglⅡ | 20 µL |
BamHⅠ | 1 µL |
BglⅡ | 1 µL |
10 × K Buffer | 3 µL |
DW | 5 µL |
Total | 30 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 60℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
Digestion
Ono, Onoda, Mimata, Sakai
pET - 15b vector, pET - 16b vector
Reagent | Volume |
---|---|
pET - 15b vector, pET - 16b vector | 20 µL |
NdeⅠ | 1 µL |
BamHⅠ | 1 µL |
10 × K Buffer | 3 µL |
DW | 5 µL |
Total | 30 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 60℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
Transformation
Onoda
Thanatin fragment on pGEM - T vector
- Added 1 µL of Thanatin fragment on pGEM - T vector to 50 µL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Spread 300 µL of the culture onto plate with LBA.
- Incubated the plate at 37℃ for 18 hours.
2015/08/20
Electrophoresis
Ono, Nishimura, Mimata
NdeⅠ - Thanatin - BamHⅠ (digestion product), BamHⅠ - Thanatin - BglⅡ digestion product), BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ (PCR 2STEP product), XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (PCR 2STEP product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
Electrophoresis
Ono, Nishimura, Mimata
pET - 15b vector (digestion product), pET - 16b vector (digestion product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 60 min | 1/2 x TBE |
Gel Extract
Nishimura, Ono
pET - 15b vector, pET - 16b vector
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
Digestion
Ono, Nishimura, Ito
BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ(PCR 2STEP poduct)
Reagent | Volume |
---|---|
BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ (PCR 2STEP poduct) | 9 µL |
BamHⅠ | 5 µL |
BglⅡ | 5 µL |
10 × K Buffer | 10 µL |
DW | 71 µL |
Total | 100 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 70℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
Digestion
Ono, Nisimura, Ito
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (PCR 2STEP poduct)
Reagent | Volume |
---|---|
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (PCR 2STEP poduct) | 9 µL |
XbaⅠ | 5 µL |
SpeⅠ | 5 µL |
10 × K Buffer | 10 µL |
DW | 71 µL |
Total | 100 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 80℃ | 20 min | Inactivation |
Store | 4℃ | Hold | Store |
Digestion
Ono, Nishimura, Ito
BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
BBa_B0015 on pSB1C3 | 20 µL |
SpeⅠ | 1 µL |
CutSmart Buffer | 3 µL |
DW | 6 µL |
Total | 30 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 80℃ | 20 min | Inactivation |
Store | 4℃ | Hold | Store |
Ethanol Precipitation
Ito
BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ (digestion product), XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (digestion product)
- Added 9 µL of NaOAc, 1.5 µL of glycogen and 270 µL of 100% ethanol.
- Left it at -80℃ for 1 hr.
- Centrifuged at 15,000 rpm for 15 min at 4℃.
- Removed supernatant and added 220 µL of 70% ethanol.
- Centrifuged at 15,000 rpm for 10 min at 4℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 10 µL of TE.
Ito
Electrophoresis
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (digestion product, Ethanol Precipitation product), BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ (digestion product, Ethanol Precipitation product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 60 min | 1/2 x TBE |
2015/08/21
PCR
Ono, Nishimura, Onoda
BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ
Reagent | Volume |
---|---|
BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ | 1 µL |
BamHⅠ - Thanatin - F 10 µM | 1 µL |
BglⅡ - Thanatin - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 40 cycle |
Cycle 2 | 68℃ | 30 sec | Annealing / Elongation | 40 cycle |
Store | 4℃ | Hold | Store |
PCR
Ono, Nishimura, Onoda
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ
Reagent | Volume |
---|---|
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ | 1 µL |
XbaⅠ - Thanatin - F 10 µM | 1 µL |
SpeⅠ - Thanatin - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 40 cycle |
Cycle 2 | 68℃ | 30 sec | Annealing / Elongation | 40 cycle |
Store | 4℃ | Hold | Store |
Electrophoresis
Ono, Onoda, Nishimura
XbaⅠ - Thanatin - SpeⅠ, BamHⅠ- Thanatin - BglⅡ
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
Ethanol Precipitation
Ono, Nishimura
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ, BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ
- Added 3 µL of NaOAc, 1 µL of glycogen and 90 µL of 100% ethanol.
- Left it at -80℃ for 10 min.
- Centrifuged at 15,000 rpm for 5 min at 4℃.
- Removed supernatant and added 100 µL of 70% ethanol.
- Centrifuged at 15,000 rpm for 5 min at 4℃.
- Removed supernatant and air-dried at room temperature.
- Suspended with 10 µL of TE.
Electrophoresis
Ono, Nishimura
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (after Ethanol Prescipitation) BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ (after Ethanol Precipitation)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
Ligation
Ono, Nishimura, Ito
BBa_K759012 on pSB1C3 / BamHⅠ - Thanatin - BglⅡ
Reagent | Volume |
---|---|
BBa_K759012 on pSB1C3 | 5 µL |
BamHⅠ - Thanatin - BglⅡ | 1 µL |
10 × T4 DNA Ligase Buffer | 7 µL |
T4 Ligase | 1 µL |
Total | 14 µL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 16℃ | 30 min | Ligation |
Store | 4℃ | Hold | Store |
Ligation
Ono, Nishimura, Ito
BBa_B0015 on pSB1C3 / XbaⅠ - Thanatin - SpeⅠ
Reagent | Volume |
---|---|
BBa_B0015 on pSB1C3 | 5 µL |
XbaⅠ - Thanatin - SpeⅠ | 1 µL |
10 × T4 DNA Ligase Buffer | 7 µL |
T4 DNA Ligase | 1 µL |
Total | 14 µL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 16℃ | 30 min | Ligation |
Store | 4℃ | Hold | Store |
Transformation
Onoda
Thanatin - BBa_K759012 on pSB1C3, Thanatin - BBa_B0015 on pSB1C3
- Added 5 µL of Thanatin - BBa_K759012 on pSB1C3, Thanatin - BBa_B0015 on pSB1C3 to 50 µL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 200 µL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 300 µL of the culture onto plate with LBC.
- Incubated the plate at 37℃ for 16 hours.
Digestion
Onoda, Ono
BBa_B0033 on pSB1C3, XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ, XbaⅠ - BBa_K168000
Reagent | Volume |
---|---|
BBa_B0033 on pSB1C3, XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ, XbaⅠ - BBa_K168000 | 20 µL |
XbaⅠ | 1 µL |
SpeⅠ | 1 µL |
10 × M Buffer | 3 µL |
DW | 5 µL |
Total | 30 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 60 min | Digestion |
2 | 80℃ | 20 min | Inactivation |
Store | 4℃ | Hold | Store |
Digestion
Onoda
BBa_E0040 on pSB1C3, BBa_R0040 on pSB1C3
Reagent | Volume |
---|---|
BBa_E0040 on pSB1C3, BBa_R0040 on pSB1C3 | 20 µL |
XbaⅠ | 1 µL |
CutSmart Buffer | 3 µL |
DW | 6 µL |
Total | 30 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 60 min | Digestion |
2 | 60℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
2015/08/22
Electrophoresis
Ono, Nishimura
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (digestion product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
Digestion
Ono, Onoda
BBa_R0010 - BBa_B0034 on pSB1C3
Reagent | Volume |
---|---|
BBa_R0010 - BBa_B0034 on pSB1C3 | 20 µL |
SpeⅠ - HF | 1 µL |
10 × M Buffer | 5 µL |
DW | 24 µL |
Total | 50 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
Store | 4℃ | Hold | Store |
Electrophoresis
Ono, Onoda
BBa_R0010 - BBa_B0034 on pSB1C3 (Digestion product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 45 min | 1/2 x TBE |
Ethanol Precipitation
Ono
BBa_R0010 - BBa_B0034 on pSB1C3 (Digestion product)
- Added 5 µL of NaOAc, 1.5 µL of glycogen and 150 µL of 100% ethanol.
- Left it at -80℃ for 1 hr.
- Centrifuged at 15,000 rpm for 5 min at 4℃.
- Removed supernatant and added 100 µL of 70% ethanol.
- Centrifuged at 15,000 rpm for 10 min at 4℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 10 µL of TE.
Colony PCR
Ono, Onoda
Thanatin - BBa_K759012 on pSB1C3, nothing (as a negative control)
Reagent | Volume |
---|---|
Single Colony | - |
AGSP - BamHⅠ - Spidroin 10 µM | 0.4 µL |
BglⅡ - D - Thanatin 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 65℃ | 40 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Colony PCR
Ono, Onoda
BBa_B0031 on pSB1A2 (as Positive Control)
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 µM | 0.4 µL |
200DN - PS - R 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 57℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Electrophoresis
Ono, Onoda
Thanatin - BBa_K759012 on pSB1C3 (Colony PCR product), BBa_B0031 on pSB1A2 (Colony PCR product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 45 min | 1/2 x TBE |
Ligation
Ono
BBa_R0010 - BBa_B0034 on pSB1C3 / XbaⅠ - Thanatin - SpeⅠ
Reagent | Volume |
---|---|
BBa_R0010 - BBa_B0034 on pSB1C3 | 5 µL |
XbaⅠ - Thanatin - SpeⅠ | 4 µL |
Mighty Mix | 10 µL |
DW | 1 µL |
Total | 20 µL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 16℃ | 30 min | Ligation |
Store | 4℃ | Hold | Store |
Transformation
Ono
BBa_R0010 - BBa_B0034 on pSB1C3
- Added 1 µL of BBa_R0010 - BBa_B0034 on pSB1C3 to 50 µL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 200 µL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 300 µL of the culture onto plate with LBC.
- Incubated the plate at 37℃ for 16 hours.
PCR
Onoda
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ
Reagent | Volume |
---|---|
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ | 1 µL |
XbaI - B0034 - XS scar - F 10 µM | 1 µL |
SpeⅠ - Thanatin - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 30 cycle |
Cycle 2 | 68℃ | 30 sec | Annealing / Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
Electrophoresis
Onoda
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 50 min | 1/2 x TBE |
PCR
Onoda
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ
Reagent | Volume |
---|---|
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ | 1 µL |
XbaI - B0034 - XS scar - F 10 µM | 1 µL |
SpeⅠ - Thanatin - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 30 cycle |
Cycle 2 | 68℃ | 30 sec | Annealing / Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
Transformation
Mitsumoto
BBa_K206000 on pSB1C3, BBa_K206001 on pSB1C3, BBa_I0500 - BBa_B0034 - BBa_R0040 on pSB1C3, BBa_B0034 - BBa_E0040 on pSB1C3, BBa_B0034 - BBa_R0040 on pSB1C3, BBa_B0034 - BBa_E0040 - BBa_B0015 on pSB1C3, BBa_I0500 on pSB1C3, BBa_B0034 - BBa_R0040 - BBa_B0015 on pSB1C3
- Added 5 μL of BBa_K206000 on pSB1C3, BBa_K206001 on pSB1C3, BBa_I0500 - BBa_B0034 - BBa_R0040 on pSB1C3, BBa_B0034 - BBa_E0040 on pSB1C3, BBa_B0034 - BBa_R0040 on pSB1C3, BBa_B0034 - BBa_E0040 - BBa_B0015 on pSB1C3, BBa_I0500 on pSB1C3, BBa_B0034 - BBa_R0040 - BBa_B0015 on pSB1C3 to 50 μL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 200 μL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 200 μL of the culture onto plate with LBC.
- Incubated the plate at 37℃ for 15 hours.
Transformation
Mitsumoto
BBa_B0034 - BBa_R0040 - BBa_B0015 on pSB1A2
- Added 5 μL of BBa_B0034 - BBa_R0040 - BBa_B0015 on pSB1A2 to 50 μL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Spread 200 μL of the culture onto plate with LBA.
- Incubated the plate at 37℃ for 18 hours.
Liquid Culture
Mitsumoto
BBa_K206000 on pSB1C3, BBa_K206001 on pSB1C3, BBa_I0500 - BBa_B0034 - BBa_R0040 on pSB1C3, BBa_B0034 - BBa_E0040 on pSB1C3, BBa_B0034 - BBa_R0040 on pSB1C3, BBa_B0034 - BBa_E0040 - BBa_B0015 on pSB1C3, BBa_I0500 on pSB1C3, BBa_B0034 - BBa_R0040 - BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
Single Colony | - |
LBC | 2000 μL |
Chloramphenicol | 2 μL |
Cultured for 12 hours.
Liquid Culture
Mitsumoto
BBa_B0034 - BBa_R0040 - BBa_B0015 on pSB1A2
Reagent | Volume |
---|---|
Single Colony | - |
LBA | 2000 μL |
Ampicillin | 2 μL |
Cultured for 12 hours.
2015/08/23
Electrophoresis
Ono
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (PCR 2STEP product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
Gel Extract
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
Colony PCR
Ito, Ono, Onoda
BBa_R0010 - BBa_B0034 - Thanatin, nothing (as a negative control)
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 µM | 0.4 µL |
SpeⅠ - Thanatin - R 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 57℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Colony PCR
Ito, Ono, Onoda
BBa_B0030 on pSB1A2 (as a positive control)
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 µM | 0.4 µL |
200DN - PS - R 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 57℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
2015/08/24
Mini-prep
Ono, Nishimura
Thanatin - BBa_K759012 on pSB1C3
FastGeneTM Plasmid mini kit (Nippon Genetics Co.,Ltd)
standard protocol
Colony PCR
Ono, Nishimura
BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3, nothing (as a negative control), BBa_B0030 on pSB1A2 (as a positive control)
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 µM | 0.4 µL |
SpeⅠ - Thanatin - R 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 57℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Colony PCR
Ono, Nishimura
Thanatin - BBa_K759012 on pSB1C3
Reagent | Volume |
---|---|
Single Colony | - |
AGSP - BamHⅠ - Spidroin 10 µM | 0.4 µL |
BBa_K759012 - R 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 65℃ | 40 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Electrophoresis
Ono, Nishimura
BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3, Thanatin - BBa_K759012 on pSB1C3
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
Digestion
Ono, Nishimura
BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3
Reagent | Volume |
---|---|
BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3 | 20 µL |
SpeⅠ - HF | 1 µL |
CutSmart Buffer | 3 µL |
DW | 6 µL |
Total | 30 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 80℃ | 20 min | Inactivation |
Store | 4℃ | Hold | Store |
Electrophoresis
Ono, Nishimura
BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3 (digestion product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
Liquid Culture
Ono, Nishimura
Thanatin - BBa_K759012 on pSB1C3 into DH5α
Reagent | Volume |
---|---|
Single Colony | - |
LB | 2000 µL |
Chloramphenicol | 2 µL |
Cultured for 16 hours.
2015/08/25
Liquid Culture
Ono, Nishimura
Thanatin - BBa_K759012 on pSB1C3 into DH5α, BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3 into DH5α
Reagent | Volume |
---|---|
Single Colony | - |
LB | 2000 µL |
Chloramphenicol | 2 µL |
Cultured for 16 hours.
Sequencing
Ono, Nishimura
Thanatin - BBa_K759012 on pSB1C3
Reagent | Volume |
---|---|
Thanatin - BBa_K759012 on pSB1C3 | 1 µL |
pbad - F2 / 200 - βdomain BBa_K759012 - R | 1.5 µL |
BigDye Terminator | 1 µL |
5 x Sequencing Buffer | 1.5 µL |
DW | 5 µL |
Total | 10 µL |
Sequencing
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 96℃ | 10 sec | Denaturation | |
Cycle 1 | 50℃ | 5 sec | - | 30 cycle |
Cycle 2 | 60℃ | 240 sec | - | 30 cycle |
Store | 4℃ | Hold | Store |
Ethanol Precipitation
Ono, Nishimura
Thanatin - BBa_K759012 on pSB1C3
- Added 5 µL of NaOAc, 1.5 µL of glycogen and 150 µL of 100% ethanol.
- Left it at -80℃ for 1 hr.
- Centrifuged at 15,000 rpm for 15 min at 4℃.
- Removed supernatant and added 220 µL of 70% ethanol.
- Centrifuged at 15,000 rpm for 10 min at 4℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 10 µL of DW.
PCR
Ono, Nishimura
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ
Reagent | Volume |
---|---|
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ | 1 µL |
XbaⅠ - BBa_B0034 - XS scar - F 10 µM | 1 µL |
SpeⅠ - Thanatin - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 40 cycle |
Cycle 2 | 55℃ | 10 sec | Annealing | 40 cycle |
Cycle 3 | 68℃ | 30 sec | Elongation | 40 cycle |
Store | 4℃ | Hold | Store |
Ethanol Precipitation
Fujita, Nishimura
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ
- Added 5 µL of NaOAc, 1.5 µL of glycogen and 150 µL of 100% ethanol.
- Left it at -80℃ for 1 hr.
- Centrifuged at 15,000 rpm for 15 min at 4℃.
- Removed supernatant and added 220 µL of 70% ethanol.
- Centrifuged at 15,000 rpm for 10 min at 4℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 10 µL of TE.
Electrophoresis
Fujita
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
2015/08/26
PCR
Ono、Nishimura
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ
Reagent | Volume |
---|---|
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ | 1 µL |
XbaⅠ - BBa_B0034 - XS scar - F 10 µM | 1 µL |
SpeⅠ - Thanatin - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 40 cycle |
Cycle 2 | 55℃ | 10 sec | Annealing | 40 cycle |
Cycle 3 | 68℃ | 30 sec | Elongation | 40 cycle |
Store | 4℃ | Hold | Store |
PCR
Ono, Nishimura
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ
Reagent | Volume |
---|---|
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ | 1 µL |
XbaⅠ - BBa_B0034 - XS scar - F 10 µM | 1 µL |
SpeⅠ - Thanatin - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 40 cycle |
Cycle 2 | 53℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 68℃ | 30 sec | Elongation | 40 cycle |
Store | 4℃ | Hold | Store |
PCR
Ono, Nishimura, Fujita
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ
Reagent | Volume |
---|---|
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ | 1 µL |
XbaⅠ - BBa_B0034 - XbaⅠ / SpeⅠ scar - F 10 µM | 1 µL |
SpeⅠ - Thanatin - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 30 cycle |
Cycle 2 | 68℃ | 30 sec | Annealing / Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
Electrophoresis
Ono, Nishimura, Fujita
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (PCR 2STEP, 3STEP products)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
Ethanol Precipitation
Fujita, Nishimura, Ono
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (PCR 2STEP product)
- Added 4 µL of NaOAc, 1.5 µL of glycogen and 120 µL of 100% ethanol.
- Left it at -80℃ for 1 hr.
- Centrifuged at 15,000 rpm for 5 min at 4℃.
- Removed supernatant and added 100 µL of 70% ethanol.
- Centrifuged at 15,000 rpm for 10 min at 4℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 10 µL of TE.
Mini-prep
Nishimura, Ono
BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3
FastGeneTM Plasmid mini kit (Nippon Genetics Co.,Ltd)
standard protocol
Sequencing
Fujita, Nishimura, Ono
BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3 (Mini-prep product)
Reagent | Volume |
---|---|
BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3 (Mini-prep producrt) | 1 µL |
100UP - EX - F / 200DN - PS - R | 1.5 µL |
Ready Reaction Premix | 1 µL |
5 x Sequencing Buffer | 1.5 µL |
DW | 5 µL |
Total | 10 µL |
Sequencing
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 96℃ | 10 sec | Denaturation | |
Cycle 1 | 50℃ | 5 sec | - | 30 cycle |
Cycle 2 | 60℃ | 240 sec | - | 30 cycle |
Store | 4℃ | Hold | Store |
Ethanol Precipitation
Fujita, Nishimura, Ono
BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3 (Sequencing PCR product)
- Added 5 µL of NaOAc, 1.5 µL of glycogen and 150 µL of 100% ethanol.
- Left it at -80℃ for 1 hr.
- Centrifuged at 15,000 rpm for 15 min at 4℃.
- Removed supernatant and added 220 µL of 70% ethanol.
- Centrifuged at 15,000 rpm for 10 min at 4℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 10 µL of TE.
2015/08/27
Ligation
Ono, Ito
BBa_K759012 on pSB1C3 (dephosphorylated) / BamHⅠ - Thanatin - BglⅡ
Reagent | Volume |
---|---|
BBa_K759012 on pSB1C3 | 5 µL |
BamHⅠ - Thanatin - BglⅡ | 4 µL |
Mighty Mix | 10 µL |
DW | 1 µL |
Total | 20 µL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 16℃ | 30 min | Ligation |
Store | 4℃ | Hold | Store |
Ligation
Ono, Ito
BBa_K759012 on pSB1C3 (not phosphorylated)
Reagent | Volume |
---|---|
BBa_K759012 on pSB1C3 | 2 µL |
Mighty Mix | 2 µL |
DW | 6 µL |
Total | 10 µL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 16℃ | 30 min | Ligation |
Store | 4℃ | Hold | Store |
Ligation
Ono, Ito
BBa_K759012 on pSB1C3 (phosphorylated)
Reagent | Volume |
---|---|
BBa_K759012 on pSB1C3 | 2 µL |
Mighty Mix | 2 µL |
DW | 6 µL |
Total | 10 µL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 16℃ | 30 min | Ligation |
Store | 4℃ | Hold | Store |
Transformation
Ono, Ito
Thanatin - BBa_K759012 on pSB1C3, self ligated BBa_K759012 on pSB1C3, linearized BBa_K759012 on pSB1C3, self ligated BBa_K759012 on pSB1C3 (phosphorylated), linearized BBa_K759012 on pSB1C3 (phosphorylated)
- Added 1 µL of Thanatin - BBa_K759012 on pSB1C3, self ligated BBa_K759012 on pSB1C3, linearized BBa_K759012 on pSB1C3, self ligated BBa_K759012 on pSB1C3 (phosphorylated), linearized BBa_K759012 on pSB1C3 (phosphorylated) or linearized BBa_K759012 on pSB1C3 (phosphorylated) to 50 µL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 200 µL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 300 µL of the culture onto plate with LBC.
- Incubated the plate at 37℃ for 12 hours.
Colony PCR
Ito, Ono
Thanatin - BBa_K759012 on pSB1C3
Reagent | Volume |
---|---|
Single Colony | - |
Agsp - BamHⅠ - Spidroin 10 µM | 0.4 µL |
BBa_K759012 - bunit - R / BglⅡ - D - Thanatin - R 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 65℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 60 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
2015/08/28
Electrophoresis
Fujita, Ono
BamHⅠ - Thanatin - BglⅡ, XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
Ethanol Precipitation
Fujita
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ
- Added 5 µL of NaOAc, 1.5 µL of glycogen and 150 µL of 100% ethanol.
- Left it at -80℃ for 1 hr.
- Centrifuged at 15,000 rpm for 15 min at 4℃.
- Removed supernatant and added 220 µL of 70% ethanol.
- Centrifuged at 15,000 rpm for 10 min at 4℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 10 µL of TE.
Electrophoresis
Fujita, Ono
BamHⅠ - Thanatin - BglⅡ
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
Gel Extract
Fujita
BamHⅠ - Thanatin - BglⅡ
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
PCR
Fujita, Ono
XbaⅠ - Thanatin - SpeⅠ
Reagent | Volume |
---|---|
XbaⅠ - Thanatin - SpeⅠ | 1 µL |
XbaⅠ - Thanatin - F 10 µM | 1 µL |
SpeⅠ - Thanatin - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 30 cycle |
Cycle 2 | 68℃ | 30 sec | Annealing / Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
PCR
Fujita, Ono
XbaⅠ - Thanatin - SpeⅠ
Reagent | Volume |
---|---|
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ | 1 µL |
XbaⅠ - Thanatin - F 10 µM | 1 µL |
SpeⅠ - Thanatin - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 30 cycle |
Cycle 2 | 67℃ | 30 sec | Annealing | 30 cycle |
Cycle 3 | 68℃ | 30 sec | Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
PCR
Fujita, Ono
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ
Reagent | Volume |
---|---|
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ | 1 µL |
XbaⅠ - Thanatin - F 10 µM | 1 µL |
SpeⅠ - Thanatin - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 30 cycle |
Cycle 2 | 68℃ | 30 sec | Annealing / Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
PCR
Fujita, Ono
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ
Reagent | Volume |
---|---|
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ | 1 µL |
XbaⅠ - Thanatin - F 10 µM | 1 µL |
SpeⅠ - Thanatin - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 30 cycle |
Cycle 2 | 67℃ | 30 sec | Annealing | 30 cycle |
Cycle 3 | 68℃ | 30 sec | Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
PCR
Fujita, Ono
BamHⅠ - Thanatin - BglⅡ
Reagent | Volume |
---|---|
BamHⅠ - Thanatin - BglⅡ | 1 µL |
BamHⅠ - Thanatin - F 10 µM | 1 µL |
BglⅡ - Thanatin - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 30 cycle |
Cycle 2 | 68℃ | 30 sec | Annealing / Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
PCR
Fujita, Ono
BamHⅠ - Thanatin - BglⅡ
Reagent | Volume |
---|---|
BamHⅠ - Thanatin - BglⅡ | 1 µL |
BamHⅠ - Thanatin - F 10 µM | 1 µL |
BglⅡ - Thanatin - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 30 cycle |
Cycle 2 | 67℃ | 30 sec | Annealing | 30 cycle |
Cycle 3 | 68℃ | 30 sec | Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
Electrophoresis
Fujita, Ono
XbaⅠ - Thanatin - SpeⅠ, XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ, BamHⅠ - Thanatin - BglⅡ
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
Digestion
Ono, Fujita
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ
Reagent | Volume |
---|---|
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ | 20 µL |
SpeⅠ | 1 µL |
XbaⅠ | 1 µL |
10 × M Buffer | 3 µL |
0.1%BSA | 3 µL |
DW | 2 µL |
Total | 30 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
Store | 4℃ | Hold | Store |
Digestion
Ono, Fujita
BamHⅠ - Thanatin - BglⅡ
Reagent | Volume |
---|---|
BamHⅠ - Thanatin - BglⅡ | 20 µL |
BamHⅠ | 1 µL |
BglⅡ | 1 µL |
10 × K Buffer | 3 µL |
DW | 5 µL |
Total | 30 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
Store | 4℃ | Hold | Store |
2015/08/29
Electrophoresis
Fujita, Ono
XbaⅠ - Thanatin - SpeⅠ
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
Gel Extract
Fujita, Ono
XbaⅠ - Thanatin - SpeⅠ
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
Ethanol Precipitation
Fujita, Ono
XbaⅠ - Thanatin - SpeⅠ
- Added 20 µL of NaOAc, 1.5 µL of glycogen and 600 µL of 100% ethanol.
- Left it at -80℃ for 1 hr.
- Centrifuged at 15,000 rpm for 15 min at 4℃.
- Removed supernatant and added 100 µL of 70% ethanol.
- Centrifuged at 15,000 rpm for 10 min at 4℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 10 µL of TE.
Electrophoresis
Fujita, Ono
XbaⅠ - Thanatin - SpeⅠ
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
PCR
Ono
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ
Reagent | Volume |
---|---|
XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ | 1 µL |
XbaⅠ - Thanatin - F 10 µM | 1 µL |
SpeⅠ - Thanatin - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 40 cycle |
Cycle 2 | 68℃ | 30 sec | Annealing / Elongation | 40 cycle |
Store | 4℃ | Hold | Store |
Ethanol Precipitation
Ono
BamHⅠ - Thanatin - BglⅡ (Digestion product), XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (Digestion product)
- Added 3 µL of NaOAc, 1.5 µL of glycogen and 90 µL of 100% ethanol.
- Left it at -80℃ for 10 min.
- Centrifuged at 15,000 rpm for 5 min at 4℃.
- Removed supernatant and added 100 µL of 70% ethanol.
- Centrifuged at 15,000 rpm for 5 min at 4℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 10 µL of TE.
Electrophoresis
Fujita, Mimata
BBa_B0033, Thanatin - BBa_K759012, BBa_R0010 - Thanatin, BBa_R0040, BBa_E0040
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 60 min | 1/2 x TBE |
Electrophoresis
Fujita, Mimata
BamHⅠ - Thanatin - BglⅡ, XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ, XbaⅠ - Thanatin - SpeⅠ
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
Digestion
Fujita
BBa_R0010 - BBa_B0034 on pSB1C3
Reagent | Volume |
---|---|
BBa_R0010 - BBa_B0034 on pSB1C3 | 20 µL |
SpeⅠ - HF | 1 µL |
CutSmart Buffer | 3 µL |
DW | 6 µL |
Total | 30 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 80℃ | 20 min | Inactivation |
Store | 4℃ | Hold | Store |
Transformation
Mitsumoto
BBa_B0015 on pSB1C3
- Added 5 μL of BBa_B0015 on pSB1C3 to 50 μL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 200 μL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 200 μL of the culture onto plate with LBC.
- Incubated the plate at 37℃ for 16 hours.
Transformation
Mitsumoto
BBa_I0500 on pSB2K3
- Added 5 μL of BBa_I0500 on pSB2K3 to 50 μL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 200 μL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 200 μL of the culture onto plate with LBK.
- Incubated the plate at 37℃ for 16 hours.
PCR (2 STEP)
Mitsumoto
HLA on pCOLA
Reagent | Volume |
---|---|
HLA on pCOLA | 1 μL |
XbaI - HLA - F - primer 10 μM | 1 μL |
SpeI - HLA - R - primer 10 μM | 1 μL |
KOD - Plus - Neo | 1 μL |
10 x PCR Buffer for KOD - Plus - Neo | 5 μL |
2 mM dNTPs | 5 μL |
25 mM MgSO4 | 3 μL |
DW | 33 μL |
Total | 50 μL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 35 cycle |
Cycle 2 | 68℃ | elongation time | Annealing / Elongation | 35 cycle |
Store | 4℃ | Hold | Store |
PCR (3 STEP)
Mitsumoto
HLZ on pCOLA
Reagent | Volume |
---|---|
HLZ on pCOLA | 1 μL |
XbaI - HLZ - F - primer 10 μM | 1 μL |
SpeI - HLZ - R - primer 10 μM | 1 μL |
KOD - Plus - Neo | 1 μL |
10 x PCR Buffer for KOD - Plus - Neo | 5 μL |
2 mM dNTPs | 5 μL |
25 mM MgSO4 | 3 μL |
DW | 33 μL |
Total | 50 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 35 cycle |
Cycle 2 | 62.7℃ | 30 sec | Annealing | 35 cycle |
Cycle 3 | 68℃ | elongation time | Elongation | 35 cycle |
Store | 4℃ | Hold | Store |
PCR (3 STEP)
Mitsumoto
BLA on pCOLA
Reagent | Volume |
---|---|
BLA on pCOLA | 1 μL |
XbaI - BLA - F - primer 10 μM | 1 μL |
SpeI - BLA - R - primer 10 μM | 1 μL |
KOD - Plus - Neo | 1 μL |
10 x PCR Buffer for KOD - Plus - Neo | 5 μL |
2 mM dNTPs | 5 μL |
25 mM MgSO4 | 3 μL |
DW | 33 μL |
Total | 50 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 35 cycle |
Cycle 2 | 60.9℃ | 30 sec | Annealing | 35 cycle |
Cycle 3 | 68℃ | elongation time | Elongation | 35 cycle |
Store | 4℃ | Hold | Store |
PCR (3 STEP)
Mitsumoto
BBa_B0015, BBa_B0032, BBa_B0033, BBa_B0034 on pSB1C3
Reagent | Volume |
---|---|
BBa_B0015, BBa_B0032, BBa_B0033, BBa_B0034 on pSB1C3 | 1 μL |
100UP - EX - F 10 μM | 1 μL |
200DN - PS - R 10 μM | 1 μL |
KOD - Plus - Neo | 1 μL |
10 x PCR Buffer for KOD - Plus - Neo | 5 μL |
2 mM dNTPs | 5 μL |
25 mM MgSO4 | 3 μL |
DW | 33 μL |
Total | 50 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 35 cycle |
Cycle 2 | 62.6℃ | 30 sec | Annealing | 35 cycle |
Cycle 3 | 68℃ | elongation time | Elongation | 35 cycle |
Store | 4℃ | Hold | Store |
Electrophoresis
Mitsumoto
BBa_B0015, BBa_B0032, BBa_B0033, BBa_B0034 on pSB1C3, BLA on pCOLA, HLA on pCOLA
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100 V | 30 min | 1/2 x TBE |
Dephosphorylation
Mitsumoto
BBa_R0040 on pSB1C3, BBa_E0040 on pSB1A2 XbaI (Digestion product)
Reagent | Volume |
---|---|
BBa_R0040 on pSB1C3, BBa_E0040 on pSB1A2 XbaI (Digestion product) | 10 μL |
Antarctic Phosphatase | 1 μL |
Antarctic Phosphatase Buffer | 2 μL |
DW | 7 μL |
Total | 20 μL |
Dephosphorylation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 15 min | Dephosphorylation |
2 | 65℃ | 5 min | Inactivation |
Store | 4℃ | Hold | Store |
PCR (3 STEP)
Mitsumoto
BBa_I0500, BBa_B0015, BBa_B0032, BBa_B0033, BBa_B0034 on pSB1C3
Reagent | Volume |
---|---|
BBa_I0500, BBa_B0015, BBa_B0032, BBa_B0033, BBa_B0034 on pSB1C3 | 1 μL |
100UP - EX -F 10 μM | 1 μL |
200DN - PS - R 10 μM | 1 μL |
KOD - Plus - Neo | 1 μL |
10 x PCR Buffer for KOD - Plus - Neo | 5 μL |
2 mM dNTPs | 5 μL |
25 mM MgSO4 | 3 μL |
DW | 33 μL |
Total | 50 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 35 cycle |
Cycle 2 | 62.6℃ | 30 sec | Annealing | 35 cycle |
Cycle 3 | 68℃ | elongation time | Elongation | 35 cycle |
Store | 4℃ | Hold | Store |
2015/08/30
Electrophoresis
Mimata
BBa_R0010 - BBa_B0034 on pSB1C3, Thanatin - BBa_K759012 on pSB1C3
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 60 min | 1/2 x TBE |
Digestion
Mimata, Toyooka
XbaⅠ - Thanatin - SpeⅠ
Reagent | Volume |
---|---|
XbaⅠ - Thanatin - SpeⅠ | 20 µL |
SpeⅠ | 1 µL |
XbaⅠ | 1 µL |
10 × M Buffer | 3 µL |
DW | 5 µL |
Total | 30 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 70℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
Digestion
Mimata, Toyooka
BBa_R0040 on pSB1A2, BBa_E0040 on pSB1A2
Reagent | Volume |
---|---|
BBa_R0040 on pSB1A2, BBa_E0040 on pSB1A2 | 20 µL |
SpeⅠ | 1 µL |
CutSmart Buffer | 3 µL |
DW | 6 µL |
Total | 30 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 70℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
Digestion
Mimata, Toyooka
BBa_B0030 on pSB1C3
Reagent | Volume |
---|---|
BBa_B0030 on pSB1C3 | 20 µL |
SpeⅠ | 1 µL |
XbaⅠ | 1 µL |
10 × M Buffer | 3 µL |
DW | 5 µL |
Total | 30 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 70℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
2015/08/31
PCR
Nishimura, Ono, Toyooka, Fujita
XbaⅠ - Thanatin - SpeⅠ
Reagent | Volume |
---|---|
XbaⅠ - Thanatin - SpeⅠ | 1 µL |
XbaⅠ - Thanatin - F 10 µM | 1 µL |
SpeⅠ - Thanatin - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 30 cycle |
Cycle 2 | 68℃ | 30 sec | Annealing / Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
PCR
Nishimura, Ono, Toyooka, Fujita
BamHⅠ- Thanatin - BglⅡ
Reagent | Volume |
---|---|
BamHⅠ- Thanatin - BglⅡ | 1 µL |
BamHⅠ- Thanatin - F 10 µM | 1 µL |
BglⅡ - D - Thanatin - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 30 cycle |
Cycle 2 | 68℃ | 30 sec | Annealing / Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
Electrophoresis
Ono, Nishimura, Toyooka, Fujita
BamHⅠ- Thanatin - BglⅡ, XbaⅠ - Thanatin - SpeⅠ
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
Ethanol Precipitation
Ono, Nishimura, Toyooka, Fujita
BamHⅠ- Thanatin - BglⅡ, XbaⅠ - Thanatin - SpeⅠ
- Added 5 µL of NaOAc, 1.5 µL of glycogen and 150 µL of 100% ethanol.
- Left it at -80℃ for 1 hr.
- Centrifuged at 15,000 rpm for 15 min at 4℃.
- Removed supernatant and added 100 µL of 70% ethanol.
- Centrifuged at 15,000 rpm for 10 min at 4℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 10 µL of TE.
Digestion
Ono, Fujita, Toyooka, Nishimura
Thanatin fragment (Ethanol Precipitation product)
Reagent | Volume |
---|---|
Thanatin fragment (Ethanol Precipitation product) | 20 µL |
SpeⅠ | 2 µL |
XbaⅠ | 1 µL |
CutSmart Buffer | 3 µL |
DW | 4 µL |
Total | 30 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 60 min | Digestion |
Store | 4℃ | Hold | Store |
Digestion
Ono, Fujita, Toyooka, Nishimura
Thanatin fragment (Ethanol Precipitation product)
Reagent | Volume |
---|---|
Thanatin fragment (Ethanol Precipitation product) | 20 µL |
BamHⅠ | 2 µL |
BglⅡ | 6 µL |
10 × K Buffer | 10 µL |
DW | 60 µL |
Total | 100 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 60 min | Digestion |
Store | 4℃ | Hold | Store |
Ethanol Precipitation
Ono, Nishimura, Toyooka, Fujita
BamHⅠ- Thanatin - BglⅡ, XbaⅠ - Thanatin - SpeⅠ (Digestion product)
- Added 5 µL of NaOAc, 1.5 µL of glycogen and 280 µL of 100% ethanol.
- Left it at -80℃ for 1 hr.
- Centrifuged at 15,000 rpm for 15 min at 4℃.
- Removed supernatant and added 100 µL of 70% ethanol.
- Centrifuged at 15,000 rpm for 10 min at 4℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 10 µL of TE.
Electrophoresis
Ono, Nishimura, Toyooka, Fujita, Mimata
BamHⅠ- Thanatin - BglⅡ, XbaⅠ - Thanatin - SpeⅠ (Ethanol Presipitation product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
Ligation
Ono
BBa_K759012 on pSB1C3 / BamHⅠ- Thanatin - BglⅡ
Reagent | Volume |
---|---|
BBa_K759012 on pSB1C3 | 95 µL |
BamHⅠ- Thanatin - BglⅡ | 0.5 µL |
Mighty Mix | 10 µL |
Total | 20 µL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 16℃ | 30 min | Ligation |
Store | 4℃ | Hold | Store |
Electrophoresis
Ono, Mimata
BBa_K759012 on pSB1C3, BBa_R0010 on pSB1C3
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 60 min | 1/2 x TBE |
Digestion
Onoda,
BBa_E1010 on pSB1C3
Reagent | Volume |
---|---|
BBa_E1010 on pSB1C3 | 10 µL |
EcoRⅠ | 1 µL |
XbaⅠ | 1 µL |
10 × M Buffer | 2 µL |
DW | 6 µL |
Total | 20 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 60℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
Digestion
Onoda
BBa_E1010 on pSB1C3
Reagent | Volume |
---|---|
BBa_E1010 on pSB1C3 | 10 µL |
XbaⅠ | 1 µL |
CutSmart Buffer | 2 µL |
DW | 7 µL |
Total | 20 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 60℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
Electrophoresis
Toyooka
BBa_E1010 on pSB1C3 (Digestion product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 40 min | 1/2 x TBE |
Gel Extract
Toyooka
BBa_E1010 on pSB1C3 (Digestion product)
FastGeneTM Gel Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
Digestion
Ito, Sakai
HLA family
Reagent | Volume |
---|---|
HLA, HLZ, BLA, BLZ | 20 µL |
XbaⅠ | 1 µL |
SpeⅠ | 1 µL |
10 × M Buffer | 3 µL |
DW | 5 µL |
Total | 30 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 80℃ | 20 min | Inactivation |
Store | 4℃ | Hold | Store |
Digestion
Ito, Sakai
HLA, HLZ, BLA, BLZ
Reagent | Volume |
---|---|
HLA, HLZ, BLA, BLZ | 10 µL |
XbaⅠ | 1 µL |
SpeⅠ | 1 µL |
10 x M buffer | 2 µL |
DW | 6 µL |
Total | 20 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 80℃ | 20 min | Inactivation |
Store | 4℃ | Hold | Store |
Electrophoresis
Ito, Sakai
HLA family XbaⅠ & SpeⅠ (Digestion product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 40 min | 1/2 x TBE |
Gel Extract
Ito, Sakai
HLA family XbaⅠ & SpeⅠ (Digestion product)
FastGeneTM Gel Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
September
2015/09/01
Gel Extract
Nishimura
BBa_B0032, BBa_B0033, BBa_B0034, BBa_B0015, BBa_I0500
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
Mini-prep
Nishimura
BBa_R0010 on pSB1C3, BBa_I0500 on pSB1C3
FastGeneTM Plasmid mini kit (Nippon Genetics Co.,Ltd)
standard protocol
Electrophoresis
Nishimura
BBa_R0010 - BBa_B0034 on pSB1C3 (Dephosphorylated product), BBa_R0010 - BBa_B0034 on pSB1C3 (Gel extract product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100 V | 60 min | 1/2 x TBE |
Ligation
Fujita, Nishimura
BBa_R0010 - BBa_B0034 on pSB1C3 / XbaⅠ - Thanatin - SpeⅠ
Reagent | Volume |
---|---|
BBa_R0010 - BBa_B0034 on pSB1C3 | 9.5 µL |
XbaⅠ - Thanatin - SpeⅠ | 0.5 µL |
Mighty Mix | 10 µL |
Total | 20 µL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 16℃ | 30 min | Ligation |
Store | 4℃ | Hold | Store |
Ligation
Fujita
Ag43 on pSB1C3 / BamHⅠ - Thanatin - BglⅡ
Reagent | Volume |
---|---|
BBa_R0010 - BBa_B0034 on pSB1C3 | 9.5 µL |
BamHⅠ - Thanatin - BglⅡ | 0.5 µL |
Mighty Mix | 10 µL |
Total | 20 µL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 16℃ | 30 min | Ligation |
Store | 4℃ | Hold | Store |
Ethanol Precipitation
Fujita
Thanatin - Ag43 on pSB1C3
- Added 2 µL of NaOAc, 1.5 µL of glycogen and 60 µL of 100% ethanol.
- Left it at -80℃ for 1 hr.
- Centrifuged at 15,000 rpm for 15 min at 4℃.
- Removed supernatant and added 100 µL of 70% ethanol.
- Centrifuged at 15,000 rpm for 10 min at 4℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 10 µL of TE.
Transformation
Nishimura, Toyooka
BBa_I0500 - BBa_B0033 on pSB1C3,
- Added 5 µL of BBa_B0033 on pSB1C3, BBa_R0040, BBa_I0500 BBa_B0032 on pSB1C3, BBa_I0500 BBa_B0033 on pSB1C3 to 50 µL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 200 µL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 300 µL of the culture onto plate with LBC.
- Incubated the plate at 37℃ for 16 hours.
Digestion
Nishimura, Onoda
HLA, HLZ, BLA, BLZ, BBa_B0030
Reagent | Volume |
---|---|
HLA, HLZ, BLA, BLZ, BBa_B0030 | 10 µL |
SpeⅠ | 1 µL |
XbaⅠ | 1 µL |
10 × M Buffer | 2 µL |
DW | 6 µL |
Total | 20 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 60℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
Electrophoresis
Nishimura
HLA, HLZ, BLA, BLZ
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100 V | 60 min | 1/2 x TBE |
Gel Extract
Nishimura, Sakai, Ito, Kusumi
HLA, HLZ, BLA, BLZ
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
Ligation
Fujita, Sakai, Nishimura
BBa_B0015 on pSB1C3 / HLA, BLA, BLZ
Reagent | Volume |
---|---|
BBa_B0015 on pSB1C3 | 10 µL |
HLA , BLA, BLZ | 30 µL |
T4 Ligase | 4.5 µL |
10 × T4 DNA Ligase Buffer | 5 µL |
DW | 0.5 µL |
Total | 50 µL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 16℃ | 30 min | Ligation |
Store | 4℃ | Hold | Store |
Ligation
Onoda, Nishimura, Fujita, Sakai
HLZ / BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
BBa_B0015 on pSB1C3 | 10 µL |
HLZ | 20 µL |
T4 Ligase | 3.5 µL |
10 × T4 DNA Ligase Buffer | 5 µL |
DW | 1.5 µL |
Total | 50 µL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 16℃ | 30 min | Ligation |
Store | 4℃ | Hold | Store |
Electrophoresis
Sakai
HLA, HLZ, BLA, BLZ
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 50 V | 60 min | 1/2 x TBE |
Ligation
Sakai
BBa_R0010 - BBa_B0034 on pSB1C3 / XbaⅠ - Thanatin - SpeⅠ (Digestion product)
Reagent | Volume |
---|---|
BBa_R0100 - BBa_B0034 on pSB1C3 | 15 µL |
XbaⅠ - Thanatin - SpeⅠ | 1.0 µL |
T4 Ligase | 1.6 µL |
10 X T4 DNA Ligase Buffer | 2.0 µL |
DW | 0.4 µL |
Total | 20 µL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 16℃ | 30 min | Ligation |
Store | 4℃ | Hold | Store |
Transformation
Sakai
BBa_R0010 - BBa_B0034 - XbaⅠ - Thanatin - SpeⅠ on pSB1C3
- Added 1.0 µL of BBa_R0010 - BBa_B0034 - XbaⅠ - Thanatin - SpeⅠ on pSB1C3 to 50 µL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 200 µL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 300 µL of the culture onto plate with LBC.
- Incubated the plate at 37℃ for 2 hours.
PCR
Ono
ABF-2, BLA, Thanatin, 10 × His tag - TEV - Thanatin, BLZ, HLZ
Reagent | Volume |
---|---|
ABF-2, BLA, Thanatin, 10 × His tag - TEV - Thanatin, BLZ, HLZ | 1 µL |
EX - F - Universal 10 µM | 1 µL |
PS - R 10 µM | 1 µL |
KOD - Plus - Neo | 1 µL |
10 x PCR Buffer for KOD - Plus - Neo | 5 µL |
2 mM dNTPs | 5 µL |
25 mM MgSO4 | 3 µL |
DW | 33 µL |
Total | 50 µL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 30 cycle |
Cycle 2 | 68℃ | 30 sec | Annealing / Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
2015/09/02
Gel Extract
Mimata
EcoRⅠ - BBa_B0032 - XbaⅠ, EcoRⅠ - BBa_B0033 - XbaⅠ, EcoRⅠ - BBa_B0034 - XbaⅠ, SpeⅠ - BBa_B0015 - PstⅠ, EcoRⅠ - BBa_I0500 - SpeⅠ
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
Transformation
Nishimura
HLA, BLA, HLZ, BLZ
- Added 1 µL of HLA, BLA, HLZ, BLZ to 10 µL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 200 µL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 300 µL of the culture onto plate with LBC.
- Incubated the plate at 37℃ for 16 hours.
Colony PCR
Nishimura, Ono, Onoda, Mimata
BBa_R0010 - BBa_B0034 - Thanatin
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 µM | 0.4 µL |
200DN - PS - R 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 57℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Colony PCR
Nishimura, Ono, Onoda, Mimata
BBa_R0010 - BBa_B0034 - Thanatin
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 µM | 0.4 µL |
SpeⅠ - Thanatin - Rv 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 57℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Colony PCR
Nishimura, Ono, Onoda, Mimata
Ag43 - Thanatin
Reagent | Volume |
---|---|
Single Colony | - |
AGSP - BamHⅠ - Spindorin 10 µM | 0.4 µL |
BglⅡ - D - Thanatin - Rv 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 65℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Colony PCR
Nishimura, Ono, Onoda, Mimata
Ag43 - Thanatin
Reagent | Volume |
---|---|
Single Colony | - |
AGSP - BamHⅠ - Spindorin 10 µM | 0.4 µL |
Ag43 - bunit - Rv 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 65℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Colony PCR
Nishimura, Ono, Onoda, Mimata
BBa_B0031 on pSB1A2
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 µM | 0.4 µL |
200DN - PS - R 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 57℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Electrophoresis
Nishimura, Ono, Onoda
BBa_R0010 - BBa_B0034 - Thanatin (colony PCR product), Ag43 Thanatin (colony PCR product), BBa_B0031 on pSB1C3(colony PCR product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 50 min | 1/2 x TBE |
Electrophoresis
Nishimura, Ono, Mimata
BBa_I0500
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 50 min | 1/2 x TBE |
Digestion
Nisimura, Ono, Mimata
BLZ, HLZ, ABF-2
Reagent | Volume |
---|---|
BLZ, HLZ, ABF-2 | 30 µL |
SpeⅠ | 1 µL |
Total | 31 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 60 min | Digestion |
Store | 4℃ | Hold | Store |
Electrophoresis
Nishimura, Ono, Mimata
BLZ, HLZ, ABF-2,
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100 V | 60 min | 1/2 x TBE |
Gel Extract
Mitsumoto
BLZ, HLZ, ABF-2
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
Transformation
Mimata
HLA on pSB1C3, HLZ on pSB1C3, BLA on pSB1C3, BLZ on pSB1C3, BBa_B0015 on pSB1C3
- Added 1 µL of HLA on pSB1C3, HLZ on pSB1C3, BLA on pSB1C3, BLZ on pSB1C3, BBa_B0015 on pSB1C3 to 50 µL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 2000 µL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 300 µL of the culture onto plate with LBC.
- Incubated the plate at 37℃ for 16 hours.
2015/09/03
Ligation
Nishimura
BBa_B0015 on pSB1C3 / HLZ
Reagent | Volume |
---|---|
BBa_B0015 on pSB1C3 | 6 µL |
HLZ | 8 µL |
Mighty Mix | 14 µL |
Total | 28 µL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 16℃ | 30 min | Ligation |
Store | 4℃ | Hold | Store |
Ligation
Nishimura
BBa_B0015 on pSB1C3 / HLA, BLA, BLZ
Reagent | Volume |
---|---|
BBa_B0015 on pSB1C3 | 6 µL |
HLA, BLA, BLZ | 14 µL |
Mighty Mix | 20 µL |
Total | 40 µL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 16℃ | 30 min | Ligation |
Store | 4℃ | Hold | Store |
Dephosphorylation
Nishimura
BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
BBa_B0015 on pSB1C3 | 40 µL |
Antarctic Phosphatase | 4 µL |
Antarctic Phosphatase Buffer | 8 µL |
DW | 28 µL |
Total | 80 µL |
Dephosphorylation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 30 min | Dephosphorylation |
2 | 65℃ | 10 min | Inactivation |
Store | 4℃ | Hold | Store |
Colony PCR
Nishimura, Ono, Fujita
BBa_R0010 - BBa_B0034 - Thanatin
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 µM | 0.4 µL |
200DN - PS - R 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 57℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Colony PCR
Nishimura, Ono, Fujita
BBa_R0010 - BBa_B0034 - Thanatin
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 µM | 0.4 µL |
SpeⅠ - Thanatin - Rv 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 57℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Colony PCR
Nishimura, Ono, Fujita
Ag43 - Thanatin
Reagent | Volume |
---|---|
Single Colony | - |
AGSP - BamHⅠ - Spindorin 10 µM | 0.4 µL |
BglⅡ - D - Thanatin - Rv 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 65℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Colony PCR
Nishimura, Ono, Fujita
Ag43 - Thanatin
Reagent | Volume |
---|---|
Single Colony | - |
AGSP - BamHⅠ - Spindorin 10 µM | 0.4 µL |
Ag43 - bunit - Rv 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 65℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Colony PCR
Nishimura, Ono, Fujita
BBa_B0031 on pSB1A2
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 µM | 0.4 µL |
200DN - PS - R 10 µM | 0.4 µL |
KAPA Taq | 5 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 57℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Electrophoresis
Nishimura, Ono, Fujita
BBa_R0010 - BBa_B0034 - Thanatin (colony PCR product), Ag43 Thanatin (colony PCR product), BBa_B0031 on pSB1C3(colony PCR product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 50 min | 1/2 x TBE |
Transformation
Nishimura, Fujita
HLA, BLA, HLZ, BLZ
- Added 40 µL of HLA, BLA, HLZ, BLZ to 1 µL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 200 µL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 300 µL of the culture onto plate with LBC.
- Incubated the plate at 37℃ for 16 hours.
Mini-prep
Ono, Fujita
Ag43 - Thanatin on pSB1C3
FastGeneTM Plasmid mini kit (Nippon Genetics Co.,Ltd)
standard protocol
Digestion
Onoda
EcoRⅠ - BBa_R0010 - SpeⅠ
Reagent | Volume |
---|---|
EcoRⅠ - BBa_R0010 - SpeⅠ | 28.5 µL |
EcoRⅠ | 1.5 µL |
SpeⅠ | 1.5 µL |
10 × H Buffer | 3.5 µL |
Total | 35 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
Store | 4℃ | Hold | Store |
2015/09/04
Electrophoresis
Nishimura
ABF-2, BLA, Thanatin, 10 × His tag - TEV - Thanatin, BLZ, HLZ, ABF-2
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100 V | 60 min | 1/2 x TBE |
Mini-prep
Nishimura, Ono
Ag43 - thanatin
FastGeneTM Plasmid mini kit (Nippon Genetics Co.,Ltd)
standard protocol
Sequencing
Nishimura
thanatin - Ag43
Reagent | Volume |
---|---|
Ag43 thanatin | 1 µL |
BBa_I0500 - Fw, Ag43 - Rv | 1.5 µL |
BigDye Terminator | 1 µL |
5 x Sequencing Buffer | 1.5 µL |
DW | 5 µL |
Total | 10 µL |
Sequencing
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 96℃ | 10 sec | Denaturation | |
Cycle 1 | 50℃ | 5 sec | - | 25 cycle |
Cycle 2 | 60℃ | 240 sec | - | 25 cycle |
Store | 4℃ | Hold | Store |
Sequencing
Nishimura
BBa_I0500 - BBa_B0032, BBa_I0500 - BBa_B0033, BBa_I0500 - BBa_B0034
Reagent | Volume |
---|---|
100UP - EX - F | 1 µL |
200DN - PS - R | 1.5 µL |
Ready Reaction Premix | 1 µL |
5 x Sequencing Buffer | 1.5 µL |
DW | 5 µL |
Total | 10 µL |
Sequencing
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 96℃ | 10 sec | Denaturation | |
Cycle 1 | 50℃ | 5 sec | - | 25 cycle |
Cycle 2 | 60℃ | 240 sec | - | 25 cycle |
Store | 4℃ | Hold | Store |
Ethanol Precipitation
Nishimura, Fujita, Mimata
Ag43 - thanatin, BBa_I0500 - BBa_B0032, BBa_I0500 - BBa_B0033, BBa_I0500 - BBa_B0034
- Added 1 µL of NaOAc, 1.5 µL of glycogen and 30 µL of 100% ethanol.
- Left it at -80℃ for 10 min.
- Centrifuged at 15,000 rpm for 15 min at 4℃.
- Removed supernatant and added 100 µL of 70% ethanol.
- Centrifuged at 15,000 rpm for 10 min at 4℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 10 µL of HiDi.
- Added 5 µL of BLZ - BBa_B0015, HLZ - BBa_B0015, ABF-2 - BBa_B0015, BBa_R0010 - BBa_B0034 - 10 x His tag - TEV - Thanatin - BBa_B0015, BBa_R0010 - BBa_B0034 - Thanatin - BBa_B0015, BBa_R0010 - BBa_B0034 - ABF-2 - BBa_B0015, BBa_R0010 - BBa_B0034 - BLA - BBa_B0015 to 50 µL of thawed competent cells (DH5a) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 200 µL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 300 µL of the culture onto plate with LBC.
- Incubated the plate at 37℃ for 18 hours.
- Added 5 μL of BLZ - BBa_B0015 on pSB1C3, HLZ - BBa_B0015 on pSB1C3, ABF-2 - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 x His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - ABF-2 - BBa_B0015 on pSB1C3, BBa_I0500 - BBa_B0034 - BLA - BBa_B0015 on pSB1C3 to 50 μL of thawed competent cells (DH5a) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 200 μL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 300 μL of the culture onto plate with LBCp.
- Incubated the plate at 37℃ for 2 hours.
- Added 2 μL of NaOAc, 1.5 μL of glycogen and 50 μL of 100% ethanol.
- Left it at 24℃ for 15 min.
- Centrifuged at 15,000 rpm for 15 min at 24℃.
- Removed supernatant and added 100 μL of 70% ethanol.
- Centrifuged at 15,000 rpm for 10 min at 24℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 11 μL of Hidi.
- Added 1.0 μL of Ag43-Thanatin on pSB1C3, oripAMβ1 - repE - Erythromycin resistant gene - Pcasei - RBScasei - Sec signal sequence on pSB1C3 to 50 μL of thawed competent cells (JM1O9) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 60 sec at 42℃.
- Added 200 μL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 300 μL of the culture onto plate with LBChloramphenicol.
- Incubated the plate at 37℃ for 2 hours.
- Added 25 μL of NaOAc, 1.5 μL of glycogen and 750 μL of 100% ethanol.
- Left it at -80℃ for 1 hr.
- Centrifuged at 15,000 rpm for 15 min at 4℃.
- Removed supernatant and added 100 μL of 70% ethanol.
- Centrifuged at 15,000 rpm for 10 min at 4℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 10 μL of TE.
- Added 5 μL of Ag43 - Thanatin on pSB1C3 (Ligation product) to 50 μL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 200 μL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 300 μL of the culture onto plate with LBC.
- Incubated the plate at 37℃ for 16 hours.
- Added 2 μL of NaOAc, 1.5 μL of glycogen and 50 μL of 100% ethanol.
- Left it at 24℃ for 15min.
- Centrifuged at 15,000 rpm for 15 min at 24℃.
- Removed supernatant and added 100 μL of 70% ethanol.
- Centrifuged at 15,000 rpm for 10 min at 24℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 11 μL of Hidi.
- Added 5 μL of BBa_R0010 - Signal peptide - Thanatin - Bam / Bgl scar- Thanatin - β domain BBa_B0015 on pSB1C3 to 50 μL of thawed competent cells (HIT) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 500 μL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 500, 50 μL of the culture onto two plates with LBC.
- Incubated the plate at 37℃ for hours.
- Added 5 μL of BBa_R0010 - Signal peptide - Thanatin - Bam / Bgl scar- Thanatin - β domain BBa_B0015 on pSB1C3 to 50 μL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 500 μL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 500, 50 μL of the culture onto two plates with LBC.
- Incubated the plate at 37℃ for hours.
- Added 4 μL of NaOAc, 1.5 μL of glycogen and 120 μL of 100% ethanol.
- Left it at -80℃ for 1 hr.
- Centrifuged at 15,000 rpm for 15 min at 4℃.
- Removed supernatant and added 220 μL of 70% ethanol.
- Centrifuged at 15,000 rpm for 10 min at 4℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 10 μL of TE.
- Added μL of NaOAc, 1.5 μL of glycogen and 150 μL of 100% ethanol.
- Left it at -80℃ for 1 hr.
- Centrifuged at 15,000 rpm for 15 min at 4℃.
- Removed supernatant and added 220 μL of 70% ethanol.
- Centrifuged at 15,000 rpm for 10 min at 4℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 10 μL of TE.
- Added 5 μL of BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3 to 50 μL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 400 μL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 300 μL of the culture onto plate with LBC.
- Incubated the plate at 37℃ for 16 hours.
- Added 7 μL of DW, 2 μL of NaOAc, 1 μL of glycogen and 50 μL of 100% ethanol.
- Left it at 24℃ for 15 min.
- Centrifuged at 15,000 rpm for 15 min at 24℃.
- Removed supernatant and added 100 μL of 70% ethanol.
- Centrifuged at 15,000 rpm for 10 min at 24℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 11 μL of HiDi.
- Cultured E. coli DH5α, JM109 in 2 ml of LB overnight.
- Took 80 μl of it and cultured for 1 hr in 2 mL of LB culture until the OD600 became 0.4.
- 100,000 fold dilutied it with PB culture.
- Spread them on LB plate and counted the number of colony.
- Made 20 μl of dilution series of supernatant and cultured 80 μL of diluted DH5α, JM109 at 30℃, 120,000 rpm for 18 hrs.
- Incubated in refrigerator.
- Observed the appearance of colony and decided the effective concentration of supernatant.
- Added 5 μL of BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3 to 50 μL of thawed competent cells (DH5α) on ice.
- Incubated on ice for 30 min.
- Heat-shocked for 30 sec at 42℃.
- Added 400 μL of LB.
- Incubated the cells for 2 hrs at 37℃.
- Spread 300 μL of the culture onto plate with LBC.
- Incubated the plate at 37℃ for 16 hours.
- Added 7 μL of DW, 2 μL of NaOAc, 1 μL of glycogen and 50 μL of 100% ethanol.
- Left it at 24℃ for 15 min.
- Centrifuged at 15,000 rpm for 15 min at 24℃.
- Removed supernatant and added 100 μL of 70% ethanol.
- Centrifuged at 15,000 rpm for 10 min at 24℃.
- Removed supernatant and air-dried at room temperature with light shield.
- Suspended with 10 μL of HiDi.
- Cultured the colony for 10 hours.
- Diluted with midium to set OD600 to 0.1.
- Measured OD600 12 times with an hour interval each.
- Cultured the colony for 10 hours.
- Diluted with midium to set OD600 to 0.1.
- Measured OD600 12 times with an hour interval each.
- Cultured the colony for 10 hours.
- Diluted with midium to set OD600 to 0.1.
- Measured OD600 12 times with an hour interval each.
- Cultured the colony for 10 hours.
- Diluted with midium to set OD600 to 0.1.
- Measured OD600 12 times with an hour interval each.
- Cultured the colony for 10 hours.
- Diluted with midium to set OD600 to 0.1.
- Measured OD600 12 times with an hour interval each.
- Cultured E. coli DH5α in 2 ml of LB overnight.
- Took 80 μl of it and cultured for 1 hr in 2 mL of LB culture until the OD600 became 0.4.
- 100,000 fold dilutied it with PB culture.
- Spread them on LB plate and counted the number of colony.
- Made 20 μl of dilution series of supernatant and cultured 80 μL of diluted JM109 at 30℃, 120,000 rpm for 18 hrs.
- Incubated in refrigerator.
- Observed the appearance of colony and decided the effective concentration of supernatant.
- Cultured E. coli DH5α in 2 ml of LB overnight.
- Took 80 μl of it and cultured for 1 hr in 2 mL of LB culture until the OD600 became 0.4.
- 100,000 fold dilutied it with PB culture.
- Spread them on LB plate and counted the number of colony.
- Made 20 μl of dilution series of supernatant and cultured 80 μL of diluted DH5α at 30℃, 120,000 rpm for 18 hrs.
- Incubated in refrigerator.
- Observed the appearance of colony and decided the effective concentration of supernatant.
Transformation
Fujita, Mimata
BLZ - BBa_B0015, HLZ - BBa_B0015, ABF-2 - BBa_B0015, BBa_R0010 - BBa_B0034 - 10 x His tag - TEV - Thanatin - BBa_B0015, BBa_R0010 - BBa_B0034 - Thanatin - BBa_B0015, BBa_R0010 - BBa_B0034 - ABF-2 - BBa_B0015, BBa_R0010 - BBa_B0034 - BLA - BBa_B0015
Digestion
Fujita, Mimata
pSB1C3
Reagent | Volume |
---|---|
pSB1C3 | 5 µL |
EcoRⅠ | 1 µL |
PstⅠ | 1 µL |
10 × H Buffer | 5 µL |
DW | 38 µL |
Total | 50 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 80℃ | 20 min | Inactivation |
Store | 4℃ | Hold | Store |
Digestion
Fujita, Mimata
pSB1C3
Reagent | Volume |
---|---|
pSB1C3 | 5 µL |
XbaⅠ | 1 µL |
SpeⅠ | 1 µL |
CutSmart Buffer | 5 µL |
DW | 38 µL |
Total | 50 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 80℃ | 20 min | Inactivation |
Store | 4℃ | Hold | Store |
Digestion
Fujita, Mimata
ABF-2, Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 - Suffix, 10 x His tag - TEV - Thanatin
Reagent | Volume |
---|---|
ABF-2, Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 - Suffix, 10 x His tag - TEV - Thanatin | 20 µL |
EcoRⅠ | 1 µL |
PstⅠ | 1 µL |
10 x H Buffer | 5 µL |
DW | 23 µL |
Total | 50 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 80℃ | 20 min | Inactivation |
Store | 4℃ | Hold | Store |
Digestion
Fujita, Mimata
BLA
Reagent | Volume |
---|---|
BLA | 20 µL |
XbaⅠ | 1 µL |
PstⅠ | 1 µL |
CutSmart Buffer | 5 µL |
DW | 23 µL |
Total | 50 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 80℃ | 20 min | Inactivation |
Store | 4℃ | Hold | Store |
Digestion
Fujita, Mimata
BLZ, HLZ, ABF-2
Reagent | Volume |
---|---|
BLZ, HLZ, ABF-2 | 20 µL |
EcoRⅠ | 1 µL |
SpeⅠ | 1 µL |
10 x H Buffer | 5 µL |
DW | 23 µL |
Total | 50 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 80℃ | 20 min | Inactivation |
Store | 4℃ | Hold | Store |
Transformation
Mitsumoto
BLZ - BBa_B0015 on pSB1C3, HLZ - BBa_B0015 on pSB1C3, ABF-2 - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 x His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - ABF-2 - BBa_B0015 on pSB1C3, BBa_I0500 - BBa_B0034 - BLA - BBa_B0015 on pSB1C3
Colony PCR
Mitsumoto
BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 x His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - XbaⅠ/SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
Single Colony | - |
XbaⅠ - Thanatin - F 10 μM | 0.4 μL |
200DN - PS - R 10 μM | 0.4 μL |
KAPA Taq | 5 μL |
DW | 4.2μL |
Total | 10 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 35 cycle |
Cycle 2 | 59.3℃ | 30 sec | Annealing | 35 cycle |
Cycle 3 | 68℃ | 90 sec | Elongation | 35 cycle |
Store | 4℃ | Hold | Store |
Colony PCR
Mitsumoto
HLZ - BBa_B0015 on pSB1C3, nothing(other negative control)
Reagent | Volume |
---|---|
Single Colony | - |
XbaⅠ - HLZ - F 10 μM | 0.4 μL |
200DN - PS - R 10 μM | 0.4 μL |
KAPA Taq | 5 μL |
DW | 4.2μL |
Total | 10 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 35 cycle |
Cycle 2 | 59.3℃ | 30 sec | Annealing | 35 cycle |
Cycle 3 | 68℃ | 90 sec | Elongation | 35 cycle |
Store | 4℃ | Hold | Store |
Colony PCR
Mitsumoto
BLA - BBa_B0015 on pSB1C3, nothing(other negative control)
Reagent | Volume |
---|---|
Single Colony | - |
XbaⅠ - BLA - F 10 μM | 0.4 μL |
200DN - PS - R 10 μM | 0.4 μL |
KAPA Taq | 5 μL |
DW | 4.2μL |
Total | 10 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 35 cycle |
Cycle 2 | 56.2℃ | 30 sec | Annealing | 35 cycle |
Cycle 3 | 68℃ | 90 sec | Elongation | 35 cycle |
Store | 4℃ | Hold | Store |
Colony PCR
Mitsumoto
BBa_B0031 on pSB1A2
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 μM | 0.4 μL |
200DN - PS - R 10 μM | 0.4 μL |
KAPA Taq | 5 μL |
DW | 4.2μL |
Total | 10 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 35 cycle |
Cycle 2 | 56.2℃ | 30 sec | Annealing | 35 cycle |
Cycle 3 | 68℃ | 90 sec | Elongation | 35 cycle |
Store | 4℃ | Hold | Store |
Colony PCR
Mitsumoto
BBa_R0010 - BBa_B0034 - Thanatin - BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 μM | 0.4 μL |
200DN - PS - R 10 μM | 0.4 μL |
KAPA Taq | 5 μL |
DW | 4.2μL |
Total | 10 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 35 cycle |
Cycle 2 | 61.6℃ | 30 sec | Annealing | 35 cycle |
Cycle 3 | 68℃ | 90 sec | Elongation | 35 cycle |
Store | 4℃ | Hold | Store |
Colony PCR
Mitsumoto
BBa_R0010 - BBa_B0034 - 10 x His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, nothing(other negative control)
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 μM | 0.4 μL |
200DN - PS - R 10 μM | 0.4 μL |
KAPA Taq | 5 μL |
DW | 4.2μL |
Total | 10 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 35 cycle |
Cycle 2 | 61.6℃ | 30 sec | Annealing | 35 cycle |
Cycle 3 | 68℃ | 90 sec | Elongation | 35 cycle |
Store | 4℃ | Hold | Store |
Electrophoresis
Mitsumoto
SpeⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - ABF-2 - BBa_B0015 - PstⅠ, EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 - PstⅠ, EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 x His tag - TEV - Thanatin - BBa_B0015 - PstⅠ, pSB1C3 EcoRⅠ & PstⅠ(Digestion product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 40 min | 1/2 x TBE |
Electrophoresis
Mitsumoto
XbaⅠ - BBa_B0034 - XbaⅠ / PstⅠ scar - BLA - BBa_B0015 - PstⅠ (Digestion product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 40 min | 1/2 x TBE |
Electrophoresis
Mitsumoto
pSB1C3 XbaⅠ & SpeⅠ(Digestion product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 40 min | 1/2 x TBE |
Electrophoresis
Mitsumoto
EcoRⅠ - standardized BLZ - SpeⅠ, EcoRⅠ - standardized HLZ - SpeⅠ, EcoRⅠ - codon optimized ABF-2 - SpeⅠ (Digestion product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 40 min | 1/2 x TBE |
Electrophoresis
Mitsumoto
EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - ABF-2 - BBa_B0015 - PstⅠ, EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ - Thanatin - BBa_B0015 - SpeⅠ, EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 x His tag - TEV - Thanatin - BBa_B0015 - SpeⅠ, pSB1C3 (Digestion product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 40 min | 1/2 x TBE |
Electrophoresis
Mitsumoto
pSB1C3 XbaⅠ & SpeⅠ(Digestion product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 40 min | 1/2 x TBE |
Electrophoresis
Mitsumoto
XbaⅠ - BBa_B0034 - XbaⅠ / SpeⅠ scar - BLA - BBa_B0015 - PstⅠ XbaⅠ & PstⅠ (Digestion product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 40 min | 1/2 x TBE |
Electrophoresis
Mitsumoto
EcoRⅠ - BLZ - SpeⅠ, EcoRⅠ - HLZ - SpeⅠ, EcoRⅠ - ABF-2 - SpeⅠ (Digestion product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 40 min | 1/2 x TBE |
Digestion
Mitsumoto
BBa_I0500 - BBa_B0034 on pSB1C3, BBa_I0500 - B0033 on pSB1C3, BBa_I0500 - B0032 on pSB1C3
Reagent | Volume |
---|---|
BBa_I0500 - BBa_B0034 on pSB1C3, BBa_I0500 - B0033 on pSB1C3, BBa_I0500 - B0032 on pSB1C3 | 20 μL |
SpeⅠ | 2 μL |
PstⅠ | 2 μL |
10 x H Buffer | 3 μL |
DW | 3 μL |
Total | 30 μL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 60℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
Digestion
Mitsumoto
Ag43 - Thanatin (1mer)
Reagent | Volume |
---|---|
Ag43 - Thanatin (1mer) | 20 μL |
BglⅡ | 2 μL |
CutSmart Buffer | 3 μL |
DW | 5 μL |
Total | 30 μL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 60℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
2015/09/05
Colony PCR
Fujita, Mimata
BLZ - BBa_B0015 on pSB1C3, HLZ - BBa_B0015 on pSB1C3, ABF-2 - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - 10 x His tag - TEV - Thanatin - BBa_B0015, BBa_R0010 - BBa_B0034 - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - ABF-2 - BBa_B0015 on pSB1C3, BBa_I0500 - BBa_B0034 - BLA - BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 µM | 0.4 µL |
200DN - PS - R 10 µM | 0.4 µL |
KAPA Taq | 5.0 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 35 cycle |
Cycle 2 | 57.6℃ | 30 sec | Annealing | 35 cycle |
Cycle 3 | 72℃ | 210 sec | Elongation | 35 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Electrophoresis
Fujita, Mimata
BLZ - BBa_B0015 on pSB1C3, HLZ - BBa_B0015 on pSB1C3, ABF-2 - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - 10 x His tag - TEV - Thanatin - BBa_B0015, BBa_R0010 - BBa_B0034 - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - ABF-2 - BBa_B0015 on pSB1C3, BBa_I0500 - BBa_B0034 - BLA - BBa_B0015 on pSB1C3
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 30 min | 1/2 x TBE |
Mini-prep
Mimata
BLZ - BBa_B0015 on pSB1C3, HLZ - BBa_B0015 on pSB1C3, ABF-2 - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - 10 x His tag - TEV - Thanatin - BBa_B0015, BBa_R0010 - BBa_B0034 - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - ABF-2 - BBa_B0015 on pSB1C3, BBa_I0500 - BBa_B0034 - BLA - BBa_B0015 on pSB1C3
FastGeneTM Plasmid mini kit (Nippon Genetics Co.,Ltd)
standard protocol
Ligation
Mimata
pSB1C3 / Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 - Suffix
Reagent | Volume |
---|---|
pSB1C3 | 2.5 µL |
Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 - Suffix | 40 µL |
Mighty Mix | 42.5 µL |
Total | 85 µL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 16℃ | 30 min | Ligation |
2 | 70℃ | 10 min | Inactivation |
Store | 4℃ | Hold | Store |
Ligation
Mimata
pSB1C3 / Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015
Reagent | Volume |
---|---|
pSB1C3 | 2.5 µL |
Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 | 40 µL |
Mighty Mix | 42.5 µL |
Total | 85 µL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 16℃ | 30 min | Ligation |
2 | 70℃ | 10 min | Inactivation |
Store | 4℃ | Hold | Store |
Electrophoresis
Mimata
Thanatin on pSB1C3, TEV - Thanatin on pSB1C3
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 60 min | 1/2 x TBE |
Digestion
Sakai
BBa_I0500 - BBa_B0034, BBa_I0500 - BBa_B0033, BBa_I0500 - BBa_B0032
Reagent | Volume |
---|---|
BBa_I0500 - BBa_B0034, BBa_I0500 - BBa_B0033, BBa_I0500 - BBa_B0032 | 20 µL |
PstⅠ | 1.5 µL |
SpeⅠ | 1.5 µL |
10 x H Buffer | 3 µL |
DW | 4 µL |
Total | 30 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 80℃ | 20 min | Inactivation |
Store | 4℃ | Hold | Store |
Digestion
Sakai
Ag43 - Thanatin
Reagent | Volume |
---|---|
Ag43 - Thanatin | 20 µL |
BglⅡ | 2.0 µL |
CutSmart Buffer | 3 µL |
DW | 5 µL |
Total | 30 µL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 80℃ | 20 min | Inactivation |
Store | 4℃ | Hold | Store |
2015/09/06
Colony PCR
Fujita
BLZ - BBa_B0015 on pSB1C3, HLZ - BBa_B0015 on pSB1C3, ABF-2 - BBa_B0015 on pSB1C3, BBa_I0500 - BBa_B0034 - BLA - BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 µM | 0.4 µL |
200DN - PS - R 10 µM | 0.4 µL |
KAPA Taq | 5.0 µL |
DW | 4.2 µL |
Total | 10 µL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 35 cycle |
Cycle 2 | 57.6℃ | 30 sec | Annealing | 35 cycle |
Cycle 3 | 72℃ | 210 sec | Elongation | 35 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Electrophoresis
Fujita
BLZ - BBa_B0015 on pSB1C3, HLZ - BBa_B0015 on pSB1C3, ABF-2 - BBa_B0015 on pSB1C3, BBa_I0500 - BBa_B0034 - BLA - BBa_B0015 on pSB1C3 (Colony PCR product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 30 min | 1/2 x TBE |
2015/09/07
Electrophoresis
Nishimura
Ag43 - Thanatin -BglⅡ (Dephosphorylation and Digestion product, Mini-prep product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 60 min | 1/2x TBE |
Sequencing
Nishimura、Fujita
Ag43 Thanatin
Reagent | Volume |
---|---|
Ag43 Thanatin | 1 μL |
pBAD Fw / Ag43-Rv | 1.5 μL |
BigDye Terminator | 1 μL |
5x Sequencing Buffer | 1.5 μL |
DW | 5 μL |
Total | 10 μL |
Sequencing
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 96℃ | 10 sec | Denaturation | |
Cycle 1 | 50℃ | 5 sec | - | 25 cycle |
Cycle 2 | 60℃ | 240 sec | - | 25 cycle |
Store | 4℃ | Hold | Store |
Sequencing
Nishimura, Fujita
pBAD_B0031
Reagent | Volume |
---|---|
pBAD_B0031 | 1 μL |
100UP - EX - F / 200DN - PS - R | 1.5 μL |
BigDye Terminator | 1 μL |
5x Sequencing Buffer | 1.5 μL |
DW | 5 μL |
Total | 10 μL |
Sequencing
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 96℃ | 10 sec | Denaturation | |
Cycle 1 | 50℃ | 5 sec | - | 25 cycle |
Cycle 2 | 60℃ | 240 sec | - | 25 cycle |
Store | 4℃ | Hold | Store |
Ethanol Precipitation
Nishimura
Ag43 thanatin on pSB1C3, pBAD_B0031
Liquid Culture
Mimata, Nishimura
Ag43 - Thanatin on pSB1C3, BBa_I0500 - BBa_B0032 on pSB1C3, BBa_I0500 - BBa_B0033 on pSB1C3, BBa_I0500 - BBa_B0034 on pSB1C3
Reagent | Volume |
---|---|
Single Colony | - |
LBC | 2000 μL |
Chloramphenicol | 2 μL |
Cultured for 16 hours.
Digestion
Ono
Ag43 - Thanatin pSB1C3 (Mini-prep product)
Reagent | Volume |
---|---|
Ag43 - Thanatin pSB1C3 (Mini-prep product) | 20 μL |
BglⅡ | 1 μL |
DW | 6 μL |
10 × H Buffer | 3 μL |
Total | 20 μL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 70℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
Electrophoresis
Nishimura
Ag43 - Thanatin -BglⅡ (Digestion product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 60 min | 1/2x TBE |
Colony PCR
Ono, Sakai
Ag43 - Thanatin on pSB1C3
Reagent | Volume |
---|---|
Single Colony | - |
Agsp-BamH1-Spidroin 10 μM | 0.4 μL |
Ag43 - bunit - R 10 μM | 0.4 μL |
KAPA Taq | 5 μL |
DW | 4.2 μL |
Total | 10 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 65℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Colony PCR
Ono, Sakai
Ag43 - Thanatin on pSB1C3
Reagent | Volume |
---|---|
Single Colony | - |
Agsp-BamH1-Spidroin 10 μM | 0.4 μL |
BglⅡ - D - Thanatin - R 10 μM | 0.4 μL |
KAPA Taq | 5 μL |
DW | 4.2 μL |
Total | 10 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 65℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Colony PCR
Ono, Sakai
BBa_B0031 on pSB1C3 (as a positive control)
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 μM | 0.4 μL |
200DN - PS - R 10 μM | 0.4 μL |
KAPA Taq | 5 μL |
DW | 4.2 μL |
Total | 10 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 57℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Electrophoresis
Ono
Ag43 - Thanatin on pSB1C3 (Colony PCR 3STEP product), BBa_B0031 on pSB1C3 (as a positive control)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 40 min | 1/2x TBE |
Transformation
Sakai
Ag43 - Thanatin on pSB1C3, oripAMβ1 - repE - Erythromycin resistant gene - Pcasei - RBScasei - Sec signal sequence on pSB1C3
Ethanol Precipitation
Onoda
HLA, BLA, HLZ, BLZ(going through GP3 solution)
Electrophoresis
Onoda
HLA, BLA, HLZ, BLZ (Ethanol Precipitation)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 40 min | 1/2x TBE |
Colony PCR
Onoda
HLA, HLZ, BLZ
Reagent | Volume |
---|---|
Single Colony | - |
XbalⅠ - HLA - F, XbalⅠ - HLZ - F, XbalⅠ - BLZ - F 10 μM | 0.4 μL |
200DN - PS - R 10 μM | 0.4 μL |
Kapa-Taq | 5 μL |
DW | 4.2 μL |
Total | 10 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 61.5℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 60 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Colony PCR
Onoda
BLA, BBa_B0031 (as a positive control)
Reagent | Volume |
---|---|
Single Colony | - |
BalⅠ - BLA - F, 100UP - EX - F 10 μM | 0.4 μL |
200DN - PS - R 10 μM | 0.4 μL |
Kapa-Taq | 5 μL |
DW | 4.2 μL |
Total | 10 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 57℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 60 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Electrophoresis
Sakai
HLA - BBa_B0015, HLZ - BBa_B0015, BLA - BBa_B0015, BLZ - BBa_B0015
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 60 min | 1/2x TBE |
Ligation
Nishimura, Ono, Fujita
BBa_B0015 on pSB1C3 / BamHⅠ - Thanatin - BglⅡ
Reagent | Volume |
---|---|
BBa_B0015 on pSB1C3 | 10 μL |
BamHⅠ - Thanatin - BglⅡ | 1 μL |
T4 Ligase | 1 μL |
10 × T4 Ligase | 2 μL |
DW | 6 μL |
Total | 20 μL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 16℃ | 60 min | Ligation |
Store | 4℃ | Hold | Store |
2015/09/08
Colony PCR
Nishimura
HLA, HLZ, BLZ
Reagent | Volume |
---|---|
Single Colony | - |
XbalⅠ - HLA - F, XbalⅠ - HLZ - F, XbalⅠ - BLZ - F 10 μM | 0.4 μL |
200DN - PS - R 10 μM | 0.4 μL |
Kapa-Taq | 5 μL |
DW | 4.2 μL |
Total | 10 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 61.5℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 60 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Colony PCR
Nishimura
BLA, BBa_B0031 (as a positive control)
Reagent | Volume |
---|---|
Single Colony | - |
BalⅠ - BLA - F, 100UP - EX - F 10 μM | 0.4 μL |
200DN - PS - R 10 μM | 0.4 μL |
Kapa-Taq | 5 μL |
DW | 4.2 μL |
Total | 10 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 57℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 60 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Transformation
Nishimura
Ag43 - Thanatin on pSB1C3 (Ligation product)
Electrophoresis
Nishimura
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 50 min | 1/2x TBE |
Mini-prep
Fujita
BLZ - BBa_B0015, HLZ - BBa_B0015, ABF-2 - BBa_B0015, BBa_R0010 - BBa_B0034 - ABF-2-BBa_B0015, BBa_I0500 - BBa_B0034 - BLA - BBa_B0015
FastGeneTM Plasmid mini kit (Nippon Genetics Co.,Ltd)
standard protocol
Liquid Culture
Nishimura
Ag43 - Thanatin on pSB1C3 into DH5α
Reagent | Volume |
---|---|
Single Colony | - |
LB | 2000 μL |
Chloramphenicol | 2 μL |
Cultured for 16 hours.
Sequencing
Ito
Ag43 - Thanatin
Reagent | Volume |
---|---|
Ag43 - Thanatin | 1 μL |
BBa_I0500 - f2 / 200 - β domain - Ag43 - R | 1.5 μL |
BigDye Terminator | 1 μL |
5 x Sequencing Buffer | 1.5 μL |
DW | 5 μL |
Total | 10 μL |
Sequencing
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 96℃ | 10 sec | Denaturation | |
Cycle 1 | 50℃ | 5 sec | - | 25 cycle |
Cycle 2 | 60℃ | 240 sec | - | 25 cycle |
Store | 4℃ | Hold | Store |
Sequencing
Ito
ABF-2, BLZ - BBa_B0015, BBa_I0500 - BLA, BBa_R0010 - ABF-2, HLZ, BBa_I0500 on pSB1A2, BBa_I0500 on pSB1C3
Reagent | Volume |
---|---|
ABF - 2 | 1 μL |
100UP - EX - F / 200DN - PS - R | 1.5 μL |
Ready Reaction Premix | 1 μL |
5 x Sequencing Buffer | 1.5 μL |
DW | 5 μL |
Total | 10 μL |
Sequencing
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 96℃ | 10 sec | Denaturation | |
Cycle 1 | 50℃ | 5 sec | - | 25 cycle |
Cycle 2 | 60℃ | 240 sec | - | 25 cycle |
Store | 4℃ | Hold | Store |
2015/09/09
Colony PCR
Mitsumoto
EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 x His tag - TEV - Thanatin - BBa_B0015 - PstⅠ, EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 - PstⅠ
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 μM | 0.4 μL |
200DN - PS - R 10 μM | 0.4 μL |
KAPA Taq | 5 μL |
DW | 4.2 μL |
Total | 10 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 35 cycle |
Cycle 2 | 57.6℃ | 30 sec | Annealing | 35 cycle |
Cycle 3 | 68℃ | 150 sec | Elongation | 35 cycle |
Store | 4℃ | Hold | Store |
Ethanol Precipitation
Nishimura
ABF-2,BLZ - BBa_B0015, BBa_I0500, BBa_R0010 - ABF-2, HLZ, BBa_I0500, BBa_I0500
Mini-prep
Nishimura
Ag43 - Thanatin (Liquid culturing product)
FastGeneTM Plasmid mini kit (Nippon Genetics Co.,Ltd)
standard protocol
Digestion
Ono
Ag43 - Thanatin (Mini-prep product)
Reagent | Volume |
---|---|
Ag43 - Thanatin (Mini-prep product) | 10 μL |
BglⅡ | 1 μL |
SpeⅠ | 1 μL |
10 × H Buffer | 2 μL |
DW | 6 μL |
Total | 20 μL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 60 min | Digestion |
2 | 20 min | Inactivation | |
Store | 4℃ | Hold | Store |
PCR
Nishimura
Ag43 - Thanatin (Mini-prep product)
Reagent | Volume |
---|---|
Ag43 - Thanatin (Mini-prep product) | 1 μL |
BamHⅠ - thanatin - F 10 μM | 1 μL |
200DN - PS - R 10 μM | 1 μL |
KOD Plus NEO | 1 μL |
KOD Plus NEO 10x Buffer | 5 μL |
2 mM dNTPS | 5 μL |
25 mM MgSO4 | 3 μL |
DW | 33 μL |
Total | 50 μL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 35 cycle |
Cycle 2 | 68℃ | 120 sec | Annealing / Elongation | 35 cycle |
Store | 4℃ | Hold | Store |
Electrophoresis
Nishimura
Ag43 - Thanatin (Digestion product, PCR 2STEP Product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 50 min | 1/2x TBE |
Sequencing
Nishimura, Ono
Ag43 - Thanatin (Mini-prep product)
Reagent | Volume |
---|---|
Ag43 - Thanatin (Mini-prep product) | 1 μL |
pbad - F / 200DN Ag43 - R | 1.5 μL |
Ready Reaction Premix | 1 μL |
BigDye Terminator | 1.5 μL |
DW | 5 μL |
Total | 10 μL |
Sequencing
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 96℃ | 10 sec | Denaturation | |
Cycle 1 | 50℃ | 5 sec | - | 25 cycle |
Cycle 2 | 60℃ | 240 sec | - | 25 cycle |
Store | 4℃ | Hold | Store |
PCR
Ono, Nishimura
Signal peptide - Thanatin - BglⅡ - β domain (Mini-prep product)
Reagent | Volume |
---|---|
Signal peptide - Thanatin - BglⅡ - β domain (Mini-prep product) | 1 μL |
Agsp - BamHⅠ - Spidroin 10 μM | 1 μL |
200DN - PS - R 10 μM | 1 μL |
KOD - Plus - Neo | 1 μL |
10 x PCR Buffer for KOD - Plus - Neo | 5 μL |
2 mM dNTPs | 5 μL |
25 mM MgSO4 | 3 μL |
DW | 33 μL |
Total | 50 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 30 cycle |
Cycle 2 | 65℃ | 30 sec | Annealing | 30 cycle |
Cycle 3 | 68℃ | 120 sec | Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
PCR
Ono, Nishimura
Signal peptide - Thanatin - BglⅡ - β domain (Mini-prep product)
Reagent | Volume |
---|---|
Signal peptide - Thanatin - BglⅡ - β domain (Mini-prep product) | 1 μL |
Ag43 - F4 10 μM | 1 μL |
200 β - domain Ag43 - R 10 μM | 1 μL |
KOD - FX - NEO | 1 μL |
10 × PCR Buffer for KOD -FX - NEO | 25 μL |
2 mM dNTPs | 5 μL |
25 mM MgSO4 | 3 μL |
DW | 13 μL |
Total | 50 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 20 sec | Denaturation | 30 cycle |
Cycle 2 | 60℃ | 15 sec | Annealing | 30 cycle |
Cycle 3 | 68℃ | 180 sec | Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
PCR Purification
Nishimura
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
Purification of PCR products
Electrophoresis
Nishimura
Thanatin - β domain - BBa_B0015, pSB1C3 - BBa_R0010 - Signal peptide - Thanatin (PCR 3STEP product, PCR purifying product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 40 min | 1/2 x TBE |
Digestion
Ito
BBa_I0500 - B0034 - Thanatin - BglⅡ - Ag43 β domain - BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
BBa_I0500 - B0034 - Thanatin - BglⅡ - Ag43 β domain - BBa_B0015 on pSB1C3 | 10 μL |
BglⅡ | 1 μL |
Spe1 | 1 μL |
10 x H Buffer | 2 μL |
DW | 6 μL |
Total | 20 μL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 60 min | Digestion |
2 | 80℃ | 20 min | Inactivation |
Store | 4℃ | Hold | Store |
PCR
Ito
Ag43 - Thanatin on pSB1C3
Reagent | Volume |
---|---|
Ag43 - Thanatin on pSB1C3 | 1 μL |
BamHⅠ - Thanatin - Fw 10 μM | 1 μL |
200DN - PS - R 10 μM | 1 μL |
KOD - Plus - Neo | 1 μL |
10 x PCR Buffer for KOD - Plus - Neo | 5 μL |
2 mM dNTPs | 5 μL |
25 mM MgSO4 | 3 μL |
DW | 33 μL |
Total | 50 μL |
2 Step Cycle (Tm value ≥ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 35 cycle |
Cycle 2 | 68℃ | 120 sec | Annealing / Elongation | 35 cycle |
Store | 4℃ | Hold | Store |
Sequencing
Ito
BBa_I0500 - BLA, ABF-2
Reagent | Volume |
---|---|
BBa_I0500 - BLA, ABF-2 | 1 μL |
100UP - EX - F / 200DN - PS - R | 1.5 μL |
Ready Reaction Premix | 1 μL |
5 x Sequencing Buffer | 1.5 μL |
DW | 5 μL |
Total | 10 μL |
Sequencing
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 96℃ | 10 sec | Denaturation | |
Cycle 1 | 50℃ | 5 sec | - | 25 cycle |
Cycle 2 | 60℃ | 240 sec | - | 25 cycle |
Store | 4℃ | Hold | Store |
Sequencing
Ito
BBa_I0500 - BLA
Reagent | Volume |
---|---|
BBa_I0500 - BLA | 1 μL |
pbad - f2 / 200 - β domain - Ag43 - Rv | 1.5 μL |
Ready Reaction Premix | 1 μL |
5 x Sequencing Buffer | 1.5 μL |
DW | 5 μL |
Total | 10 μL |
Sequencing
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 96℃ | 10 sec | Denaturation | |
Cycle 1 | 50℃ | 5 sec | - | 25 cycle |
Cycle 2 | 60℃ | 240 sec | - | 25 cycle |
Store | 4℃ | Hold | Store |
2015/09/10
Mini-prep
Mitsumoto
EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 x His tag - TEV - Thanatin - BBa_B0015 - PstⅠ
FastGeneTM Plasmid mini kit (Nippon Genetics Co.,Ltd)
standard protocol
PCR
Nishimura
Signal peptide - Thanatin - BglⅡ - β domain(Mini-prep product)
Reagent | Volume |
---|---|
Signal peptide - Thanatin - BglⅡ - β domain (Mini-prep product) | 1 μL |
Agsp - BamHⅠ - Spidroin 10 μM | 1 μL |
200DN - PS - R 10 μM | 1 μL |
KOD - Plus - Neo | 1 μL |
10 x PCR Buffer for KOD - Plus - Neo | 5 μL |
2 mM dNTPs | 5 μL |
25 mM MgSO4 | 3 μL |
DW | 33 μL |
Total | 50 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 30 cycle |
Cycle 2 | 65℃ | 30 sec | Annealing | 30 cycle |
Cycle 3 | 68℃ | 120 sec | Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
PCR
Nishimura
Signal peptide - Thanatin - BglⅡ - β domain (Mini-prep product)
Reagent | Volume |
---|---|
Signal peptide - Thanatin - BglⅡ - β domain (Mini-prep product) | 1 μL |
Ag43 - F4 10 μM | 1 μL |
200 β - domain Ag43 - R 10 μM | 1 μL |
KOD - FX - NEO | 1 μL |
10 × PCR Buffer for KOD -FX - NEO | 25 μL |
2 mM dNTPs | 5 μL |
25 mM MgSO4 | 3 μL |
DW | 13 μL |
Total | 50 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 20 sec | Denaturation | 30 cycle |
Cycle 2 | 60℃ | 15 sec | Annealing | 30 cycle |
Cycle 3 | 68℃ | 180 sec | Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
PCR Purification
Nishimura
Thanatin - β domain BBa_B0015, pSB1C3 - BBa_R0010 - Signal peptide - Thanatin (PCR 3STEP product)
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
Purification of PCR products
Electrophoresis
Nishimjura
Thanatin - β domain BBa_B0015 (PCR 3STEP product, PCR purifying product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 40 min | 1/2 x TBE |
Electrophoresis
Nishimjura
pSB1C3 - BBa_R0010 - Signal peptide - Thanatin (PCR 3STEP product, PCR purifying product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 40 min | 1/2 x TBE |
PCR
Nishimura
Signal peptide - Thanatin - BglⅡ - β domain (Mini-prep product)
Reagent | Volume |
---|---|
Signal peptide - Thanatin - BglⅡ - β domain (Mini-prep product) | 1 μL |
Ag43 - F4 10 μM | 1 μL |
200 β - domain Ag43 - R 10 μM | 1 μL |
KOD - FX - NEO | 1 μL |
10 × PCR Buffer for KOD -FX - NEO | 25 μL |
2 mM dNTPs | 5 μL |
25 mM MgSO4 | 3 μL |
DW | 13 μL |
Total | 50 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 20 sec | Denaturation | 30 cycle |
Cycle 2 | 60℃ | 15 sec | Annealing | 30 cycle |
Cycle 3 | 68℃ | 180 sec | Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
PCR Purification
Nishimura
pSB1C3 - BBa_R0010 - Signal peptide - Thanatin (PCR 3STEP product)
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
Purification of PCR products
Electrophoresis
Nishimjura
pSB1C3 - BBa_R0010 - Signal peptide - Thanatin (PCR 3STEP product, PCR purifying product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 40 min | 1/2 x TBE |
Digestion
Nishimura, Fujita
Reagent | Volume |
---|---|
Thanatin - β domain BBa_B0015 | 25 μL |
BamHⅠ | 3 μL |
SpeⅠ | 0.5 μL |
DW | 16.5 μL |
10 × K Buffer | 5 μL |
Total | 50 μL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 70℃ | 20 min | Inactivation |
Store | 4℃ | Hold | Store |
Digestion
Nishimura, Fujita
Reagent | Volume |
---|---|
pSB1C3 - BBa_R0010 - Signal peptide - Thanatin | 25 μL |
BglⅡ | 4 μL |
SpeⅠ | 0.5 μL |
DW | 15.5 μL |
10 × H Buffer | 5 μL |
Total | 50 μL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 70℃ | 20 min | Inactivation |
Store | 4℃ | Hold | Store |
Electrophoresis
Nishimura
Thanatin - β domain BBa_B0015, pSB1C3 - BBa_R0010 - Signal peptide - Thanatin (Digestion product)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 40 min | 1/2 x TBE |
Gel Extract
Nishimura
Thanatin - β domain BBa_B0015, pSB1C3 - BBa_R0010 - Signal peptide - Thanatin (Digestion product)
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
Ligation
Nishimura
pSB1C3 - BBa_R0010 - Signal peptide - Thanatin / Thanatin - β domain BBa_B0015
Reagent | Volume |
---|---|
pSB1C3 - BBa_R0010 - Signal peptide - Thanatin | 1.5 μL |
Thanatin - β domain BBa_B0015 | 3.5 μL |
Mighty Mix | 5 μL |
Total | 10 μL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 60℃ | 60 min | Ligation |
2 | 80℃ | 20 min | Inactivation |
Store | 4℃ | Hold | Store |
Transformation
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar - Thanatin - β domain BBa_B0015 on pSB1C3
Transformation
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar - Thanatin - β domain BBa_B0015 on pSB1C3
Ethanol Precipitation
Ito
Thanatin ( 2mer )
Sequencing
Ito
Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015
Reagent | Volume |
---|---|
Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 | 1 μL |
100UP - EX - F / 200DN - PS - R | 1.5 μL |
Ready Reaction Premix | 1 μL |
5 x Sequencing Buffer | 1.5 μL |
DW | 5 μL |
Total | 10 μL |
Sequencing
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 96℃ | 10 sec | Denaturation | |
Cycle 1 | 50℃ | 5 sec | - | 25 cycle |
Cycle 2 | 60℃ | 240 sec | - | 25 cycle |
Store | 4℃ | Hold | Store |
Sequencing
Ito
Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015
Reagent | Volume |
---|---|
Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 | 1 μL |
BBa_I0500 - f2 / 200 - β domain - Ag43 - Rv | 1.5 μL |
Ready Reaction Premix | 1 μL |
5 x Sequencing Buffer | 1.5 μL |
DW | 5 μL |
Total | 10 μL |
Sequencing
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 96℃ | 10 sec | Denaturation | |
Cycle 1 | 50℃ | 5 sec | - | 25 cycle |
Cycle 2 | 60℃ | 240 sec | - | 25 cycle |
Store | 4℃ | Hold | Store |
2015/09/11
Colony PCR
Mitsumoto
EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / PstⅠ scar - 10 x His tag - TEV - Thanatin - BBa_B0015 - PstⅠ, EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 - PstⅠ
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 μM | 0.4 μL |
200DN - PS - R 10 μM | 0.4 μL |
KAPA Taq | 5 μL |
DW | 4.2 μL |
Total | 10 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 35 cycle |
Cycle 2 | 57.6℃ | 30 sec | Annealing | 35 cycle |
Cycle 3 | 72℃ | 90 sec | Elongation | 35 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Sequencing
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3 | 1 μL |
100UP - EX - F / 200DN - PS - R | 1.5 μL |
BigDye Terminator | 1 μL |
5 x Sequencing Buffer | 1.5 μL |
DW | 5 μL |
Total | 10 μL |
Sequencing
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 96℃ | 10 sec | Denaturation | |
Cycle 1 | 50℃ | 5 sec | - | 25 cycle |
Cycle 2 | 60℃ | 240 sec | - | 25 cycle |
Store | 4℃ | Hold | Store |
Ethanol Precipitation
Nishimura
BLA
Colony PCR
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
Single Colony | - |
Agsp - BamHⅠ - Spidroin 10 μM | 0.4 μL |
Ag43 - bunit - R 10 μM | 0.4 μL |
KAPA Taq | 5 μL |
DW | 4.2 μL |
Total | 10 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 65℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Colony PCR
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
Single Colony | - |
Agsp - BamHⅠ - Spidroin 10 μM | 0.4 μL |
BglⅡ - D - Thanatin - R 10 μM | 0.4 μL |
KAPA Taq | 5 μL |
DW | 4.2 μL |
Total | 10 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 65℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Colony PCR
Nishimura
Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015, Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 - Suffix, BBa_B0031 (as a positive control)
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 μM | 0.4 μL |
200DN - PS - R 10 μM | 0.4 μL |
KAPA Taq | 5 μL |
DW | 4.2 μL |
Total | 10 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 65℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Electrophoresis
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015, Prefix - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 - Suffix (Colony PCR procduct)
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 50 min | 1/2 x TBE |
2015/09/12
Dephosphorylation
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BglⅡ on pSB1C3
Reagent | Volume |
---|---|
pSB1C3 - BBa_R0010 - Signal peptide - Thanatin - BglⅡ | 20 μL |
Antarctic Phosphatase | 2 μL |
Antarctic Phosphatase Buffer | 4 μL |
DW | 14 μL |
Total | 40 μL |
Dephosphorylation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 30 min | Dephosphorylation |
2 | 65℃ | 10 min | Inactivation |
Store | 4℃ | Hold | Store |
Ligation
Nishimura
pSB1C3 - BBa_R0010 - Signal peptide - Thanatin (Dephosphorylation product) / Thanatin - β domain - BBa_B0015
Reagent | Volume |
---|---|
pSB1C3 - BBa_R0010 - Signal peptide - Thanatin | 1.5 μL |
Thanatin - β domain - BBa_B0015 | 3.5 μL |
Mighty Mix | 5 μL |
Total | 10 μL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 16℃ | 60 min | Ligation |
Store | 4℃ | Hold | Store |
Ligation
Nishimura
BBa_R0010 - Signal peptide - Thanatin on pSB1C3 (Dephosphorylation product) / Thanatin - β domain - BBa_B0015
Reagent | Volume |
---|---|
BBa_R0010 - Signal peptide - Thanatin on pSB1C3 | 1.5 μL |
Thanatin - β domain - BBa_B0015 | 3.5 μL |
Mighty Mix | 5 μL |
Total | 10 μL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 60℃ | 60 min | Ligation |
2 | 80℃ | 20 min | Inactivation |
Store | 4℃ | Hold | Store |
Transformation
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3 (Ligation product)
Mini-prep
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3
FastGeneTM Plasmid mini kit (Nippon Genetics Co.,Ltd)
standard protocol
Sequencing
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3 | 1 μL |
pbad - f2 / 200 βdomein Ag43 Rv | 1.5 μL |
Ready Reaction Premix | 1 μL |
5 x Sequencing Buffer | 1.5 μL |
DW | 5 μL |
Total | 10 μL |
Sequencing
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 96℃ | 10 sec | Denaturation | |
Cycle 1 | 50℃ | 10 sec | - | 25 cycle |
Cycle 2 | 60℃ | 240 sec | - | 25 cycle |
Store | 4℃ | Hold | Store |
Ethanol Precipitation
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3
Colony PCR
Nishimura
BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 μM | 0.4 μL |
200DN - PS - R 10 μM | 0.4 μL |
KAPA Taq | 5 μL |
DW | 4.2 μL |
Total | 10 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 57℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Liquid Culture
Nishimura
BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
Single Colony | - |
LB | 2000 μL |
Chloramphenicol | 2 μL |
Cultured for 16 hours.
Electrophoresis
Nishimura
BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 30 min | 1/2 x TBE |
Colony PCR
Mitsumoto
EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / PstⅠ scar - 10 x His tag - TEV - Thanatin - BBa_B0015 - PstⅠ, EcoRⅠ - BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 - PstⅠ
Reagent | Volume |
---|---|
Single Colony | - |
100UP - EX - F 10 μM | 0.4 μL |
200DN - PS - R 10 μM | 0.4 μL |
KAPA Taq | 5 μL |
DW | 4.2 μL |
Total | 10 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 95℃ | 30 sec | Denaturation | 35 cycle |
Cycle 2 | 57.6℃ | 30 sec | Annealing | 35 cycle |
Cycle 3 | 72℃ | 90 sec | Elongation | 35 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
MIC Test
Onoda, Sakai, Ito
50μM Thanatin
2015/09/13
PCR
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3 | 1 μL |
Agsp - BamHⅠ - Spidroin 10 μM | 1 μL |
200DN - PS - R 10 μM | 1 μL |
KOD - Plus - Neo | 1 μL |
10 x PCR Buffer for KOD - Plus - Neo | 5 μL |
2 mM dNTPs | 5 μL |
25 mM MgSO4 | 3 μL |
DW | 33 μL |
Total | 50 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 30 cycle |
Cycle 2 | 65℃ | 15 sec | Annealing | 30 cycle |
Cycle 3 | 68℃ | 120 sec | Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
PCR
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3 | 1 μL |
Ag43 - f4 10 μM | 1 μL |
Xba - RBS - scar 10 μM | 1 μL |
KOD - FX - Neo | 1 μL |
2x PCR Buffer for KOD - FX - Neo | 25 μL |
2 mM dNTPs | 5 μL |
25 mM MgSO4 | 3 μL |
DW | 13 μL |
Total | 50 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 30 cycle |
Cycle 2 | 60℃ | 15 sec | Annealing | 30 cycle |
Cycle 3 | 68℃ | 180 sec | Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
Electrophoresis
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 60 min | 1/2 x TBE |
PCR Purification
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
Purification of PCR products
Digestion
Nishimura
BglⅡ - Thanatin - β domain BBa_B0015
Reagent | Volume |
---|---|
BglⅡ - Thanatin - β domain BBa_B0015 | 25 μL |
BamHⅠ | 3 μL |
SpeⅠ | 0.5 μL |
10 × K Buffer | 5 μL |
DW | 16.5 μL |
Total | 50 μL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 70℃ | 20 min | Inactivation |
Store | 4℃ | Hold | Store |
Digestion
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BglⅡ on pSB1C3
Reagent | Volume |
---|---|
BBa_R0010 - Signal peptide - Thanatin - BglⅡ on pSB1C3 | 25 μL |
BglⅡ | 4 μL |
SpeⅠ | 0.5 μL |
10 × H Buffer | 5 μL |
DW | 15.5 μL |
Total | 50 μL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 120 min | Digestion |
2 | 70℃ | 20 min | Inactivation |
Store | 4℃ | Hold | Store |
Electrophoresis
Nishimura
BglⅡ - Thanatin - β domain BBa_B0015, BBa_R0010 - Signal peptide - Thanatin - BglⅡ on pSB1C3
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 60 min | 1/2 x TBE |
Gel Extract
Nishimura
BglⅡ - Thanatin - β domain BBa_B0015, BBa_R0010 - Signal peptide - Thanatin - BglⅡ on pSB1C3
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
Ligation
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BglⅡ on pSB1C3 ( 2mer ) / Thanatin - β domain - BBa_B0015 ( 1mer )
Reagent | Volume |
---|---|
BBa_R0010 - Signal peptide - Thanatin - BglⅡ on pSB1C3 ( 2mer ) | 3.5 μL |
Thanatin - β domain - BBa_B0015 ( 1mer ) | 1.5 μL |
Mighty Mix | 5 μL |
Total | 10 μL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 16℃ | 30 min | Ligation |
2 | 65℃ | 10 min | Inactivation |
Store | 4℃ | Hold | Store |
Ligation
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BglⅡ on pSB1C3 ( 2mer ) / Thanatin - β domain - BBa_B0015 ( 1mer )
Reagent | Volume |
---|---|
BBa_R0010 - Signal peptide - Thanatin - BglⅡ on pSB1C3 ( 2mer ) | 1.5 μL |
Thanatin - β domain - BBa_B0015 ( 1mer ) | 3.5 μL |
Mighty Mix | 5 μL |
Total | 10 μL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 16℃ | 30 min | Ligation |
2 | 65℃ | 10 min | Inactivation |
Store | 4℃ | Hold | Store |
Ligation
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BglⅡ on pSB1C3 ( 2mer ) / Thanatin - β domain - BBa_B0015 ( 2mer )
Reagent | Volume |
---|---|
BBa_R0010 - Signal peptide - Thanatin - BglⅡ on pSB1C3 ( 2mer ) | 3.5 μL |
Thanatin - β domain - BBa_B0015 ( 2mer ) | 1.5 μL |
Mighty Mix | 5 μL |
Total | 10 μL |
Ligation
Step | Temp. | Time | Process |
---|---|---|---|
1 | 16℃ | 30 min | Ligation |
2 | 65℃ | 10 min | Inactivation |
Store | 4℃ | Hold | Store |
Transformation
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3
2015/09/14
Colony PCR
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
Single Colony | - |
Agsp - BamHⅠ - Spindroin 10 μM | 0.4 μL |
200 - β domein - Ag43 - Rv 10 μM | 0.4 μL |
KAPA Taq | 5 μL |
DW | 4.2 μL |
Total | 10 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 94℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 30 sec | Denaturation | 40 cycle |
Cycle 2 | 65℃ | 30 sec | Annealing | 40 cycle |
Cycle 3 | 72℃ | 40 sec | Elongation | 40 cycle |
Finish | 72℃ | 120 sec | Final Elongation | |
Store | 4℃ | Hold | Store |
Electrophoresis
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 30 min | 1/2 x TBE |
2015/09/15
Sequencing
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3 | 1 μL |
pbad - f2 | 1.5 μL |
Ready Reaction Premix | 1 μL |
5 x Sequencing Buffer | 1.5 μL |
DW | 5 μL |
Total | 10 μL |
Sequencing
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 96℃ | 10 sec | Denaturation | |
Cycle 1 | 50℃ | 5 sec | - | 25 cycle |
Cycle 2 | 60℃ | 240 sec | - | 25 cycle |
Store | 4℃ | Hold | Store |
Sequencing
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3 | 1 μL |
200 - β domein - Ag43 - Rv | 1.5 μL |
Ready Reaction Premix | 1 μL |
5 x Sequencing Buffer | 1.5 μL |
DW | 5 μL |
Total | 10 μL |
Sequencing
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 96℃ | 10 sec | Denaturation | |
Cycle 1 | 50℃ | 5 sec | - | 25 cycle |
Cycle 2 | 60℃ | 240 sec | - | 25 cycle |
Store | 4℃ | Hold | Store |
Mini-prep
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3
FastGeneTM Plasmid mini kit (Nippon Genetics Co.,Ltd)
standard protocol
Liquid Culture
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
Single Colony | - |
LB | 2000 μL |
Chloramphenicol | 2 μL |
Cultured for 16 hours.
Mini-prep
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3
FastGeneTM Plasmid mini kit (Nippon Genetics Co.,Ltd)
standard protocol
Mini-prep
Nishimura
BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3
FastGeneTM Plasmid mini kit (Nippon Genetics Co.,Ltd)
Standard Protocol
Liquid Culture
Nishimura
BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
Single Colony | - |
LB | 15000 μL |
Chloramphenicol | 1.5 μL |
Cultured for 16 hours.
Sequencing
Nishimura
BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3 | 1 μL |
100UP - EX - F | 1.5 μL |
Ready Reaction Premix | 1 μL |
5 x Sequencing Buffer | 1.5 μL |
DW | 5 μL |
Total | 10 μL |
Sequencing
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 96℃ | 10 sec | Denaturation | |
Cycle 1 | 50℃ | 5 sec | - | 25 cycle |
Cycle 2 | 60℃ | 240 sec | - | 25 cycle |
Store | 4℃ | Hold | Store |
Sequencing
Nishimura
BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3 | 1 μL |
200DN - PS - R | 1.5 μL |
Ready Reaction Premix | 1 μL |
5 x Sequencing Buffer | 1.5 μL |
DW | 5 μL |
Total | 10 μL |
Sequencing
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 96℃ | 10 sec | Denaturation | |
Cycle 1 | 50℃ | 5 sec | - | 25 cycle |
Cycle 2 | 60℃ | 240 sec | - | 25 cycle |
Store | 4℃ | Hold | Store |
Sequencing
Nishimura
BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3 | 1 μL |
100UP - EX - F | 1.5 μL |
Ready Reaction Premix | 1 μL |
5 x Sequencing Buffer | 1.5 μL |
DW | 5 μL |
Total | 10 μL |
Sequencing
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 96℃ | 10 sec | Denaturation | |
Cycle 1 | 50℃ | 5 sec | - | 25 cycle |
Cycle 2 | 60℃ | 240 sec | - | 25 cycle |
Store | 4℃ | Hold | Store |
Sequencing
Nishimura
BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3 | 1 μL |
200DN - PS - R | 1.5 μL |
Ready Reaction Premix | 1 μL |
5 x Sequencing Buffer | 1.5 μL |
DW | 5 μL |
Total | 10 μL |
Sequencing
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 96℃ | 10 sec | Denaturation | |
Cycle 1 | 50℃ | 5 sec | - | 25 cycle |
Cycle 2 | 60℃ | 240 sec | - | 25 cycle |
Store | 4℃ | Hold | Store |
2015/09/16
PCR
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3 | 1 μL |
Agsp - BamHⅠ - Spidroin 10 μM | 1 μL |
200DN - PS - R 10 μM | 1 μL |
KOD - Plus - Neo | 1 μL |
10 x PCR Buffer for KOD - Plus - Neo | 5 μL |
2 mM dNTPs | 5 μL |
25 mM MgSO4 | 3 μL |
DW | 33 μL |
Total | 50 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 30 cycle |
Cycle 2 | 65℃ | 15 sec | Annealing | 30 cycle |
Cycle 3 | 68℃ | 120 sec | Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
PCR
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3
Reagent | Volume |
---|---|
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3 | 1 μL |
Ag43 - f4 10 μM | 1 μL |
XbaⅠ - RBS - scar 10 μM | 1 μL |
KOD - FX - Neo | 1 μL |
2x PCR Buffer for KOD - FX - Neo | 25 μL |
2 mM dNTPs | 5 μL |
25 mM MgSO4 | 3 μL |
DW | 13 μL |
Total | 50 μL |
3 Step Cycle (Tm value ≤ 63℃)
Step | Temp. | Time | Process | Cycle |
---|---|---|---|---|
Start | 95℃ | 120 sec | Initialization | |
Cycle 1 | 98℃ | 10 sec | Denaturation | 30 cycle |
Cycle 2 | 60℃ | 15 sec | Annealing | 30 cycle |
Cycle 3 | 68℃ | 180 sec | Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
Electrophoresis
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 60 min | 1/2 x TBE |
PCR Purification
Nishimura
BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3, BBa_R0010 - Signal peptide - Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - BamHⅠ / BglⅡ scar- Thanatin - β domain BBa_B0015 on pSB1C3
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
Purification of PCR products
Ethanol Precipitation
Nishimura
BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - 10 × His tag - TEV - Thanatin - BBa_B0015 on pSB1C3, BBa_R0010 - BBa_B0034 - XbaⅠ / SpeⅠ scar - Thanatin - BBa_B0015 on pSB1C3
2015/09/17
Measurement of Optical Density
Mimata
Ag43 - Thanatin (1mer) into DH5α
Measurement of Optical Density
Mimata
Ag43 - Thanatin (2mer) into DH5α
Measurement of Optical Density
Mimata
Ag43 - Thanatin (3mer) into DH5α
Measurement of Optical Density
Mimata
Ag43 - Thanatin (4mer) into DH5α
Measurement of Optical Density
Mimata
Ag43 (without Thanatin) into DH5α
MIC Test
Ito, Ono
Thanatin (1mer, 2mer, 3mer, 4mer, nothing (as a negative control))
2015/09/18
MIC Test
Ito, Onoda
Thanatin (4mer)