Difference between revisions of "Team:HokkaidoU Japan/Notebook/ecoli"
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<h2 id="august">August</h2> | <h2 id="august">August</h2> | ||
+ | |||
+ | <p class="nyannyan1">2015/08/04</p> | ||
+ | |||
+ | <!-- Transformaion(プレ培養なし) --> | ||
+ | <p class="nyannyan2">Transformation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">pGEM T vector</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">1</span> μL of <span class="kinyuu">pGEM T vector</span> to <span class="kinyuu">50</span> μL of thawed competent cells (<span class="kinyuu">DH5α</span>) 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 <span class="kinyuu">16</span> hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養なし) END --> | ||
+ | |||
+ | <p class="nyannyan1">2015/08/05</p> | ||
+ | |||
+ | <!-- Colony PCR 2STEP --> | ||
+ | <p class="nyannyan2">Colony PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">pGEM T vector</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td><span class="kinyuu">NdeⅠ - F - primer</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - R - primer | ||
+ | </span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td><span class="kinyuu">5.0</span> μL</td></tr> | ||
+ | <tr><td>DW</td><td><span class="kinyuu">4.2</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">10</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">35</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">20</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">35</span> 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 --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">NdeⅠ - Thanatin - BamHⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">100</span>V</td><td><span class="kinyuu">60</span> min</td><td>1/2x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <p class="nyannyan2">Gel Extract</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu"><span class="kinyuu">NdeⅠ - Thanatin - BamHⅠ</span></span> | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <p class="nyannyan2">Ligation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">pET vector</span> / <span class="kinyuu">NdeⅠ - Thanatin - BamHⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">pET vector</span></td><td><span class="kinyuu">1</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">NdeⅠ - Thanatin - BamHⅠ</span></td><td><span class="kinyuu">3</span> μL</td></tr> | ||
+ | <tr><td>10 × T4 DNA Ligase buffer</td><td><span class="kinyuu">5</span> μL</td></tr> | ||
+ | <tr><td>T4 Ligase</td><td><span class="kinyuu">1</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">10</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Ligation</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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) --> | ||
+ | <p class="nyannyan2">Transformation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_E1010 - BBa_B0034 - BBa_E0040 - BBa_B0015 on pSB1C3</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">1</span> μL of <span class="kinyuu">Thanatin on pET vector</span> to <span class="kinyuu">50</span> μL of thawed competent cells (<span class="kinyuu">Rosetta</span>) 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 <span class="kinyuu">16</span> hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養なし) END --> | ||
+ | |||
+ | |||
+ | <p class="nyannyan1">2015/08/10</p> | ||
+ | <!-- Streaking (Single Colony Isolation) --> | ||
+ | <p class="nyannyan2">Streaking (Single Colony Isolation)</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito, Mimata, Mitsumoto, Onoda, Sakai</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">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</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <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 --> | ||
+ | |||
+ | |||
+ | <p class="nyannyan1">2015/08/11</p> | ||
+ | <!-- Mini-prep --> | ||
+ | <p class="nyannyan2">Mini-prep</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito, Mimata, Mitsumoto, Onoda, Sakai</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_I0500 - BBa_B0034 - BBa_K759012 (signal and β-domain) - BBa_B0015 on pSB1C3</span> | ||
+ | <br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | ||
+ | <br><span class="kinyuu">Fast protocol</span></p> | ||
+ | <!-- Mini-prep END --> | ||
+ | |||
+ | |||
+ | <!-- Digestion --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito, Mimata, Onoda, Sakai, Kusumi</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_I0500 - BBa_B0034 - BBa_K759012 (signal and β-domain) - BBa_B0015 on pSB1C3</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">pSB1C3</span></td><td>20 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>23 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">Bgl Ⅱ</span></td><td>2 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">3.1 Buffer</span></td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito, Mimata, Onoda, Sakai, Nishimura, Kusumi</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_I0500 - BBa_B0034 - BBa_K759012 (signal and β-domain) - BBa_B0015 on pSB1C3</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">1</span>%</td><td><span class="kinyuu">100</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | |||
+ | <p class="nyannyan1">2015/08/12</p> | ||
+ | <!-- Gel Extract --> | ||
+ | <p class="nyannyan2">Gel Extract</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Nishimura, Sakai</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu"><span class="kinyuu">BBa_I0500 - BBa_B0034 - BBa_K759012 (signal and β-domain) - BBa_B0015 on pSB1C3</span></span> | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito, Sakai, Fujita</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_I0500 - BBa_B0034 - BBa_K759012 (signal and β-domain) - BBa_B0015 on pSB1C3 (Gel Extract Poduct)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">1</span>%</td><td><span class="kinyuu">100</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <p class="nyannyan1">2015/08/13</p> | ||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <p class="nyannyan2">Sequencing</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito, Onoda, Nishimura, Fujita</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_I0500 - BBa_B0034 - BBa_K759012 (signal and β-domain) - BBa_B0015 on pSB1C3 (Gel Extract Product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu"> | ||
+ | pSB1C3</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">T7 promoter primer / SP6 promoter primer</span></td><td>1.5 μL</td></tr> | ||
+ | <tr><td>Ready Reaction Premix</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 class="nyannyan3">Sequencing</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">25</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td><span class="kinyuu">25</span> cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <p class="nyannyan2">Ethanol Precipitation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito, Onoda, Nishimura, Fujita, Mimata</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_I0500 - BBa_B0034 - BBa_K759012 (signal and β-domain) - BBa_B0015 on pSB1C3 (Sequencing PCR product)</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">2</span> μL of NaOAc, 1.5 μL of glycogen and <span class="kinyuu">50</span> 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--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito, Onoda, Tanaka, Nishimura, Mimata</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - XbaⅠ / SpeⅠ scar - Met - 10 × His tag - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - BBa_B0034 - XbaⅠ / SpeⅠ scar - Met - 10 × His tag - Thanatin - SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - Thanatin forward Neo</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BglⅡ - Asp - Thanatin reverese Neo</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">25</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">20</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">25</span> cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Mimata</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">NdeⅠ - Thanatin - BamHⅠ on pET vector | ||
+ | </span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tbody><tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">NdeⅠ - Thanatin - BamHⅠ on pET vector</span></td><td>10 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">NdeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">CutSmart Buffer</span></td><td>5 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>33 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
+ | </tbody></table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | |||
+ | <p class="nyannyan1">2015/08/14</p> | ||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Nishimura, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin (Mini-prep product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">Thanatin fragment</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">T7 - promoter primer</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SP6 - promoter primer</span> 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 class="nyannyan3">3 Step Cycle (Tm value ≤ 66℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">25</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">50</span>℃</td><td>10 sec</td><td>Annealing</td><td><span class="kinyuu">25</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Elongation</td><td><span class="kinyuu">25</span> cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Nishimura, Onoda, Mimata</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ, Thanatin fragment(PCR product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">100</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Annealing of Oligonucleotides --> | ||
+ | <p class="nyannyan2">Annealing of Oligonucleotides</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Onoda, Nishimura, Fujita</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (derived from annealing TA primers)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">TA - F - primer</span> 10 μM</td><td><span class="kinyuu">1</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">TA - R - primer</span> 10 μM</td><td><span class="kinyuu">1</span> 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><span class="kinyuu">50</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">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><span class="kinyuu">10</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">60</span>℃</td><td>10 sec</td><td>Annealing</td><td><span class="kinyuu">10</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td><span class="kinyuu"></span>30 sec</td><td>Elongation</td><td><span class="kinyuu">10</span> 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--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Nishimura, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (derived from annealing TA primers)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">Thanatin fragment (derived from annealing TA primers)</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - Thanatin Neo</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BglⅡ - Asp - thanatin Neo</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 66℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">35</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">60</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">35</span> 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 --> | ||
+ | <p class="nyannyan2">PCR Purification</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Nishimura, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment from last 2 step PCR</span> | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>Purification of PCR products</p> | ||
+ | <!-- PCR Purification END --> | ||
+ | |||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Nishimura, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin frament(TA-primer), Thanatin fragment(BamHⅠ/BglⅡ), Thanatin fragment(PCR Purification) </span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">100</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Transformaion(プレ培養なし) --> | ||
+ | <p class="nyannyan2">Transformation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Mitsumoto</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_B0031 on pSB1A2, BBa_E0040 on pSB1A2</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">1</span> μL of <span class="kinyuu">BBa_B0031 on pSB1A2, BBa_E0040 on pSB1A2</span> to <span class="kinyuu">20</span> μL of thawed competent cells (<span class="kinyuu">DH5α</span>) 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 <span class="kinyuu">12</span> hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養なし) END --> | ||
+ | |||
+ | <!-- Transformaion(プレ培養あり) --> | ||
+ | <p class="nyannyan2">Transformation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Mitsumoto</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0030</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">1</span> μL of <span class="kinyuu">BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0030</span> to <span class="kinyuu">20</span> μL of thawed competent cells (<span class="kinyuu">DH5α</span>) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added <span class="kinyuu">200</span> μL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 300 μL of the culture onto plate with LB<span class="kinyuu">C</span>.</li> | ||
+ | <li>Incubated the plate at 37℃ for <span class="kinyuu">12</span> hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Mitsumoto</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031, BBa_B0030, BBa_E0040</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">Ba_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031, BBa_B0030, BBa_E0040</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">100UP - EX - F</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">200DN - PS - R</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">35</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">60</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">35</span> cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <p class="nyannyan1">2015/08/15</p> | ||
+ | |||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031, BBa_B0030, BBa_E0040</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">100</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Nishimura, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031, BBa_B0030, BBa_E0040</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031, BBa_B0030, BBa_E0040</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">100UP - EX - F</span> 1 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">200DN - PS - R</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">35</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">60</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">35</span> cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031, BBa_B0030, BBa_E0040</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Nishimura, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (derived from annealing TA primers)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">Thanatin fragment (derived from annealing TA primers)</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">NdeⅠ - F - primer</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - R - primer</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">25</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">25</span> 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--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Sakai, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (PCR 2STEP product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">Thanatin fragment (PCR 2STEP product)</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - Thanatin - F - Neo</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BglⅡ - Tanatin - R - Neo</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td>KOD - Plus - Neo</td><td>1 μL</td></tr> | ||
+ | <tr><td>KOD Plus NEO 10 x Buffer</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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">25</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">25</span> 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 --> | ||
+ | <p class="nyannyan2">Annealing Oligos and Elongation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (derived from annealing TA primers)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">TA - F - primer</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">TA - R - primer</span> 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 class="nyannyan3">Annealing Oligos and Elongation</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">1</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Elongation</td><td><span class="kinyuu">1</span> 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 --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (Annealing and Elongation product), Thanatin fragment(PCR 2STEP product) </span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">100</span> V</td><td><span class="kinyuu">30</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <p class="nyannyan2">Gel Extract</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu"><span class="kinyuu">BBa_B0031, BBa_B0030, BBa_E0040</span></span> | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | <!-- Mini-prep --> | ||
+ | <p class="nyannyan2">Mini-prep</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031, BBa_B0030, BBa_E0040</span> | ||
+ | <br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | ||
+ | <br><span class="kinyuu">Standard protocol</span></p> | ||
+ | <!-- Mini-prep END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <p class="nyannyan1">2015/08/16</p> | ||
+ | |||
+ | |||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Nishimura, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (derived from annealing TA primers)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">Thanatin fragment (derived from annealing TA primers)</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">NdeI - F - primer</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHI - R - primer</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">25</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">60</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">25</span> cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Nishimura, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (PCR product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">100</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <p class="nyannyan2">Colony PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Onoda, Ono, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (derived from annealing TA primers) into DH5α, nothing (as a negative control)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td><span class="kinyuu">NdeI - F - primer</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHI - R - primer</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td><span class="kinyuu">5</span> μL</td></tr> | ||
+ | <tr><td>DW</td><td><span class="kinyuu">4.2</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">10</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">62.9</span>℃</td><td>30 sec</td><td>Annealing</td><td><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td><span class="kinyuu">40</span> 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 --> | ||
+ | <p class="nyannyan2">Colony PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Onoda, Ono, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_B0031 on pSB1A2 into DH5α (as positive control) </span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td><span class="kinyuu">100UP - EX - F</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">200DN - PS - R</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td><span class="kinyuu">5</span> μL</td></tr> | ||
+ | <tr><td>DW</td><td><span class="kinyuu">4.2</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">10</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">57.2</span>℃</td><td>30 sec</td><td>Annealing</td><td><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>30 sec</td><td>Elongation</td><td><span class="kinyuu">30</span> 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 --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Onoda, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment derived from annealing TA primer (colony PCR product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">100</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Mitsumoto, Fujita</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ, NdeⅠ - Thanatin - BamHⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (Mini-prep product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu"></span>Thanatin fragment (Mini-prep product)</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - Thanatin - F - Neo</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BglⅡ - Asp - Thanatin - R - Neo</span> 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 class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">45</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">65.1</span>℃</td><td>30 sec</td><td>Annealing</td><td><span class="kinyuu">45</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Elongation</td><td><span class="kinyuu">45</span> 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--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (Mini-prep product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu"></span>Thanatin fragment (Mini-prep product)</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">NdeⅠ - F - primer</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - R - primer</span> 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 class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">45</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">66.5</span>℃</td><td>30 sec</td><td>Annealing</td><td><span class="kinyuu">45</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Elongation</td><td><span class="kinyuu">45</span> cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment for TA cloning and last PCR prduct</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">100</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Mimata</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Ba_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">Ba_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">100UP - EX - F</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">200DN - PS - R</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">35</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">60</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">35</span> cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Mimata</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Ba_B0033, BBa_B0032, BBa_R0040, BBa_R0010, BBa_E1010, BBa_B0031</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Mitsumoto, Fujita</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHI - Thanatin - BglⅡ, NdeI - Thanatin - BamHI</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | アニーリング | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <p class="nyannyan2">Colony PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment on pGEM - T vector into DH5α</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td><span class="kinyuu">NdeⅠ - F - primer</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - R - primer</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td><span class="kinyuu">5</span> μL</td></tr> | ||
+ | <tr><td>DW</td><td><span class="kinyuu">4.2</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">10</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">62.9</span>℃</td><td>30 sec</td><td>Annealing</td><td><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td><span class="kinyuu">40</span> 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 --> | ||
+ | <p class="nyannyan2">Colony PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment on pGEM - T vector into DH5α</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td><span class="kinyuu">T7 promoter primer</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SP6 promoter primer</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td><span class="kinyuu">5</span> μL</td></tr> | ||
+ | <tr><td>DW</td><td><span class="kinyuu">4.2</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">10</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">51</span>℃</td><td>30 sec</td><td>Annealing</td><td><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td><span class="kinyuu">40</span> 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 --> | ||
+ | <p class="nyannyan2">Colony PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_B0031 on pSB1A2 into DH5α (as positive control)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td><span class="kinyuu">100UP - EX - F</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">200DN - PS - R</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td><span class="kinyuu">5</span> μL</td></tr> | ||
+ | <tr><td>DW</td><td><span class="kinyuu">4.2</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">10</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">57</span>℃</td><td>30 sec</td><td>Annealing</td><td><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td><span class="kinyuu">40</span> 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 --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (Colony PCR product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">1</span>%</td><td><span class="kinyuu">100</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Annealing Oligos and Elongation --> | ||
+ | <p class="nyannyan2">Annealing Oligos and Elongation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Mitsumoto</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (derived from annealing TA primers)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">TA - F - primer</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">TA - R - primer</span> 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 class="nyannyan3">Annealing Oligos and Elongation</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">45</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Elongation</td><td><span class="kinyuu">45</span> 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 --> | ||
+ | <p class="nyannyan2">Annealing Oligos and Elongation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Mitsumoto</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (derived from annealing TA primers)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">TA - F - primer</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">TA - R - primer</span> 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 class="nyannyan3">Annealing Oligos and Elongation</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <p class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">10</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">60</span>℃</td><td>10 sec</td><td>Annealing</td><td><span class="kinyuu">10</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td><span class="kinyuu">10</span> 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 --> | ||
+ | <p class="nyannyan2">Annealing Oligos and Elongation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Mitsumoto</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (derived from annealing TA primers)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">TA - F - primer</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">TA - R - primer</span> 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 class="nyannyan3">Annealing Oligos and Elongation</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">45</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Elongation</td><td><span class="kinyuu">45</span> 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 --> | ||
+ | <p class="nyannyan2">Annealing Oligos and Elongation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Mitsumoto</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (derived from annealing TA primers)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">TA - F - primer</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">TA - R - primer</span> 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 class="nyannyan3">Annealing Oligos and Elongation</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <p class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">10</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">60</span>℃</td><td>10 sec</td><td>Annealing</td><td><span class="kinyuu">10</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td><span class="kinyuu">10</span> 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 --> | ||
+ | <p class="nyannyan2">Annealing Oligos and Elongation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Mitsumoto</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (derived from annealing TA primers)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td><span class="kinyuu">100UP - EX - F</span> 10 μM</td><td><span class="kinyuu">1</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">200DN - PS - R</span> 10 μM</td><td><span class="kinyuu">1</span> μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td><span class="kinyuu">25</span> μL</td></tr> | ||
+ | <tr><td>DW</td><td><span class="kinyuu">23</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">50</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Annealing Oligos and Elongation</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">45</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Elongation</td><td><span class="kinyuu">45</span> 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 --> | ||
+ | <p class="nyannyan2">Annealing Oligos and Elongation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Mitsumoto</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (derived from annealing TA primers)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td><span class="kinyuu">100UP - EX - F</span> 10 μM</td><td><span class="kinyuu">1</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">200DN - PS - R</span> 10 μM</td><td><span class="kinyuu">1</span> μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td><span class="kinyuu">25</span> μL</td></tr> | ||
+ | <tr><td>DW</td><td><span class="kinyuu">23</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">50</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Annealing Oligos and Elongation</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">10</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">60</span>℃</td><td>10 sec</td><td>Annealing</td><td><span class="kinyuu">10</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td>30 sec</td><td>Elongation</td><td><span class="kinyuu">10</span> 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 --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Mitsumoto</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (derived from annealing TA primers)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | |||
+ | |||
+ | <p class="nyannyan1">2015/08/17</p> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <!-- Annealing Oligos and Elongation --> | ||
+ | <p class="nyannyan2">Annealing Oligos and Elongation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Nishimura, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (Mini-prep product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">TA - F - primer</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">TA - R - primer</span> 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 class="nyannyan3">Annealing Oligos and Elongation</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">10</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">60</span>℃</td><td>10 sec</td><td>Annealing</td><td><span class="kinyuu">10</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td><span class="kinyuu">30</span>30 sec</td><td>Elongation</td><td><span class="kinyuu">10</span> 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 --> | ||
+ | <p class="nyannyan2">Annealing Oligos and Elongation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Nishimura, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (Mini-prep product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">TA - F - primer</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">TA - R - primer</span> 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 class="nyannyan3"> (Tm value ≤ -℃)</p> | ||
+ | <table class="hyounyannyan">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><span class="kinyuu">10</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">60</span>℃</td><td>10 sec</td><td>Annealing</td><td><span class="kinyuu">10</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td><span class="kinyuu">30</span>30 sec</td><td>Elongation</td><td><span class="kinyuu">10</span> 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--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Nishimura, Ono, Onoda, Mimata</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">NdeⅠ - Thanatin - BamHⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">NdeⅠ - Thanatin - BamHⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">NdeⅠ - F - primer</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - R - primer</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">25</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">25</span> 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--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Nishimura, Ono, Onoda, Mimata</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - Asp - Thanatin - R - Neo</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BglⅡ - D - Tanatin - R - Neo</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">25</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">25</span> 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 --> | ||
+ | <p class="nyannyan2">PCR Purification</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, MImata, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (PCR 2STEP product)</span> | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>Purification of PCR products</p> | ||
+ | <!-- PCR Purification END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Nishimura, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (PCR 2STEP product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito, Ono, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (derived from annealing TA cloning)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">Thanatin fragment (derived from annealing TA cloning)</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">NdeⅠ - F - primer</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - R - primer</span> 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 class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">45</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">65.1</span>℃</td><td>30 sec</td><td>Annealing</td><td><span class="kinyuu">45</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Elongation</td><td><span class="kinyuu">45</span> 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--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito, Ono, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ </span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">Thanatin fragment (derived from annealing TA cloning)</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - Asp - Thanatin - R - Neo</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BglⅡ - D - Tanatin - R - Neo</span> 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 class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">45</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">66.5</span>℃</td><td>30 sec</td><td>Annealing</td><td><span class="kinyuu">45</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Elongation</td><td><span class="kinyuu">45</span> cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">NdeⅠ - Thanatin - BamHⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">NdeⅠ - Thanatin - BamHⅠ</span></td><td>20 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">NdeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">10 × K Buffer</span></td><td>2 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ</span></td><td>20 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BglⅡ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">10 × K Buffer</span></td><td>2 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | |||
+ | |||
+ | <p class="nyannyan1">2015/08/18</p> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Nishimura, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (PCR 2STEP product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- PCR Purification --> | ||
+ | <p class="nyannyan2">PCR Purification</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Mimata, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (PCR 2STEP product)</span> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Annealing Oligos and Elongation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Mimata</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (derived from annealing TA cloning)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">TA - F - primer</span> 10 μM</td><td>5 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">TA - R - primer</span> 10 μM</td><td>5 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">TE</span> 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 class="nyannyan3">Annealing Oligos and Elongation</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><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--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Mimata</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (derived from annealing)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">Thanatin fragment (derived from annealing)</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">NdeⅠ - F - primer</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - R - primer</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">25</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">25</span> 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--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Mimata</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (derived from annealing)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">Thanatin fragment (derived from annealing)</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - Asp - Thanatin - R - Neo</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BglⅡ - D - Tanatin - R - Neo</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">25</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">25</span> 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 --> | ||
+ | <p class="nyannyan2">PCR Purification</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Mimata, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (PCR 2STEP product)</span> | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>Purification of PCR products</p> | ||
+ | <!-- PCR Purification END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Onoda, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">NdeⅠ - Thanatin - BamHⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">NdeⅠ - Thanatin - BamHⅠ</span></td><td>20 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">NdeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">10 × K Buffer</span></td><td>2 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Onoda, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ</span></td><td>20 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BglⅡ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">10 × K Buffer</span></td><td>2 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Ligation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Onoda, Mimata</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment on pGEM T - vector</span> / <span class="kinyuu">Thanatin fragment (derived from annealing TA cloning)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">pGEM T - vector</span></td><td><span class="kinyuu">1</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">Thanatin fragment</span></td><td><span class="kinyuu">3</span> μL</td></tr> | ||
+ | <tr><td>2 × Ligation Buffer</td><td><span class="kinyuu">5</span> μL</td></tr> | ||
+ | <tr><td>T4 DNA Ligase</td><td><span class="kinyuu">1</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">10</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Ligation</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <p class="nyannyan1">2015/08/19</p> | ||
+ | |||
+ | |||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (derived from annealing)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">Thanatin fragment (derived from annealing)</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">NdeⅠ - F - primer</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - R - primer</span> 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 class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">60</span>℃</td><td>30 sec</td><td>Annealing</td><td><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Elongation</td><td><span class="kinyuu">40</span> 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--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (derived from annealing)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">Thanatin fragment (derived from annealing)</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - Asp - Thanatin - R - Neo</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BglⅡ - D - Tanatin - R - Neo</span> 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 class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">60</span>℃</td><td>30 sec</td><td>Annealing</td><td><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Elongation</td><td><span class="kinyuu">40</span> 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 --> | ||
+ | <p class="nyannyan2">Ethanol Precipitation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Mimata, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">NdeⅠ - Thanatin - BamHⅠ (PCR 3STEP product), BamHⅠ - Thanatin - BglⅡ (PCR 3STEP product)</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">2</span> μL of NaOAc, 1 μL of glycogen and <span class="kinyuu">50</span> 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 --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Mimata</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">NdeⅠ - Thanatin - BamHⅠ, BamHⅠ - Thanatin - BglⅡ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - Thanatin - F</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BglⅡ - Thanatin - R</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">40</span> 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--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - Thanatin - F</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">NdeⅠ - Thanatin - R</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">40</span> 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 --> | ||
+ | |||
+ | <p class="nyannyan2">Ethanol Precipitation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">NdeⅠ - Thanatin - BamHⅠ (PCR 2STEP product), BamHⅠ - Thanatin - BglⅡ (PCR 2STEP product)</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">2</span> μL of NaOAc, 1 μL of glycogen, <span class="kinyuu">7</span> μL of DW and <span class="kinyuu">50</span> 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 --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Onoda, Mimata, Sakai</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">NdeⅠ - Thanatin - BamHⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">NdeⅠ - Thanatin - BamHⅠ</span></td><td>20 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">NdeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">10 × K Buffer</span></td><td>3 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Onoda, Mimata, Sakai</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ</span></td><td>20 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BglⅡ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">10 × K Buffer</span></td><td>3 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Onoda, Mimata, Sakai</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">pET - 15b vector, pET - 16b vector</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">pET - 15b vector, pET - 16b vector</span></td><td>20 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">NdeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">10 × K Buffer</span></td><td>3 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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) --> | ||
+ | <p class="nyannyan2">Transformation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment on pGEM - T vector</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">1</span> μL of <span class="kinyuu">Thanatin fragment on pGEM - T vector</span> to <span class="kinyuu">50</span> μL of thawed competent cells (<span class="kinyuu">DH5α</span>) 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 <span class="kinyuu">18</span> hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養なし) END --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <p class="nyannyan1">2015/08/20</p> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura, Mimata</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">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) | ||
+ | </span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura, Mimata</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">pET - 15b vector (digestion product), pET - 16b vector (digestion product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">1</span>%</td><td><span class="kinyuu">100</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <p class="nyannyan2">Gel Extract</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Nishimura, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu"><span class="kinyuu">pET - 15b vector, pET - 16b vector</span></span> | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura, Ito</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ(PCR 2STEP poduct) | ||
+ | </span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ (PCR 2STEP poduct)</span></td><td>9 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ</span></td><td>5 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BglⅡ</span></td><td>5 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">10 × K Buffer</span></td><td>10 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>71 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>100 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nisimura, Ito</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (PCR 2STEP poduct)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (PCR 2STEP poduct)</span></td><td>9 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ</span></td><td>5 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ</span></td><td>5 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">10 × K Buffer</span></td><td>10 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>71 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>100 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura, Ito</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_B0015 on pSB1C3</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BBa_B0015 on pSB1C3</span></td><td>20 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">CutSmart Buffer</span></td><td>3 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>6 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Ethanol Precipitation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">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)</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">9</span> μL of NaOAc, 1.5 μL of glycogen and <span class="kinyuu">270</span> 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 class="nyannyan4"><span class="kinyuu">Ito</span></p> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">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)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">1</span>%</td><td><span class="kinyuu">100</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | |||
+ | <p class="nyannyan1">2015/08/21</p> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - Thanatin - F</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BglⅡ - Thanatin - R</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">40</span> 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--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - Thanatin - F</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ - Thanatin - R</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Onoda, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - Thanatin - SpeⅠ, BamHⅠ- Thanatin - BglⅡ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <p class="nyannyan2">Ethanol Precipitation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ, BamHⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - BglⅡ</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">3</span> μL of NaOAc, 1 μL of glycogen and <span class="kinyuu">90</span> 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 --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">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)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <p class="nyannyan2">Ligation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura, Ito</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_K759012 on pSB1C3</span> / <span class="kinyuu">BamHⅠ - Thanatin - BglⅡ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BBa_K759012 on pSB1C3</span></td><td><span class="kinyuu">5</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ</span></td><td><span class="kinyuu">1</span> μL</td></tr> | ||
+ | <tr><td>10 × T4 DNA Ligase Buffer</td><td><span class="kinyuu">7</span> μL</td></tr> | ||
+ | <tr><td>T4 DNA Ligase</td><td><span class="kinyuu">1</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">14</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Ligation</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Ligation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura, Ito</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_B0015 on pSB1C3</span> / <span class="kinyuu">XbaⅠ - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BBa_B0015 on pSB1C3</span></td><td><span class="kinyuu">5</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - Thanatin - SpeⅠ</span></td><td><span class="kinyuu">1</span> μL</td></tr> | ||
+ | <tr><td>10 × T4 DNA Ligase Buffer</td><td><span class="kinyuu">7</span> μL</td></tr> | ||
+ | <tr><td>T4 DNA Ligase</td><td><span class="kinyuu">1</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">14</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Ligation</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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) --> | ||
+ | <p class="nyannyan2">Transformation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin - BBa_K759012 on pSB1C3, Thanatin - BBa_B0015 on pSB1C3</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">5</span> μL of <span class="kinyuu">Thanatin - BBa_K759012 on pSB1C3, Thanatin - BBa_B0015 on pSB1C3</span> to <span class="kinyuu">50</span> μL of thawed competent cells (<span class="kinyuu">DH5α</span>) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added <span class="kinyuu">200</span> μL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 300 μL of the culture onto plate with LB<span class="kinyuu">C</span>.</li> | ||
+ | <li>Incubated the plate at 37℃ for <span class="kinyuu">16</span> hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Onoda, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_B0033 on pSB1C3, XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ, XbaⅠ - BBa_K168000</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BBa_B0033 on pSB1C3, XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ, XbaⅠ - BBa_K168000</span></td><td>20 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">10 × M Buffer</span></td><td>3 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_E0040 on pSB1C3, BBa_R0040 on pSB1C3</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BBa_E0040 on pSB1C3, BBa_R0040 on pSB1C3</span></td><td>20 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">CutSmart Buffer</span></td><td>3 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>6 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | |||
+ | |||
+ | |||
+ | <p class="nyannyan1">2015/08/22</p> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (digestion product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_R0010 - BBa_B0034 on pSB1C3</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BBa_R0010 - BBa_B0034 on pSB1C3</span></td><td>20 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ - HF</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">10 × M Buffer</span></td><td>5 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>24 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_R0010 - BBa_B0034 on pSB1C3 (Digestion product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">1</span>%</td><td><span class="kinyuu">100</span> V</td><td><span class="kinyuu">45</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <p class="nyannyan2">Ethanol Precipitation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_R0010 - BBa_B0034 on pSB1C3 (Digestion product)</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">5</span> μL of NaOAc, 1.5 μL of glycogen and <span class="kinyuu">150</span> 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 --> | ||
+ | <p class="nyannyan2">Colony PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin - BBa_K759012 on pSB1C3, nothing (as a negative control)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td><span class="kinyuu">AGSP - BamHⅠ - Spidroin</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BglⅡ -D - Thanatin</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td><span class="kinyuu">5</span> μL</td></tr> | ||
+ | <tr><td>DW</td><td><span class="kinyuu">4.2</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">10</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">65</span>℃</td><td>40 sec</td><td>Annealing</td><td><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td><span class="kinyuu">40</span> 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 --> | ||
+ | <p class="nyannyan2">Colony PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_B0031 on pSB1A2 (as Positive Control)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td><span class="kinyuu">100UP - EX - F</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">200DN - PS - R</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td><span class="kinyuu">5</span> μL</td></tr> | ||
+ | <tr><td>DW</td><td><span class="kinyuu">4.2</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">10</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">57</span>℃</td><td>30 sec</td><td>Annealing</td><td><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td><span class="kinyuu">40</span> 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 --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin - BBa_K759012 on pSB1C3 (Colony PCR product), BBa_B0031 on pSB1A2 (Colony PCR product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">1</span>%</td><td><span class="kinyuu">100</span> V</td><td><span class="kinyuu">45</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <p class="nyannyan2">Ligation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_R0010 - BBa_B0034 on pSB1C3</span> / <span class="kinyuu">XbaⅠ - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BBa_R0010 - BBa_B0034 on pSB1C3</span></td><td><span class="kinyuu">5</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - Thanatin - SpeⅠ</span></td><td><span class="kinyuu">4</span> μL</td></tr> | ||
+ | <tr><td>Mighty Mix</td><td><span class="kinyuu">10</span> μL</td></tr> | ||
+ | <tr><td>DW</td><td><span class="kinyuu">1</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">20</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Ligation</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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) --> | ||
+ | <p class="nyannyan2">Transformation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_R0010 - BBa_B0034 on pSB1C3</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">1</span> μL of <span class="kinyuu">BBa_R0010 - BBa_B0034 on pSB1C3</span> to <span class="kinyuu">50</span> μL of thawed competent cells (<span class="kinyuu">DH5α</span>) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added <span class="kinyuu">200</span> μL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 300 μL of the culture onto plate with LB<span class="kinyuu">C</span>.</li> | ||
+ | <li>Incubated the plate at 37℃ for <span class="kinyuu">16</span> hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaI - B0034 - XS scar - F</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ - Thanatin - R</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">50</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaI - B0034 - XS scar - F</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ - Thanatin - R</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <p class="nyannyan1">2015/08/23</p> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (PCR 2STEP product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <p class="nyannyan2">Gel Extract</p> | ||
+ | <p class="nyannyan3"><span class="kinyuu"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></span> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Colony PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito, Ono, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_R0010 - BBa_B0034 - Thanatin, nothing (as a negative control)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td><span class="kinyuu">100UP - EX - F</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ - Thanatin - R</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td><span class="kinyuu">5</span> μL</td></tr> | ||
+ | <tr><td>DW</td><td><span class="kinyuu">4.2</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">10</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">57</span>℃</td><td>30 sec</td><td>Annealing</td><td><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td><span class="kinyuu">40</span> 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 --> | ||
+ | <p class="nyannyan2">Colony PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito, Ono, Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_B0030 on pSB1A2 (as a positive control)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td><span class="kinyuu">100UP - EX - F</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">200DN - PS - R</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td><span class="kinyuu">5</span> μL</td></tr> | ||
+ | <tr><td>DW</td><td><span class="kinyuu">4.2</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">10</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">57</span>℃</td><td>30 sec</td><td>Annealing</td><td><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td><span class="kinyuu">40</span> 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 --> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <p class="nyannyan1">2015/08/24</p> | ||
+ | |||
+ | <!-- Mini-prep --> | ||
+ | <p class="nyannyan2">Mini-prep</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin - BBa_K759012 on pSB1C3</span> | ||
+ | <br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | ||
+ | <br><span class="kinyuu">standard protocol</span></p> | ||
+ | <!-- Mini-prep END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <p class="nyannyan2">Colony PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3, nothing (as a negative control), BBa_B0030 on pSB1A2 (as a positive control)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td><span class="kinyuu">100UP - EX - F</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ - Thanatin - R</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td><span class="kinyuu">5</span> μL</td></tr> | ||
+ | <tr><td>DW</td><td><span class="kinyuu">4.2</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">10</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">57</span>℃</td><td>30 sec</td><td>Annealing</td><td><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td><span class="kinyuu">40</span> 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 --> | ||
+ | <p class="nyannyan2">Colony PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin - BBa_K759012 on pSB1C3</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td><span class="kinyuu">AGSP - BamHⅠ - Spidroin</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BBa_K759012 - R</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td><span class="kinyuu">5</span> μL</td></tr> | ||
+ | <tr><td>DW</td><td><span class="kinyuu">4.2</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">10</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">65</span>℃</td><td>40 sec</td><td>Annealing</td><td><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>40 sec</td><td>Elongation</td><td><span class="kinyuu">40</span> 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 --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3, Thanatin - BBa_K759012 on pSB1C3</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3</span></td><td>20 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ - HF</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">CutSmart Buffer</span></td><td>3 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>6 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3 (digestion product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Liquid Culture --> | ||
+ | <p class="nyannyan2">Liquid Culture</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin - BBa_K759012 on pSB1C3 into DH5α</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 class="nyannyan3">Cultured for <span class="kinyuu">16</span> hours.</p> | ||
+ | <!-- Liquid Culture END --> | ||
+ | |||
+ | |||
+ | <p class="nyannyan1">2015/08/25</p> | ||
+ | |||
+ | |||
+ | |||
+ | <!-- Liquid Culture --> | ||
+ | <p class="nyannyan2">Liquid Culture</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin - BBa_K759012 on pSB1C3 into DH5α, BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3 into DH5α</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 class="nyannyan3">Cultured for <span class="kinyuu">16</span> hours.</p> | ||
+ | <!-- Liquid Culture END --> | ||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <p class="nyannyan2">Sequencing</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin - BBa_K759012 on pSB1C3</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">Thanatin - BBa_K759012 on pSB1C3</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">pbad - f2 / 200 βdomain BBa_K759012 - R</span></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 class="nyannyan3">Sequencing</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <p class="nyannyan2">Ethanol Precipitation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin - BBa_K759012 on pSB1C3</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">5</span> μL of NaOAc, 1.5 μL of glycogen and <span class="kinyuu">150</span> 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--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - BBa_B0034 - XS scar - F</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ - Thanatin - R</span> 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 class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">55</span>℃</td><td>10 sec</td><td>Annealing</td><td><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Elongation</td><td><span class="kinyuu">40</span> 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 --> | ||
+ | <p class="nyannyan2">Ethanol Precipitation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">5</span> μL of NaOAc, 1.5 μL of glycogen and <span class="kinyuu">150</span> 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 class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <p class="nyannyan1">2015/08/26</p> | ||
+ | |||
+ | <!-- PCR 3STEP--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono、Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - BBa_B0034 - XS scar - F</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ - Thanatin - R</span> 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 class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">55</span>℃</td><td>10 sec</td><td>Annealing</td><td><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Elongation</td><td><span class="kinyuu">40</span> 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--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - BBa_B0034 - XS scar - F</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ - Thanatin - R</span> 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 class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">53</span>℃</td><td>30 sec</td><td>Annealing</td><td><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Elongation</td><td><span class="kinyuu">40</span> 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--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura, Fujita</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - BBa_B0034 - XS scar - F</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ - Thanatin - R</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura, Fujita</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (PCR 2STEP, 3STEP products)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <p class="nyannyan2">Ethanol Precipitation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Nishimura, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (PCR 2STEP product)</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">4</span> μL of NaOAc, 1.5 μL of glycogen and <span class="kinyuu">120</span> 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 --> | ||
+ | <p class="nyannyan2">Mini-prep</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Nishimura, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3</span> | ||
+ | <br>FastGene<sup>TM</sup> Plasmid mini kit (Nippon Genetics Co.,Ltd) | ||
+ | <br><span class="kinyuu">standard protocol</span></p> | ||
+ | <!-- Mini-prep END --> | ||
+ | |||
+ | <!-- Sequencing --> | ||
+ | <p class="nyannyan2">Sequencing</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Nishimura, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3 (Mini-prep product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3 (Mini-prep producrt)</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">100UP - EX - F / 200DN - PS - R</span></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 class="nyannyan3">Sequencing</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>60℃</td><td>240 sec</td><td>-</td><td><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- Sequencing END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <p class="nyannyan2">Ethanol Precipitation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Nishimura, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_R0010 - BBa_B0034 - Thanatin on pSB1C3 (Sequencing PCR product)</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">5</span> μL of NaOAc, 1.5 μL of glycogen and <span class="kinyuu">150</span> 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 --> | ||
+ | |||
+ | <p class="nyannyan1">2015/08/27</p> | ||
+ | |||
+ | |||
+ | <!-- Ligation --> | ||
+ | <p class="nyannyan2">Ligation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Ito</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_K759012 on pSB1C3 (dephosphorylated)</span> / <span class="kinyuu">BamHⅠ - Thanatin - BglⅡ </span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BBa_K759012 on pSB1C3</span></td><td><span class="kinyuu">5</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ</span></td><td><span class="kinyuu">4</span> μL</td></tr> | ||
+ | <tr><td>Mighty Mix</td><td><span class="kinyuu">10</span> μL</td></tr> | ||
+ | <tr><td>DW</td><td><span class="kinyuu">1</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">20</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Ligation</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Ligation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Ito</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_K759012 on pSB1C3 (not phosphorylated)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BBa_K759012 on pSB1C3</span></td><td><span class="kinyuu">2</span> μL</td></tr> | ||
+ | <tr><td>Mighty Mix</td><td><span class="kinyuu">2</span> μL</td></tr> | ||
+ | <tr><td>DW</td><td><span class="kinyuu">6</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">10</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Ligation</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Ligation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Ito</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_K759012 on pSB1C3 (phosphorylated)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BBa_K759012 on pSB1C3</span></td><td><span class="kinyuu">2</span> μL</td></tr> | ||
+ | <tr><td>Mighty Mix</td><td><span class="kinyuu">2</span> μL</td></tr> | ||
+ | <tr><td>DW</td><td><span class="kinyuu">6</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">10</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Ligation</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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) --> | ||
+ | <p class="nyannyan2">Transformation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Ito</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">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)</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">1</span> μL of <span class="kinyuu">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)</span> to <span class="kinyuu">50</span> μL of thawed competent cells (<span class="kinyuu">DH5a</span>) on ice.</li> | ||
+ | <li>Incubated on ice for 30 min.</li> | ||
+ | <li>Heat-shocked for 30 sec at 42℃.</li> | ||
+ | <li>Added <span class="kinyuu">200</span> μL of LB.</li> | ||
+ | <li>Incubated the cells for 2 hrs at 37℃.</li> | ||
+ | <li>Spread 300 μL of the culture onto plate with LB<span class="kinyuu">C</span>.</li> | ||
+ | <li>Incubated the plate at 37℃ for <span class="kinyuu">12</span> hours.</li> | ||
+ | </ol> | ||
+ | <!-- Transformaion(プレ培養あり) END --> | ||
+ | |||
+ | <!-- Colony PCR 3STEP --> | ||
+ | <p class="nyannyan2">Colony PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin - BBa_K759012 on pSB1C3</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td>Single Colony</td><td>-</td></tr> | ||
+ | <tr><td><span class="kinyuu">Agsp - BamHⅠ - Spidroin</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BBa_K759012 - bunit - R / BglⅡ - D - Thanatin - R</span> 10 μM</td><td><span class="kinyuu">0.4</span> μL</td></tr> | ||
+ | <tr><td>KAPA Taq</td><td><span class="kinyuu">5</span> μL</td></tr> | ||
+ | <tr><td>DW</td><td><span class="kinyuu">4.2</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">10</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">65</span>℃</td><td>30 sec</td><td>Annealing</td><td><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>72℃</td><td>60 sec</td><td>Elongation</td><td><span class="kinyuu">40</span> 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 --> | ||
+ | |||
+ | <p class="nyannyan1">2015/08/28</p> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ, XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <p class="nyannyan2">Ethanol Precipitation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">5</span> μL of NaOAc, 1.5 μL of glycogen and <span class="kinyuu">150</span> 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 class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <p class="nyannyan2">Gel Extract</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu"><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ</span></span> | ||
+ | <br>FastGene<sup>TM</sup> Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - Thanatin - SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - Thanatin - F</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ - Thanatin - R</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">30</span> 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--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - Thanatin - F</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ - Thanatin - R</span> 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 class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">67</span>℃</td><td>30 sec</td><td>Annealing</td><td><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Elongation</td><td><span class="kinyuu">30</span> 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--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - Thanatin - F</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ - Thanatin - R</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">30</span> 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--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - Thanatin - F</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ - Thanatin - R</span> 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 class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">67</span>℃</td><td>30 sec</td><td>Annealing</td><td><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Elongation</td><td><span class="kinyuu">30</span> 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--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - Thanatin - F</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BglⅡ - Thanatin - R</span> 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>35 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>50 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">30</span> 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--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - Thanatin - F</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BglⅡ - Thanatin - R</span> 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 class="nyannyan3">3 Step Cycle (Tm value ≤ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td><span class="kinyuu">67</span>℃</td><td>30 sec</td><td>Annealing</td><td><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 3</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Elongation</td><td><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 3STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - Thanatin - SpeⅠ, XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ, BamHⅠ - Thanatin - BglⅡ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Fujita</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></td><td>20 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">10 × M Buffer</span></td><td>3 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">0.1%BSA</span></td><td>3 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>2 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Fujita</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ</span></td><td>20 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BglⅡ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">10 × K Buffer</span></td><td>3 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | |||
+ | <p class="nyannyan1">2015/08/29</p> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <p class="nyannyan2">Gel Extract</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - Thanatin - SpeⅠ</span></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 --> | ||
+ | <p class="nyannyan2">Ethanol Precipitation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - Thanatin - SpeⅠ</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">20</span> μL of NaOAc, 1.5 μL of glycogen and <span class="kinyuu">600</span> 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 --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - Thanatin - F</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ - Thanatin - R</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">40</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">40</span> 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 --> | ||
+ | <p class="nyannyan2">Ethanol Precipitation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ (digestion product), XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ (digestion product)</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">3</span> μL of NaOAc, 1.5 μL of glycogen and <span class="kinyuu">90</span> 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 --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Mimata</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_B0033, Thanatin - BBa_K759012, BBa_R0010 - Thanatin, BBa_R0040, BBa_E0040</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">1</span>%</td><td><span class="kinyuu">100</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita, Mimata</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHⅠ - Thanatin - BglⅡ, XbaⅠ - BBa_B0034 - SpeⅠ / XbaⅠ scar - Met - 10 × His Tag - Thanatin - SpeⅠ, XbaⅠ - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Fujita</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_R0010 - BBa_B0034 on pSB1C3</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BBa_R0010 - BBa_B0034 on pSB1C3</span></td><td>20 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ - HF</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">CutSmart Buffer</span></td><td>3 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>6 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | |||
+ | <p class="nyannyan1">2015/08/30</p> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Mimata</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_R0010 - BBa_B0034 on pSB1C3, Thanatin - BBa_K759012 on pSB1C3</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">1</span>%</td><td><span class="kinyuu">100</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Mimata, Toyooka</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - Thanatin - SpeⅠ</span></td><td>20 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">10 × M Buffer </span></td><td>3 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Mimata, Toyooka</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_R0040 on pSB1A2, BBa_E0040 on pSB1A2</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BBa_R0040 on pSB1A2, BBa_E0040 on pSB1A2</span></td><td>20 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">CutSmart Buffer</span></td><td>3 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>6 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Mimata, Toyooka</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_B0030 on pSB1C3</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BBa_B0030 on pSB1C3</span></td><td>20 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">10 × M Buffer </span></td><td>3 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | ||
+ | </table> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | |||
+ | <p class="nyannyan1">2015/08/31</p> | ||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | |||
+ | <!-- PCR 2STEP--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Nishimura, Ono, Toyooka, Fujita</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">XbaⅠ - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - Thanatin - SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ - Thanatin - F</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ - Thanatin - R</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">30</span> 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--> | ||
+ | <p class="nyannyan2">PCR</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Nishimura, Ono, Toyooka, Fujita</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHⅠ- Thanatin - BglⅡ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ- Thanatin - BglⅡ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ- Thanatin - F</span> 10 μM</td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BglⅡ - D - Thanatin - R</span> 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 class="nyannyan3">2 Step Cycle (Tm value ≥ 63℃)</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Cycle 2</td><td>68℃</td><td><span class="kinyuu">30</span> sec</td><td>Annealing / Elongation</td><td><span class="kinyuu">30</span> cycle</td></tr> | ||
+ | <tr><td>Store</td><td>4℃</td><td>Hold</td><td>Store</td><td></td></tr> | ||
+ | </table> | ||
+ | <!-- PCR 2STEP END --> | ||
+ | |||
+ | <!-- Electrophoresis --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura, Toyooka, Fujita</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHⅠ- Thanatin - BglⅡ, XbaⅠ - Thanatin - SpeⅠ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | |||
+ | <!-- Ethanol Precipitation --> | ||
+ | <p class="nyannyan2">Ethanol Precipitation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura, Toyooka, Fujita</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHⅠ- Thanatin - BglⅡ, XbaⅠ - Thanatin - SpeⅠ</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">5</span> μL of NaOAc, 1.5 μL of glycogen and <span class="kinyuu">150</span> 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 --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Fujita, Toyooka, Nishimura </span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (Ethanol Precipitation product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">Thanatin fragment (Ethanol Precipitation product)</span></td><td>20 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ</span></td><td>2 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">CutSmart Buffer</span></td><td>3 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>4 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Fujita, Toyooka, Nishimura </span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">Thanatin fragment (Ethanol Precipitation product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">Thanatin fragment (Ethanol Precipitation product)</span></td><td>20 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ</span></td><td>2 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BglⅡ</span></td><td>6 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">10 × K Buffer</span></td><td>10 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>60 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>100 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Ethanol Precipitation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura, Toyooka, Fujita</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHⅠ- Thanatin - BglⅡ, XbaⅠ - Thanatin - SpeⅠ (Digestion product)</span></p> | ||
+ | <ol class="risutonyannyan"> | ||
+ | <li>Added <span class="kinyuu">5</span> μL of NaOAc, 1.5 μL of glycogen and <span class="kinyuu">280</span> 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 --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Nishimura, Toyooka, Fujita, Mimata</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BamHⅠ- Thanatin - BglⅡ, XbaⅠ - Thanatin - SpeⅠ (Ethanol Presipitation product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">2</span>%</td><td><span class="kinyuu">50</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Ligation --> | ||
+ | <p class="nyannyan2">Ligation</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_K759012 on pSB1C3</span> / <span class="kinyuu">BamHⅠ- Thanatin - BglⅡ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BBa_K759012 on pSB1C3</span></td><td><span class="kinyuu">95</span> μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">BamHⅠ- Thanatin - BglⅡ</span></td><td><span class="kinyuu">0.5</span> μL</td></tr> | ||
+ | <tr><td>Mighty Mix</td><td><span class="kinyuu">10</span> μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b><span class="kinyuu">20</span> μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Ligation</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ono, Mimata</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_K759012 on pSB1C3, BBa_R0010 on pSB1C3</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">1</span>%</td><td><span class="kinyuu">100</span> V</td><td><span class="kinyuu">60</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Onoda, </span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_E1010 on pSB1C3</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BBa_E1010 on pSB1C3</span></td><td>10 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">EcoRⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">10 × M Buffer </span></td><td>2 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>6 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>20 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Onoda</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_E1010 on pSB1C3</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">BBa_E1010 on pSB1C3</span></td><td>10 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">CutSmart Buffer</span></td><td>2 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>7 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>20 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Toyooka</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_E1010 on pSB1C3 (Digestion product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">1</span>%</td><td><span class="kinyuu">100</span> V</td><td><span class="kinyuu">40</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <p class="nyannyan2">Gel Extract</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Toyooka</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">BBa_E1010 on pSB1C3 (Digestion product)</span></span> | ||
+ | <br>FastGene<sup>TM</sup> Gel Extraction kit (Nippon Genetics Co.,Ltd) | ||
+ | <br>DNA extraction from gel</p> | ||
+ | <!-- Gel Extract END --> | ||
+ | |||
+ | <!-- Digestion --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito, Sakai</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">HLA family</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">HLA, HLZ, BLA, BLZ</span></td><td>20 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">10 × M Buffer </span></td><td>3 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>5 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>30 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Digestion</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito, Sakai</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">HLA, HLZ, BLA, BLZ</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Reagent</th><th>Volume</th></tr> | ||
+ | <tr><td><span class="kinyuu">HLA, HLZ, BLA, BLZ</span></td><td>10 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">XbaⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">SpeⅠ</span></td><td>1 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">10 x M buffer </span></td><td>2 μL</td></tr> | ||
+ | <tr><td><span class="kinyuu">DW</span></td><td>6 μL</td></tr> | ||
+ | <tr><td><b>Total</b></td><td><b>20 μL</b></td></tr> | ||
+ | </table> | ||
+ | <p class="nyannyan3">Digestion</p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <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 --> | ||
+ | <p class="nyannyan2">Electrophoresis</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito, Sakai</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu">HLA family XbaⅠ & SpeⅠ (Digestion product)</span></p> | ||
+ | <table class="hyounyannyan"> | ||
+ | <tr><th>Gel Concentration</th><th>Voltage</th><th>Time</th><th>Buffer</th></tr> | ||
+ | <tr><td><span class="kinyuu">1</span>%</td><td><span class="kinyuu">100</span> V</td><td><span class="kinyuu">40</span> min</td><td>1/2 x TBE</td></tr> | ||
+ | </table> | ||
+ | <!-- Electrophoresis END --> | ||
+ | |||
+ | <!-- Gel Extract --> | ||
+ | <p class="nyannyan2">Gel Extract</p> | ||
+ | <p class="nyannyan4"><span class="kinyuu">Ito, Sakai</span></p> | ||
+ | <p class="nyannyan3"><span class="kinyuu"><span class="kinyuu">HLA family XbaⅠ & SpeⅠ (Digestion product)</span></span> | ||
+ | <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> | <h2 id="september">September</h2> |
Revision as of 17:12, 18 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 hours.
2015/01/22
Colony PCR
Sakurai
BBa_K1524100
Reagent | Volume |
---|---|
Single Colony | - |
100bp UP-EX-F 10 μM | 0.8 μL |
Xho-RBS-Nco 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 A | 30 min | 2x TBE |
Liquid Culture
Sakurai
BBa_K1524100
Reagent | Volume |
---|---|
Single Colony | - |
LB | 2 μL |
Cultured for 16 hours.
2015/01/26
Colony PCR
Sakurai
BBa_K1524100
Reagent | Volume |
---|---|
Single Colony | - |
100bp UP EX-F 10 μM | 0.4 μL |
Xho-RBS-Nco 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 A | 30 min | 2x TBE |
Colony PCR
Sakurai
BBa_K1524100
Reagent | Volume |
---|---|
Single Colony | - |
100bp UP EX-F 10 μM | 0.4 μL |
Xho-RBS-Nco 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 | - |
EX-F-Universal 10 μM | 0.4 μL |
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 |
100bpUP-EX-F 10 μM | 1.5 μL |
200bpDN-PS-R 10 μM | 1.5 μL |
KOD Plus NEO | 1 μL |
KOD Plus NEO 10x Buffer | 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 |
100bpUP-EX-F 10 μM | 1.5 μL |
200bpDN-PS-R 10 μM | 1.5 μL |
KOD Plus NEO | 1 μL |
KOD Plus NEO 10x Buffer | 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 |
Cut Smart | 5 μL |
Total | 50 μL |
BBa_0030 - BBa_E1010
Reagent | Volume |
---|---|
BBa_0030 - BBa_E1010 | 44 μL |
XbaI | 1 μL |
Cut Smart | 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 | 2x 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 | 2x TBE |
May
2015/05/13
Transformation
Onoda
pET15b
- Added 1 μL of pET15b to 50 μL of thawed competent cells (DH5alpha) 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 hours.
Transformation
Onoda,Sakurai
pET16b
- Added 1 μL of pET16b to 50 μL of thawed competent cells (DH5alpha) 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 hours.
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 培養時間 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
GFP
- Added 1 μL of GFP 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 hours.
Transformation
Mimata, Onoda, Ono, Nishimura
mRFP
- Added 1 μL of mRFP 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 hours.
2015/05/29
Mini-prep
Mimata, Onoda, Ono, Nishimura
GFP, mRFP
FastGeneTM Plasmid mini kit (Nippon Genetics Co.,Ltd)
standard protocol
PCR
Onoda, Ono
GFP
Reagent | Volume |
---|---|
GFP | 1 μL |
67-F-primer 10 μL | 1 μL |
14-R-primer 10 μL | 1 μL |
KOD FX NEO | 1 μL |
KOD FX NEO 10x Buffer | 5 μL |
2 mM dNTPS | 5 μL |
25 mM MgSO4 | 3 μL |
DW | 33 μL |
Total | 50 μL |
mRFP
Reagent | Volume |
---|---|
mRFP | 1 μL |
67-F-primer 10 μL | 1 μL |
14-R-primer 10 μL | 1 μL |
KOD FX NEO | 1 μL |
KOD FX 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 | 30 cycles |
Cycle 2 | 68℃ | 60 sec | Annealing / Elongation | 30 cycles |
Store | 4℃ | Hold | Store |
2015/05/30
Electrophoresis
Mimata, Onoda, Ono, Nishimura
GFP, mRFP
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100 A | 30 min | 2x TBE |
Gel Extract
Onoda, Ono, Nishimura
GFP, mRFP
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
Digestion
Onoda, Ono, Nishimura
GFP
Reagent | Volume |
---|---|
GFP | 20 μL |
DW | 5 μL |
Spe1 | 1 μL |
EcoR1 | 1 μL |
Cut Smart | 3 μL |
Total | 30 μL |
mRFP
Reagent | Volume |
---|---|
mRFP | 20 μL |
DW | 5 μL |
Spe1 | 1 μL |
EcoR1 | 1 μL |
Cut Smart | 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 |
Spe1 | 1 μL |
EcoR1 | 1 μL |
Cut Smart | 2 μL |
Total | 20 μL |
pET16b
Reagent | Volume |
---|---|
pET16b | 10 μL |
DW | 6 μL |
Spe1 | 1 μL |
EcoR1 | 1 μL |
Cut Smart | 2 μL |
Total | 20 μL |
pSB1A3
Reagent | Volume |
---|---|
pSB1A3 | 10 μL |
DW | 6 μL |
Spe1 | 1 μL |
EcoR1 | 1 μL |
Cut Smart | 2 μL |
Total | 20 μL |
pSB4C5
Reagent | Volume |
---|---|
pSB4C5 | 2 μL |
DW | 14 μL |
Spe1 | 1 μL |
EcoR1 | 1 μL |
Cut Smart | 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
GFP, RFP, pET15b, pET16b, pSB1A3, pSB4C5
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 30 min | 1/2x TBE |
Gel Extract
Mimata, Onoda, Ono, Nishimura
GFP, RFP, pET15b, pET16b, pSB1A3
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
Electrophoresis
Mimata, Onoda, Ono, Nishimura
GFP, mRFP
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
1% | 100 V | 30 min | 1/2x TBE |
PCR
Mimata, Onoda
GFP
Reagent | Volume |
---|---|
GFP | 1 μL |
67-F-primer 10 μM | 1 μL |
14-R-primer 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 |
mRFP
Reagent | Volume |
---|---|
mRFP | 1 μL |
67-F-primer 10 μM | 1 μL |
14-R-primer 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 | 30 cycle |
Cycle 2 | 68℃ | 60 sec | Annealing / Elongation | 30 cycle |
Store | 4℃ | Hold | Store |
June
2015/06/10
Digestion
Mimata, Onoda
GFP
Reagent | Volume |
---|---|
GFP | 16 μL |
Spe1 | 1 μL |
EcoR1 | 1 μL |
Cut Smart | 2 μL |
Total | 20 μL |
mRFP
Reagent | Volume |
---|---|
mRFP | 16 μL |
Spe1 | 1 μL |
EcoR1 | 1 μL |
Cut Smart | 2 μL |
Total | 20 μL |
Digestion
Step | Temp. | Time | Process |
---|---|---|---|
1 | 37℃ | 600 min | Digestion |
2 | 60℃ | 15 min | Inactivation |
Store | 4℃ | Hold | Store |
2015/06/16
PCR
Mimata
thanatin fragment for TA cloning
Reagent | Volume |
---|---|
TA forward primer | 1 μL |
TA reverse 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 |
72℃ | 60 sec | |||
Store | 4℃ | Hold | Store |
2015/06/17
Electrophoresis
Mimata
thanatin fragment for TA cloning
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100 A | 30 min | 2x TBE |
Annealing Oligos and Elongation
実験者
thanatin fragment for TA cloning
Reagent | Volume |
---|---|
TA-forward primer 1 μM | 1 μL |
TA-reverse 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
実験者
thanatin fragment for TA cloning
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100V | 30min | 2x TBE |
Gel Extract
実験者
thanatin fragment for TA cloning
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
Ligation
実験者
thanatin fragment for TA cloning / Tvector pGEM
Reagent | Volume |
---|---|
Tvector pGEM | 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
実験者
Tvector pGEM
- 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 hours.
July
2015/07/25
Transformation
Onoda
dT on pSB1C3
- Added 1 μL of dT 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 LBCp.
- Incubated the plate at 37℃ for 16 hours.
Transformation
Onoda
Plac - B0034 on pSB1C3
- Added 1 μL of Plac - 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 LBCp.
- Incubated the plate at 37℃ for 16 hours.
Transformation
Onoda
Ptet - B0034 on pSB1C3
- Added 1 μL of Ptet - 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 LBCp.
- Incubated the plate at 37℃ for 16 hours.
Transformation
Onoda
B0034 on pSB1A2
- Added 1 μL of 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 hours.
PCR
Onoda
dT on pSB1C3
Reagent | Volume |
---|---|
10% dT on pSB1C3 | 1 μL |
100bpUP-EX-F 10 μM | 1 μL |
200bpDN-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 |
Plac - B0034 on pSB1C3
Reagent | Volume |
---|---|
10% Plac - B0034 on pSB1C3 | 1 μL |
100bpUP-EX-F 10 μM | 1 μL |
200bpDN-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 |
Ptet - B0034 on pSB1C3
Reagent | Volume |
---|---|
10% Ptet - B0034 on pSB1C3 | 1 μL |
100bpUP-EX-F 10 μM | 1 μL |
200bpDN-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 |
B0034 on pSB1A2
Reagent | Volume |
---|---|
10% B0034 on pSB1A2 | 1 μL |
100bpUP-EX-F 10 μM | 1 μL |
200bpDN-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 |
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
dT on pSB1C3, Plac - B0034 on pSB1C3, Ptet - B0034 on pSB1C3, B0034 on pSB1A2
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100 A | 30 min | 2x TBE |
2015/07/26
Liquid Culture
Ono
Ptet - B0034 on pSB1A2
Reagent | Volume |
---|---|
Single Colony | - |
LB | 2000 μL |
Ampicillin | 2 μL |
Cultured for 15 hours.
Mini-prep
実験者
Plac - B0034 on pSB1C3, dT on pSB1C3, B0034 on pSB1A2
FastGeneTM Plasmid mini kit (Nippon Genetics Co.,Ltd)
standard protocol
Electrophoresis
実験者
Ptet - B0034 on pSB1C3, Plac - B0034 on pSB1C3, B0034 on pSB1A3, dT on pSB1C3
Gel Concentration | Voltage | Time | Buffer |
---|---|---|---|
2% | 100 A | 30 min | 2x TBE |
Gel Extract
Ono
Plac - B0034 on pSB1C3, Ptet - B0034 on pSB1C3, B0034 on pSB1A2, dT on pSB1C3
FastGeneTM Gel/PCR Extraction kit (Nippon Genetics Co.,Ltd)
DNA extraction from gel
2015/07/27
Mini-prep
Ono
Ptet - 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 hours.
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 | 1/2x 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 hours.
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 and 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 and 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 and 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 and 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 |
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
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 |
KOD Plus NEO 10 x 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 | 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 |
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 | 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℃ | 3030 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℃ | 3030 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 | |
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 DNA 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 - 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 | 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 DNA 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 |
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 - 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
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 (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 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 | 35 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 |
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