Difference between revisions of "Team:Goettingen/Experiments"
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| − | < | + | <!-- Start of CSS--> |
| + | <style type="text/css"> | ||
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| − | + | #menu1, #menu2, #menu3, #menu4, #menu5, #menu6, #menu7, #menu8, #menu9, #menu10, #menu11, #menu12{ | |
| − | + | display:none; | |
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| + | </style> | ||
| + | <!-- End of CSS --> | ||
| + | |||
| + | <h1>LB Medium</h1> | ||
| + | <div id="menu1"> | ||
| + | |||
| + | <p>- Add the following components</p> | ||
| + | <table border="1" cellspacing="0" cellpadding="0"> | ||
| + | <tbody> | ||
| + | <tr> | ||
| + | <td valign="top" width="109"> | ||
| + | <p>NaCl</p> | ||
| + | </td> | ||
| + | <td valign="top" width="150"> | ||
| + | <p>10 g</p> | ||
| + | </td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td valign="top" width="109"> | ||
| + | <p>Yeast extract</p> | ||
| + | </td> | ||
| + | <td valign="top" width="150"> | ||
| + | <p>5 g</p> | ||
| + | </td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td valign="top" width="109"> | ||
| + | <p>Tryptone</p> | ||
| + | </td> | ||
| + | <td valign="top" width="150"> | ||
| + | <p>10 g</p> | ||
| + | </td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td valign="top" width="109"> | ||
| + | <p>H<sub>2</sub>O</p> | ||
| + | </td> | ||
| + | <td valign="top" width="150"> | ||
| + | <p>Add to 1 L</p> | ||
| + | </td> | ||
| + | </tr> | ||
| + | </tbody> | ||
| + | </table> | ||
| + | <ul> | ||
| + | <li>To obtain solid media add 15g/L agar.</li> | ||
| + | </ul> | ||
| + | <p>- Autoclave at 121 <sup>o</sup>C for 20 min.</p> | ||
| + | <p>- The preferred antibiotic is added with the proper concentration (e.g Ampicilin is added to a final concentration of 100 µg/ml)</p> | ||
| + | <ul> | ||
| + | <li>To the liquid medium antibiotic is added upon usage.</li> | ||
| + | <li>For the preparation of agar plates antibiotic is added after autoclaving the media and cooling it to 60 <sup>o</sup>C. </li> | ||
| + | </ul> | ||
| + | </div> | ||
<p> </p> | <p> </p> | ||
<p> | <p> | ||
| − | + | <h1><strong>Plasmid Extraction - using peqGOLD Plasmid Miniprep Kit I (PEQLAB Technologies)</strong></h1> | |
</p> | </p> | ||
| + | <div id="menu2"> | ||
| + | <p> | ||
| + | Select few TOP10/BL21 <em>E.coli</em> transformed colonies from the LB Amp plates containing the propagated transformed colonies and inoculate them into | ||
| + | liquid LB medium (5 ml) containing preferred antibiotic of desired concentration in each tube. | ||
| + | </p> | ||
| + | <p> | ||
| + | Incubate the LB tubes with the transformed colonies at 37ᵒC in a shaker for about 12 – 15 hours (overnight) with agitation (150 rpm). | ||
| + | </p> | ||
| + | <p> | ||
| + | Extract the plasmids from the incubated LB cultures using the peqGOLD Plasmid Miniprep Kit I. | ||
| + | </p> | ||
| + | <p> | ||
| + | Centrifuge the culture at 10000 x g for 2 min to obtain the pellet and repeat the process until the culture is completely centrifuged. Store the pellet of | ||
| + | 1 ml of the culture at -20ᵒC for future use. | ||
| + | </p> | ||
| + | <p> | ||
| + | Resuspend the pellet in 250 µl of Solution I of the Kit (which is normally kept at 4ᵒC because of the RNase) and vortex until the pellet is resuspended. | ||
| + | </p> | ||
| + | <p> | ||
| + | Add 250 µl of Solution II to the resuspended mixture and gently mix by inverting and rotating the tubes 6 -10 times to obtain a cleared lysate. Incubate | ||
| + | the mixture for 2 min to obtain optimum results. | ||
| + | </p> | ||
| + | <p> | ||
| + | Add 350 µl of Solution III to the cleared lysate and gently mix by inverting the tubes 6 -10 times until a flocculent white precipitate is formed. | ||
| + | Centrifuge at 10000 x g for 10 min at room temperature. | ||
| + | </p> | ||
| + | <p> | ||
| + | Transfer the clear supernatant to a fresh PerfectBind DNA Column in a 2 ml Collection Tube. Centrifuge the Column with the Collection Tube for 1 min at | ||
| + | 10000 x g at room temperature. Discard the flow-through liquid. | ||
| + | </p> | ||
| + | <p> | ||
| + | Add 500 µl of PW Plasmid buffer to the PerfectBind DNA Column in the Collection Tube and centrifuge for 1 min at 10000 x g. Discard the flow-through. | ||
| + | </p> | ||
| + | <p> | ||
| + | Add 750 µl of DNA Wash buffer to the PerfectBind DNA Column in the Collection tube and centrifuge for 1 min at 10000 x g. Discard the flow-through. Repeat | ||
| + | this step to obtain optimum results. | ||
| + | </p> | ||
| + | <p> | ||
| + | Place the PerfectBind DNA Column in the Collection tube and centrifuge for 2 min at 10000 x g to dry the column matrix. This step is essential to remove | ||
| + | ethanol from the column. | ||
| + | </p> | ||
| + | <p> | ||
| + | Place the PerfectBind DNA Column into a fresh 1.5 ml Eppendorf tube. Add 50 µl of pre-warmed sterile deionized water directly to the binding matrix in the | ||
| + | PerfectBind DNA Column and centrifuge for 1 min at 5000 x g to elute the DNA. | ||
| + | </p> | ||
| + | <p> | ||
| + | Discard the PerfectBind DNA Column and store the eluted plasmid DNA at -20ᵒC. | ||
| + | </p> | ||
| + | <p> | ||
| + | Check the concentration of the plasmids by using a NanoDrop and note down the values for future experiments. | ||
| + | </p> | ||
| + | </div> | ||
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
<p> </p> | <p> </p> | ||
| − | |||
| − | <p>- | + | <p> |
| + | <h1><strong>Plasmid Extraction - using QIAprep Spin Miniprep Kit (QIAGEN)</strong></h1> | ||
| + | </p> | ||
| + | <div id="menu3"> | ||
| + | <p>This protocol describes the purification of plasmid DNA from 5 ml overnight cultures of <em>E. coli</em> grown in LB medium using the QIAprep Spin Miniprep Kit. (QIAGEN).</p> | ||
| + | <ul> | ||
| + | <li>Add the provided RNase A solution to buffer P1, mix, and store at 4 <sup>o</sup>C.</li> | ||
| + | <li>Add ethanol (96–100%) to Buffer PE before use.</li> | ||
| + | <li>All centrifugation steps are carried out at 17,900 x g (13,000 rpm) in a conventional table-top microcentrifuge at room temperature.</li> | ||
| + | </ul> | ||
| + | <p> </p> | ||
| + | <p>- Add the proper antibiotic with the proper concentration to 5 ml LB medium (e.g Ampicilin is added to a final concentration of 100 µg/ml).</p> | ||
| − | <p>- | + | <p>- Inoculate the medium with the desired <em>E.coli</em> strain and incubate overnight at 37 <sup>o</sup>C with agitation (150 rpm).</p> |
| − | <p>- | + | <p>- Pellet the overnight culture by centrifugation at 8000 rpm (6800xg) for 3 min at room temperature.</p> |
| − | <p>- | + | <p>- Resuspend pelleted bacterial cells in 250 μl Buffer P1 and transfer it to a microcentrifuge tube.</p> |
| − | <p>- Add | + | <p>- Add 250 μl Buffer P2 and mix thoroughly by inverting the tube 4–6 times. Do not allow the lysis reaction to proceed for more than 5 min.</p> |
| − | <p>- | + | <p>- Add 350 μl Buffer N3 and mix immediately and thoroughly by inverting the tube 4–6 times.</p> |
| − | <p>- | + | <p>- Centrifuge for 10 min at 13,000 rpm (~17,900 x g) in a table-top microcentrifuge.</p> |
| − | <p>- | + | <p>- Apply the supernatant to the QIAprep spin column by decanting. Centrifuge 60 s. Discard the flow-through.</p> |
| − | <p>- Wash QIAprep spin column by adding | + | <p>- Wash the QIAprep spin column by adding 500 μl Buffer PB and centrifuging for 60 s. Discard the flow-through.</p> |
| − | <p>- | + | <p>- Wash QIAprep spin column by adding 750 μl Buffer PE and centrifuging for 30–60 s.</p> |
| − | <p>- | + | <p>- Discard the flow-through, and centrifuge for an additional 1 min to remove residual wash buffer.</p> |
| − | <p>- | + | <p>- Place each QIAquick column in a clean 1.5 ml microcentrifuge tube.</p> |
| + | <p>- To elute DNA, add 50 μl water (40 – 60 <sup>o</sup>C) to the center of the QIAquick membrane, let the column stand for 1 min, and then centrifuge for 1 min.</p> | ||
| + | |||
| + | </div> | ||
<p> </p> | <p> </p> | ||
<p><span style="font-size: x-large; color: #535353;"><strong>Blunt End Ligation in pJET1.2 vector –Clone JET PCR Cloning Kit–Thermo Scientific</strong></span></p> | <p><span style="font-size: x-large; color: #535353;"><strong>Blunt End Ligation in pJET1.2 vector –Clone JET PCR Cloning Kit–Thermo Scientific</strong></span></p> | ||
| + | <div id="menu4"> | ||
| + | <p> </p> | ||
| + | <p>- Set up the following componentson ice for the ligation reaction.</p> | ||
| + | <table border="1" cellspacing="0" cellpadding="0"> | ||
| + | <tbody> | ||
| + | <tr> | ||
| + | <td valign="top" width="247"> | ||
| + | <p>Components</p> | ||
| + | </td> | ||
| + | <td valign="top" width="246"> | ||
| + | <p>Volume</p> | ||
| + | </td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td valign="top" width="247"> | ||
| + | <p>2x Reaction buffer</p> | ||
| + | </td> | ||
| + | <td valign="top" width="246"> | ||
| + | <p>10µl</p> | ||
| + | </td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td valign="top" width="247"> | ||
| + | <p>Blunt end PCR product</p> | ||
| + | </td> | ||
| + | <td valign="top" width="246"> | ||
| + | <p>125ng</p> | ||
| + | </td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td valign="top" width="247"> | ||
| + | <p>pJET 1.2 Plasmids</p> | ||
| + | </td> | ||
| + | <td valign="top" width="246"> | ||
| + | <p>50ng (1µl)</p> | ||
| + | </td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td valign="top" width="247"> | ||
| + | <p>T4 DNA Ligase</p> | ||
| + | </td> | ||
| + | <td valign="top" width="246"> | ||
| + | <p>1µl</p> | ||
| + | </td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td valign="top" width="247"> | ||
| + | <p>Water(RNase free)</p> | ||
| + | </td> | ||
| + | <td valign="top" width="246"> | ||
| + | <p>xµl</p> | ||
| + | </td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td valign="top" width="247"> | ||
| + | <p>Total Volume</p> | ||
| + | </td> | ||
| + | <td valign="top" width="246"> | ||
| + | <p>20µl</p> | ||
| + | </td> | ||
| + | </tr> | ||
| + | </tbody> | ||
| + | </table> | ||
| + | <p>- Vortex briefly and centrifuge for 3-5 sec at 5000 rpm.</p> | ||
| + | <p>- Carry out the ligation at 20°C for 20 min at room temperature (22-25°C) and then place in ice for 5 min and use for transformation immediately or store at -20°C.</p> | ||
| + | <p>Cloning principle:</p> | ||
| + | <ul> | ||
| + | <li>pJET1.2 is a linearized cloning vector which accepts inserts from 6 bp to 10 kb. Since the 5’-ends of the vector contain phosporyl groups, therefore phosphorylation of the PCR products is not required.</li> | ||
| + | </ul> | ||
| + | <ul> | ||
| + | <li>Optimal insert/vector ratio is 3:1. (0.15 pmol ends of insert and 0.05 pmol ends of vector)</li> | ||
| + | </ul> | ||
| + | <ul> | ||
| + | <li>Optimal PCR product quantity for ligation reaction is to be calculated from the Kit protocol, For the length of 2500 bp of PCR product, to have 0.15 pmol ends of the PCR product in the ligation reaction 125 ng of the PCR product should be used.</li> | ||
| + | </ul> | ||
| + | <ul> | ||
| + | <li>For PCR products more than 3 kb, ligation can be prolonged to 30 min.</li> | ||
| + | </ul> | ||
| + | </div> | ||
| + | <p> </p> | ||
| + | <p> </p> | ||
| + | <p><span style="font-size: x-large; color: #535353;"><strong>TOPO® Cloning protocol using</strong> <strong>Champion™ pET Directional TOPO® Expression Kits. </strong><strong>Thermo Fisher Scientific</strong></span></p> | ||
| + | <div id="menu5"> | ||
<p> </p> | <p> </p> | ||
| − | + | <ul> | |
| − | + | <li>You will perform TOPO® Cloning in a reaction buffer containing salt. Note that the amount of salt added to the TOPO® Cloning reaction varies depending on whether you plan to transform chemically competent cells or electrocompetent cells.</li> | |
| − | + | </ul> | |
| − | + | <p><strong> </strong>- Set up the TOPO® Cloning reaction depending on the transformation method.</p> | |
| − | + | <table border="1" cellspacing="0" cellpadding="0"> | |
| − | + | <tbody> | |
| − | + | <tr> | |
| − | + | <td valign="top" width="174"> | |
| − | + | <p><strong>Reagents </strong></p> | |
| − | + | </td> | |
| − | + | <td valign="top" width="212"> | |
| − | + | <p><strong>Chemically Competent <em>E. coli</em></strong></p> | |
| − | + | </td> | |
| − | + | <td valign="top" width="193"> | |
| − | + | <p><strong>Electrocompetent <em>E. coli</em></strong></p> | |
| − | + | </td> | |
| − | + | </tr> | |
| − | + | <tr> | |
| − | + | <td valign="top" width="174"> | |
| − | + | <p>Fresh PCR product</p> | |
| − | + | </td> | |
| − | + | <td valign="top" width="212"> | |
| − | + | <p>0.5 to 4 μl (15 – 40 ng)</p> | |
| − | + | </td> | |
| − | + | <td valign="top" width="193"> | |
| − | + | <p>0.5 to 4 μl (15 – 40 ng)</p> | |
| − | + | </td> | |
| − | + | </tr> | |
| − | + | <tr> | |
| − | + | <td valign="top" width="174"> | |
| − | + | <p>Salt Solution</p> | |
| − | + | </td> | |
| − | + | <td valign="top" width="212"> | |
| − | + | <p>1 μl</p> | |
| − | + | </td> | |
| − | + | <td valign="top" width="193"> | |
| − | + | <p>---</p> | |
| − | + | </td> | |
| − | + | </tr> | |
| − | + | <tr> | |
| − | + | <td valign="top" width="174"> | |
| − | + | <p>Dilute Salt Solution (1:4)</p> | |
| − | + | </td> | |
| − | + | <td valign="top" width="212"> | |
| − | + | <p>---</p> | |
| − | + | </td> | |
| − | + | <td valign="top" width="193"> | |
| − | + | <p>1 μl</p> | |
| − | + | </td> | |
| − | + | </tr> | |
| − | + | <tr> | |
| − | + | <td valign="top" width="174"> | |
| − | + | <p>Sterile Water</p> | |
| − | + | </td> | |
| − | + | <td valign="top" width="212"> | |
| − | + | <p>add to a final volume of 5 μl</p> | |
| − | + | </td> | |
| − | + | <td valign="top" width="193"> | |
| − | + | <p>add to a final volume of 5 μl</p> | |
| − | + | </td> | |
| − | + | </tr> | |
| − | + | <tr> | |
| − | + | <td valign="top" width="174"> | |
| − | + | <p>TOPO® vector 1</p> | |
| − | + | </td> | |
| − | + | <td valign="top" width="212"> | |
| − | + | <p>1 μl (15 – 20 ng)</p> | |
| − | + | </td> | |
| − | + | <td valign="top" width="193"> | |
| − | + | <p>1 μl (15 – 20 ng)</p> | |
| − | + | </td> | |
| − | + | </tr> | |
| − | + | <tr> | |
| − | + | <td valign="top" width="174"> | |
| − | + | <p><strong>Total Volume</strong></p> | |
| − | + | </td> | |
| − | + | <td valign="top" width="212"> | |
| − | + | <p><strong>6 μl</strong></p> | |
| − | + | </td> | |
| − | + | <td valign="top" width="193"> | |
| − | <ul> | + | <p><strong>6 μl</strong></p> |
| − | <li>You will perform TOPO® Cloning in a reaction buffer containing salt. Note that the amount of salt added to the TOPO® Cloning reaction varies depending on whether you plan to transform chemically competent cells or electrocompetent cells.</li> | + | </td> |
| − | </ul> | + | </tr> |
| − | <p><strong> </strong>- Set up the TOPO® Cloning reaction depending on the transformation method.</p> | + | </tbody> |
| − | <table border="1" cellspacing="0" cellpadding="0"> | + | </table> |
| − | <tbody> | + | <p> - Mix reaction gently and incubate for 15 - 30 minutes at room temperature (22-23°C).</p> |
| − | <tr> | + | <p> - Place the reaction on ice and proceed with the transformation or store at - 20 °C.</p> |
| − | <td valign="top" width="174"> | + | <p> </p> |
| − | <p><strong>Reagents </strong></p> | + | <ul> |
| − | </td> | + | <li>Before transformation into electrocompetent <em>E.coli</em> the salt is removed via microdialysis. For more information refer to transformation in electrocompetent BL21 <em>E.coli</em>. </li> |
| − | <td valign="top" width="212"> | + | </ul> |
| − | <p><strong>Chemically Competent <em>E. coli</em></strong></p> | + | </div> |
| − | </td> | + | |
| − | <td valign="top" width="193"> | + | |
| − | <p><strong>Electrocompetent <em>E. coli</em></strong></p> | + | |
| − | </td> | + | |
| − | </tr> | + | |
| − | <tr> | + | |
| − | <td valign="top" width="174"> | + | |
| − | <p>Fresh PCR product</p> | + | |
| − | </td> | + | |
| − | <td valign="top" width="212"> | + | |
| − | <p>0.5 to 4 μl (15 – 40 ng)</p> | + | |
| − | </td> | + | |
| − | <td valign="top" width="193"> | + | |
| − | <p>0.5 to 4 μl (15 – 40 ng)</p> | + | |
| − | </td> | + | |
| − | </tr> | + | |
| − | <tr> | + | |
| − | <td valign="top" width="174"> | + | |
| − | <p>Salt Solution</p> | + | |
| − | </td> | + | |
| − | <td valign="top" width="212"> | + | |
| − | <p>1 μl</p> | + | |
| − | </td> | + | |
| − | <td valign="top" width="193"> | + | |
| − | <p>---</p> | + | |
| − | </td> | + | |
| − | </tr> | + | |
| − | <tr> | + | |
| − | <td valign="top" width="174"> | + | |
| − | <p>Dilute Salt Solution (1:4)</p> | + | |
| − | </td> | + | |
| − | <td valign="top" width="212"> | + | |
| − | <p>---</p> | + | |
| − | </td> | + | |
| − | <td valign="top" width="193"> | + | |
| − | <p>1 μl</p> | + | |
| − | </td> | + | |
| − | </tr> | + | |
| − | <tr> | + | |
| − | <td valign="top" width="174"> | + | |
| − | <p>Sterile Water</p> | + | |
| − | </td> | + | |
| − | <td valign="top" width="212"> | + | |
| − | <p>add to a final volume of 5 μl</p> | + | |
| − | </td> | + | |
| − | <td valign="top" width="193"> | + | |
| − | <p>add to a final volume of 5 μl</p> | + | |
| − | </td> | + | |
| − | </tr> | + | |
| − | <tr> | + | |
| − | <td valign="top" width="174"> | + | |
| − | <p>TOPO® vector 1</p> | + | |
| − | </td> | + | |
| − | <td valign="top" width="212"> | + | |
| − | <p>1 μl (15 – 20 ng)</p> | + | |
| − | </td> | + | |
| − | <td valign="top" width="193"> | + | |
| − | <p>1 μl (15 – 20 ng)</p> | + | |
| − | </td> | + | |
| − | </tr> | + | |
| − | <tr> | + | |
| − | <td valign="top" width="174"> | + | |
| − | <p><strong>Total Volume</strong></p> | + | |
| − | </td> | + | |
| − | <td valign="top" width="212"> | + | |
| − | <p><strong>6 μl</strong></p> | + | |
| − | </td> | + | |
| − | <td valign="top" width="193"> | + | |
| − | <p><strong>6 μl</strong></p> | + | |
| − | </td> | + | |
| − | </tr> | + | |
| − | </tbody> | + | |
| − | </table> | + | |
| − | <p> - Mix reaction gently and incubate for 15 - 30 minutes at room temperature (22-23°C).</p> | + | |
| − | <p> - Place the reaction on ice and proceed with the transformation or store at - 20 °C.</p> | + | |
| − | <p> </p> | + | |
| − | <ul> | + | |
| − | <li>Before transformation into electrocompetent <em>E.coli</em> the salt is removed via microdialysis. For more information refer to transformation in electrocompetent BL21 <em>E.coli</em>. </li> | + | |
| − | </ul> | + | |
| − | + | ||
<p> </p> | <p> </p> | ||
<p><strong><span style="font-size: x-large;"><span style="color: #535353;">PCR product purification using QIAquick® PCR Purification Kit (QIAGEN).</span></span></strong></p> | <p><strong><span style="font-size: x-large;"><span style="color: #535353;">PCR product purification using QIAquick® PCR Purification Kit (QIAGEN).</span></span></strong></p> | ||
| − | <p> </p> | + | <div id="menu6"> |
| − | <ul> | + | <p> </p> |
| − | <li>Add ethanol (96–100%) to Buffer PE before use.</li> | + | <ul> |
| − | <li>All centrifugation steps are carried out at 17,900 x g (13,000 rpm) in a conventional table-top microcentrifuge at room temperature.</li> | + | <li>Add ethanol (96–100%) to Buffer PE before use.</li> |
| − | </ul> | + | <li>All centrifugation steps are carried out at 17,900 x g (13,000 rpm) in a conventional table-top microcentrifuge at room temperature.</li> |
| − | <p> </p> | + | </ul> |
| − | <p>- Add 5 volumes Buffer PB to 1 volume of the PCR reaction and mix.</p> | + | <p> </p> |
| − | <p>- Place a QIAquick column in a provided 2 ml collection tube.</p> | + | <p>- Add 5 volumes Buffer PB to 1 volume of the PCR reaction and mix.</p> |
| − | <p>- To bind DNA, apply the sample to the QIAquick column and centrifuge for 30–60 s. Discard flow-through and place the QIAquick column back in the same tube.</p> | + | <p>- Place a QIAquick column in a provided 2 ml collection tube.</p> |
| − | <p>- To wash, add 0.75 ml Buffer PE to the QIAquick column, centrifuge for 30–60 s. Discard flow-through and place the QIAquick column back in the same tube.</p> | + | <p>- To bind DNA, apply the sample to the QIAquick column and centrifuge for 30–60 s. Discard flow-through and place the QIAquick column back in the same tube.</p> |
| − | <p>- Centrifuge the QIAquick column once more in the provided 2 ml collection tube for 1 min to remove residual wash buffer.</p> | + | <p>- To wash, add 0.75 ml Buffer PE to the QIAquick column, centrifuge for 30–60 s. Discard flow-through and place the QIAquick column back in the same tube.</p> |
| − | <p>- Place each QIAquick column in a clean 1.5 ml microcentrifuge tube.</p> | + | <p>- Centrifuge the QIAquick column once more in the provided 2 ml collection tube for 1 min to remove residual wash buffer.</p> |
| − | <p>- To elute DNA, add 50 μl water (40 – 60 <sup>o</sup>C) to the center of the QIAquick membrane, let the column stand for 1 min, and then centrifuge for 1 min.</p> | + | <p>- Place each QIAquick column in a clean 1.5 ml microcentrifuge tube.</p> |
| − | + | <p>- To elute DNA, add 50 μl water (40 – 60 <sup>o</sup>C) to the center of the QIAquick membrane, let the column stand for 1 min, and then centrifuge for 1 min.</p> | |
| + | </div> | ||
<p> </p> | <p> </p> | ||
<p><span style="font-size: x-large; color: #535353;">Plasmid transformation into <strong>Chemically Competent <em>E. coli</em></strong>.</span></p> | <p><span style="font-size: x-large; color: #535353;">Plasmid transformation into <strong>Chemically Competent <em>E. coli</em></strong>.</span></p> | ||
| − | <p> </p> | + | <div id="menu7"> |
| − | <p>- Thaw chemically competent <em>E.coli</em> cells (BL21 or TOP10) on ice.</p> | + | <p> </p> |
| − | <p>- Add 100 – 250 ng of ligation product. Mix gently, do not pipette up and down.</p> | + | <p>- Thaw chemically competent <em>E.coli</em> cells (BL21 or TOP10) on ice.</p> |
| − | <p> (add 30 – 60 ng pET 101 construct depending on the cloning protocol).</p> | + | <p>- Add 100 – 250 ng of ligation product. Mix gently, do not pipette up and down.</p> |
| − | <p>- Place on ice for 5 – 15 min.</p> | + | <p> (add 30 – 60 ng pET 101 construct depending on the cloning protocol).</p> |
| − | <p>- Heat shock 45-50 seconds at 42 °C. </p> | + | <p>- Place on ice for 5 – 15 min.</p> |
| − | <p>- Incubate 2-5 min on ice.</p> | + | <p>- Heat shock 45-50 seconds at 42 °C. </p> |
| − | <p>- Add 300 - 500 μl of LB medium.</p> | + | <p>- Incubate 2-5 min on ice.</p> |
| − | <p>- Incubate at 37°C for 1 hour with shaking.</p> | + | <p>- Add 300 - 500 μl of LB medium.</p> |
| − | <p>- Plate 100 – 150 μl on prewarmed LB plate containing the proper antibiotic. Centrifuge the rest for 2 min at 5000 xg. Decant the supernatant and move the tube against hard surface to suspend the pellets in the residual medium. Plate the cells on another LB plate containing the proper antibiotic. </p> | + | <p>- Incubate at 37°C for 1 hour with shaking.</p> |
| − | <p>- Incubate LB plates at 37°C overnight.</p> | + | <p>- Plate 100 – 150 μl on prewarmed LB plate containing the proper antibiotic. Centrifuge the rest for 2 min at 5000 xg. Decant the supernatant and move the tube against hard surface to suspend the pellets in the residual medium. Plate the cells on another LB plate containing the proper antibiotic. </p> |
| − | <p>- Check plates for colonies growth.</p> | + | <p>- Incubate LB plates at 37°C overnight.</p> |
| − | <p> </p> | + | <p>- Check plates for colonies growth.</p> |
| − | <ul> | + | <p> </p> |
| − | <li>For positive control set up another transformation using an equal amount of a circular plasmid possessing the proper antibiotic resistance.</li> | + | <ul> |
| − | </ul> | + | <li>For positive control set up another transformation using an equal amount of a circular plasmid possessing the proper antibiotic resistance.</li> |
| − | <p> </p> | + | </ul> |
| − | <p> </p> | + | <p> </p> |
| + | <p> </p> | ||
| + | </div> | ||
<p><span style="font-size: x-large;"><strong><span style="color: #888888;">Preparation of competent <em>E.coli </em>cells</span></strong></span></p> | <p><span style="font-size: x-large;"><strong><span style="color: #888888;">Preparation of competent <em>E.coli </em>cells</span></strong></span></p> | ||
| − | < | + | <div id="menu8"> |
| − | <li><span style="font-size: medium;">Method 1: Low amount of competent cells</span></li> | + | <ul> |
| − | </ul> | + | <li><span style="font-size: medium;">Method 1: Low amount of competent cells</span></li> |
| − | <p>Materials:</p> | + | </ul> |
| − | <p>Buffer RF1 (150 ml): 1.44 g RbCl</p> | + | <p>Materials:</p> |
| − | <p>1.16 g MnCl<sub>2</sub>.4H<sub>2</sub>O</p> | + | <p>Buffer RF1 (150 ml): 1.44 g RbCl</p> |
| − | <p>3.6 ml Potassium acetate (1M)</p> | + | <p>1.16 g MnCl<sub>2</sub>.4H<sub>2</sub>O</p> |
| − | <p> pH 7.5 with acetic acid</p> | + | <p>3.6 ml Potassium acetate (1M)</p> |
| − | <p>Buffer RF2 (80 ml): 1.6 ml MOPS (0.5 M) stock solution</p> | + | <p> pH 7.5 with acetic acid</p> |
| − | <p> PH 6.8 with NaOH</p> | + | <p>Buffer RF2 (80 ml): 1.6 ml MOPS (0.5 M) stock solution</p> |
| − | <p> 0.096 g RbCl</p> | + | <p> PH 6.8 with NaOH</p> |
| − | <p> 0.88 g CaCl<sub>2</sub>.2H<sub>2</sub>O</p> | + | <p> 0.096 g RbCl</p> |
| − | <p>Procedure</p> | + | <p> 0.88 g CaCl<sub>2</sub>.2H<sub>2</sub>O</p> |
| − | <p>- Inoculate a 4 ml culture either with a single colony or with a cryoculture of the desired <em>E.coli </em>strainand incubate the culture with agitation overnight at 37°C</p> | + | <p>Procedure</p> |
| − | <p><sub>- </sub>Inoculate a 300 ml shake flask containing 100 ml LB medium with the overnight culture to an OD<sub>600</sub> of 0.05 and grow the culture at 37°C until the OD<sub>600</sub>is about 0.3</p> | + | <p>- Inoculate a 4 ml culture either with a single colony or with a cryoculture of the desired <em>E.coli </em>strainand incubate the culture with agitation overnight at 37°C</p> |
| − | <p>- Transfer the cells into two 50 ml falcon tubes, incubate the cultures for 15 minues on ice and harvest the cells by centrifugation for 15 min at 5000 rpm and 4°C. Discard the supernatants.</p> | + | <p><sub>- </sub>Inoculate a 300 ml shake flask containing 100 ml LB medium with the overnight culture to an OD<sub>600</sub> of 0.05 and grow the culture at 37°C until the OD<sub>600</sub>is about 0.3</p> |
| − | <p>- Resuspend the cells in 1/3 of the original volume (~16 ml/50 ml) of buffer RF1, incubate the cells again on ice and harvest the cells by centrifugation for 15 min at 5000 rpm and 4°C. Discard the supernatants.</p> | + | <p>- Transfer the cells into two 50 ml falcon tubes, incubate the cultures for 15 minues on ice and harvest the cells by centrifugation for 15 min at 5000 rpm and 4°C. Discard the supernatants.</p> |
| − | <p>- Resuspend the cells in 4 ml of buffer RF2 and incubate the suspensions for 15 min on ice. Prepare the Eppendorf tubes and liquid nitrogen.</p> | + | <p>- Resuspend the cells in 1/3 of the original volume (~16 ml/50 ml) of buffer RF1, incubate the cells again on ice and harvest the cells by centrifugation for 15 min at 5000 rpm and 4°C. Discard the supernatants.</p> |
| − | <p>- Put 0.4 ml of the cell suspension into the Eppendorf reaction tubes and freeze the cells by transferring them immediately to the liquid nitrogen. Store the competent cells at -80°C</p> | + | <p>- Resuspend the cells in 4 ml of buffer RF2 and incubate the suspensions for 15 min on ice. Prepare the Eppendorf tubes and liquid nitrogen.</p> |
| − | <p> </p> | + | <p>- Put 0.4 ml of the cell suspension into the Eppendorf reaction tubes and freeze the cells by transferring them immediately to the liquid nitrogen. Store the competent cells at -80°C</p> |
| − | <ul> | + | <p> </p> |
| − | + | <ul> | |
| − | </ul> | + | <li><span style="font-size: medium;">Method 2 (High amount of competent cells, time consuming)</span></li> |
| − | <p>Materials</p> | + | </ul> |
| − | <p>TB 3.46 g Piperazine-N,N'-bis(2-ethanesulfonic Acid) Pipes, 11 mM</p> | + | <p>Materials</p> |
| − | <p>2.2 g CaCl<sub>2</sub>.2H<sub>2</sub>O (15 mM)</p> | + | <p>TB 3.46 g Piperazine-N,N'-bis(2-ethanesulfonic Acid) Pipes, 11 mM</p> |
| − | <p>18.64 g KCl (250 mM)</p> | + | <p>2.2 g CaCl<sub>2</sub>.2H<sub>2</sub>O (15 mM)</p> |
| − | <p> PH 6.7, autoclave, add 55 ml MnCl<sub>2</sub> (1M, sterile) to a final volume of 1 l</p> | + | <p>18.64 g KCl (250 mM)</p> |
| − | <p>SOB-Mg 20 g/l tryptone (2%)</p> | + | <p> PH 6.7, autoclave, add 55 ml MnCl<sub>2</sub> (1M, sterile) to a final volume of 1 l</p> |
| − | <p> 5 g/l Yeast extract (0.5%)</p> | + | <p>SOB-Mg 20 g/l tryptone (2%)</p> |
| − | <p> 0.58 g/l NaCl (10 mM)</p> | + | <p> 5 g/l Yeast extract (0.5%)</p> |
| − | <p> 0.186 g/l KCl (2.5 mM)</p> | + | <p> 0.58 g/l NaCl (10 mM)</p> |
| − | <p> </p> | + | <p> 0.186 g/l KCl (2.5 mM)</p> |
| − | <p>SOB SOB-Mg</p> | + | <p> </p> |
| − | <p> 10 mM MgCl<sub>2</sub></p> | + | <p>SOB SOB-Mg</p> |
| − | <p>10 mM MgSO<sub>4</sub></p> | + | <p> 10 mM MgCl<sub>2</sub></p> |
| − | <p>LB liquid medium</p> | + | <p>10 mM MgSO<sub>4</sub></p> |
| − | <p>DMSO (Dimethyl sulfoxide)</p> | + | <p>LB liquid medium</p> |
| − | <p> </p> | + | <p>DMSO (Dimethyl sulfoxide)</p> |
| − | <p>Procedure:</p> | + | <p> </p> |
| − | <p>- Inoculate a 20 ml culture either with a single colony or with the cryoculture of the desired <em>E.coli </em>strainand incubate the culture with agitation for 20 h at 28°C</p> | + | <p>Procedure:</p> |
| − | <p>- Inoculate a 250 ml SOB medium supplemented in a 2 l shake flask and grow the cells to an OD<sub>600</sub> of 0.5- 0.9 (20-20 h) at 18°C and 200-250 rpm</p> | + | <p>- Inoculate a 20 ml culture either with a single colony or with the cryoculture of the desired <em>E.coli </em>strainand incubate the culture with agitation for 20 h at 28°C</p> |
| − | <p>- Incubate the whole flask for 10 min on ice. Collect the cells by centrifugation for 10 min at 4°C and 5000 rpm. Resuspend the cells in 80 ml of ice-cold TB and incubate them for 10 min on ice. Collect the cells by centrifugation for 5 min at 5000 rpm.</p> | + | <p>- Inoculate a 250 ml SOB medium supplemented in a 2 l shake flask and grow the cells to an OD<sub>600</sub> of 0.5- 0.9 (20-20 h) at 18°C and 200-250 rpm</p> |
| − | <p>- Resuspend the cells in a 20 ml of ice-cold TB. Add DMSO to a final concentration of 7% (1.4 ml) and gently shake the falcon tube.</p> | + | <p>- Incubate the whole flask for 10 min on ice. Collect the cells by centrifugation for 10 min at 4°C and 5000 rpm. Resuspend the cells in 80 ml of ice-cold TB and incubate them for 10 min on ice. Collect the cells by centrifugation for 5 min at 5000 rpm.</p> |
| − | <p>- Transfer 0.2 ml aliquots into labelled eppendorf reaction tubes and freeze the cells in liquid nitrogen. Store the cells at –80°C.</p> | + | <p>- Resuspend the cells in a 20 ml of ice-cold TB. Add DMSO to a final concentration of 7% (1.4 ml) and gently shake the falcon tube.</p> |
| − | <p> </p> | + | <p>- Transfer 0.2 ml aliquots into labelled eppendorf reaction tubes and freeze the cells in liquid nitrogen. Store the cells at –80°C.</p> |
| − | <p> </p> | + | <p> </p> |
| + | <p> </p> | ||
| + | </div> | ||
<p><span style="font-size: x-large; color: #828282;"><strong>Esterase activity test:</strong></span></p> | <p><span style="font-size: x-large; color: #828282;"><strong>Esterase activity test:</strong></span></p> | ||
| − | <p>Materials:</p> | + | <div id="menu9"> |
| − | <p>Substrate- 1mM 4-nitrophenyl butyrate prepared in Na-Phosphate buffer (pH8.0)</p> | + | <p>Materials:</p> |
| − | <p>Protein sample</p> | + | <p>Substrate- 1mM 4-nitrophenyl butyrate prepared in Na-Phosphate buffer (pH8.0)</p> |
| − | <p>Procedure:</p> | + | <p>Protein sample</p> |
| − | <p>- Add 2 µl of the protein sample to 2ml of the substrate and incubate for 5 minutes</p> | + | <p>Procedure:</p> |
| − | <p>- The colour change is observed which indicates the presence of the enzyme</p> | + | <p>- Add 2 µl of the protein sample to 2ml of the substrate and incubate for 5 minutes</p> |
| − | <p></p> | + | <p>- The colour change is observed which indicates the presence of the enzyme</p> |
| − | <p> </p> | + | <p></p> |
| − | <p></p> | + | <p> </p> |
| − | <p> </p> | + | <p></p> |
| + | <p> </p> | ||
| + | </div> | ||
<p><span style="font-size: x-large; color: #828282;"><strong>PCR Gel extraction, peqGOLD Gel Extraction Kit</strong></span></p> | <p><span style="font-size: x-large; color: #828282;"><strong>PCR Gel extraction, peqGOLD Gel Extraction Kit</strong></span></p> | ||
| − | <p> </p> | + | <div id="menu10"> |
| − | <p>- Fractionate DNA fragments by running a agarose gel (Do not stain the gel with Ethidium bromide or expose the DNA to UV for too long).</p> | + | <p> </p> |
| − | <p>- Add equal volume of Binding Buffer to the gel slice and incubate at 65ᵒC for 8 min. Vortex or mix every 2 to 3 min until the agarose dissolves completely. (0.2 g of gel equivalent to 0.2 ml)</p> | + | <p>- Fractionate DNA fragments by running a agarose gel (Do not stain the gel with Ethidium bromide or expose the DNA to UV for too long).</p> |
| − | <p>- Pour the mixture into PerfectBind DNA column (which is placed in a 2 ml collection tube) and centrifuge for 1 min at 10,000 x g.(max. 750 µl) Discard the flow-through and place the PerfectBind DNA column in the same tube. Repeat the steps if required.</p> | + | <p>- Add equal volume of Binding Buffer to the gel slice and incubate at 65ᵒC for 8 min. Vortex or mix every 2 to 3 min until the agarose dissolves completely. (0.2 g of gel equivalent to 0.2 ml)</p> |
| − | <p>- Add 300 µl of binding Buffer to the PerfectBind DNA column for the washing the contaminants and centrifuge for 1 min at 10,000 x g. Discard the flow-through and place the column in the same tube</p> | + | <p>- Pour the mixture into PerfectBind DNA column (which is placed in a 2 ml collection tube) and centrifuge for 1 min at 10,000 x g.(max. 750 µl) Discard the flow-through and place the PerfectBind DNA column in the same tube. Repeat the steps if required.</p> |
| − | <p>- Add 750 µl of CG Wash Buffer to the PerfectBind DNA column for the wash, incubate for 2 to 3 min and centrifuge for 1 min at 10,000 x g. Discard the flow-through and place the column in the same tube. Repeat this step once more.</p> | + | <p>- Add 300 µl of binding Buffer to the PerfectBind DNA column for the washing the contaminants and centrifuge for 1 min at 10,000 x g. Discard the flow-through and place the column in the same tube</p> |
| − | <p>- Centrifuge the PerfectBind DNA column once more in the 2 ml collection tube for 1 min at 10,000 x g to remove the residual wash buffer.</p> | + | <p>- Add 750 µl of CG Wash Buffer to the PerfectBind DNA column for the wash, incubate for 2 to 3 min and centrifuge for 1 min at 10,000 x g. Discard the flow-through and place the column in the same tube. Repeat this step once more.</p> |
| − | <p>- Place the PerfectBind DNA column in a clean 1.5 ml eppendorf tube.</p> | + | <p>- Centrifuge the PerfectBind DNA column once more in the 2 ml collection tube for 1 min at 10,000 x g to remove the residual wash buffer.</p> |
| − | <p>- Add 50 µl of pre-warmed sterile water to the PerfectBind DNA column and incubate for 2 to 3 min (normally in a 2 step process of 30 µl in first elution step and 20 µl in second elution step) and centrifuge at 5,000 x g for 1 min.</p> | + | <p>- Place the PerfectBind DNA column in a clean 1.5 ml eppendorf tube.</p> |
| − | <p>- Store the purified DNA at -20ᵒC.</p> | + | <p>- Add 50 µl of pre-warmed sterile water to the PerfectBind DNA column and incubate for 2 to 3 min (normally in a 2 step process of 30 µl in first elution step and 20 µl in second elution step) and centrifuge at 5,000 x g for 1 min.</p> |
| − | <p> </p> | + | <p>- Store the purified DNA at -20ᵒC.</p> |
| − | <p></p> | + | <p> </p> |
| + | <p></p> | ||
| + | </div> | ||
<p><span style="font-size: x-large; color: #828282;"><strong>Electroporation of BL21 cells with pJET_RFP</strong></span></p> | <p><span style="font-size: x-large; color: #828282;"><strong>Electroporation of BL21 cells with pJET_RFP</strong></span></p> | ||
| − | <p> </p> | + | <div id="menu11"> |
| − | <p>- Apply microdialysis for 30 -45 min by applying the transformation mixture (plasmid+buffer) on (Millipore® MF-Millipore™ DNA Fillter Paper for Dialysis of DNA and Proteins – capitol scientific) after placing the membrane on sterile water.</p> | + | <p> </p> |
| − | <p>- Defreeze 40 µl aliquots of chemically competent cells on ice</p> | + | <p>- Apply microdialysis for 30 -45 min by applying the transformation mixture (plasmid+buffer) on (Millipore® MF-Millipore™ DNA Fillter Paper for Dialysis of DNA and Proteins – capitol scientific) after placing the membrane on sterile water.</p> |
| − | <p>- Mix 50-200 ng DNA with the cells. (desalted)</p> | + | <p>- Defreeze 40 µl aliquots of chemically competent cells on ice</p> |
| − | <p>- Transfer the culture without any air bubbles into pre-cooled electroporation cuvettes (40 µl maximum) and incubate on ice for 10 minutes.</p> | + | <p>- Mix 50-200 ng DNA with the cells. (desalted)</p> |
| − | <p>- Electroporate using the electroporator with 1.25 mV, 5 decharge time.</p> | + | <p>- Transfer the culture without any air bubbles into pre-cooled electroporation cuvettes (40 µl maximum) and incubate on ice for 10 minutes.</p> |
| − | <p>- Immediately after electroporation, transfer 300 µl room temperature LB medium on top of the cells and transfer it into an 1.5ml fresh E-cup</p> | + | <p>- Electroporate using the electroporator with 1.25 mV, 5 decharge time.</p> |
| − | <p>- Incubate the culture for 1 hour at 37°C and 150 rpm</p> | + | <p>- Immediately after electroporation, transfer 300 µl room temperature LB medium on top of the cells and transfer it into an 1.5ml fresh E-cup</p> |
| − | <p><sup>- </sup>Spread a 100 µl from the dilution series (10<sup>-3</sup> to 10<sup>-6</sup>) on a pre-warmed LB plate containing ampicillin</p> | + | <p>- Incubate the culture for 1 hour at 37°C and 150 rpm</p> |
| − | <p><sup>- </sup>Incubate the plates overnight at 37°C </p> | + | <p><sup>- </sup>Spread a 100 µl from the dilution series (10<sup>-3</sup> to 10<sup>-6</sup>) on a pre-warmed LB plate containing ampicillin</p> |
| − | <p> </p> | + | <p><sup>- </sup>Incubate the plates overnight at 37°C </p> |
| − | + | <p> </p> | |
| + | </div> | ||
<p align="center"><span style="font-size: x-large; color: #828282;"><strong>Media preparation for cellulase activity screening</strong></span></p> | <p align="center"><span style="font-size: x-large; color: #828282;"><strong>Media preparation for cellulase activity screening</strong></span></p> | ||
| − | <p align="center"><span style="font-size: x-large; color: #828282;"><strong></strong></span></p> | + | <div id="menu12"> |
| − | <p><strong>A: LB_ agar base</strong></p> | + | <p align="center"><span style="font-size: x-large; color: #828282;"><strong></strong></span></p> |
| − | <ul> | + | <p><strong>A: LB_ agar base</strong></p> |
| − | + | <ul> | |
| − | </ul> | + | <li>Add the following components </li> |
| − | <p> </p> | + | </ul> |
| − | <table border="1" cellspacing="0" cellpadding="0"> | + | <p> </p> |
| − | + | <table border="1" cellspacing="0" cellpadding="0"> | |
| + | <tbody> | ||
<tr> | <tr> | ||
<td valign="top"> | <td valign="top"> | ||
| Line 493: | Line 527: | ||
</td> | </td> | ||
</tr> | </tr> | ||
| − | + | </tbody> | |
| − | </table> | + | </table> |
| − | <p> </p> | + | <p> </p> |
| − | <ul> | + | <ul> |
| − | + | <li>Make sure to put a stirrer in the bottle.</li> | |
| − | + | <li>Sterilize the culture medium by autoclaving at 121 <sup>o</sup>C for 20 min. </li> | |
| − | </ul> | + | </ul> |
| − | <p><strong> </strong></p> | + | <p><strong> </strong></p> |
| − | <p><strong>B: Substrate for cellulase screening</strong></p> | + | <p><strong>B: Substrate for cellulase screening</strong></p> |
| − | <p>In 15 ml falcon tube, the substrate with final concentration 1% (w/v) is prepared in 96% (v/v) ethanol. For-example, to prepare 10 ml stock solution, weight 0.1 g of AZCL-HE-Cellulose and transfer it to 15 ml falcon tube, then add 96% (v/v) ethanol until the volume reached 10 ml.</p> | + | <p>In 15 ml falcon tube, the substrate with final concentration 1% (w/v) is prepared in 96% (v/v) ethanol. For-example, to prepare 10 ml stock solution, weight 0.1 g of AZCL-HE-Cellulose and transfer it to 15 ml falcon tube, then add 96% (v/v) ethanol until the volume reached 10 ml.</p> |
| − | <p>The stock solution will be stored at +4 °C.</p> | + | <p>The stock solution will be stored at +4 °C.</p> |
| − | <p><strong>C: Prepare the agar plates</strong></p> | + | <p><strong>C: Prepare the agar plates</strong></p> |
| − | <p>When the medium cools down to around 60°C, put the bottle containing LB-agar base on a magnetic mixer. At the same time, disperse the substrate by flip the falcon tube several times. Then, pour the substrate into the LB-agar base gently until the substrate suspend evenly in the agar medium (For how much substrate should be poured, ask the supervisor). Other reagents like antibiotic can also be added. Ca. 3-5 ml substrate per Liter medium.</p> | + | <p>When the medium cools down to around 60°C, put the bottle containing LB-agar base on a magnetic mixer. At the same time, disperse the substrate by flip the falcon tube several times. Then, pour the substrate into the LB-agar base gently until the substrate suspend evenly in the agar medium (For how much substrate should be poured, ask the supervisor). Other reagents like antibiotic can also be added. Ca. 3-5 ml substrate per Liter medium.</p> |
| − | <p><strong>D: Preparation of agar plates contacting cellulose substrate</strong></p> | + | <p><strong>D: Preparation of agar plates contacting cellulose substrate</strong></p> |
| − | <p>After dispersing substrate and adding antibiotic to LB-agar , pour the medium quickly with continuous stirring onto the plates and make sure to make a thin layer of medium. Let the plates to dry and store them at 4 °C.</p> | + | <p>After dispersing substrate and adding antibiotic to LB-agar , pour the medium quickly with continuous stirring onto the plates and make sure to make a thin layer of medium. Let the plates to dry and store them at 4 °C.</p> |
| − | <p> </p> | + | <p> </p> |
| − | <p><strong>E: Another method of pouring Substrate for cellulase screening on to the agar plates</strong></p> | + | <p><strong>E: Another method of pouring Substrate for cellulase screening on to the agar plates</strong></p> |
| − | <p>Rather than using normal pouring method one can first prepare regular LB plates having just a thin layer of LB. After preparation of substrate for cellulase screening add ampicillin to it and then pour this mixture on top of this thin LB layer with constant stirring. Let the plates to dry and then store at 4 °C.</p> | + | <p>Rather than using normal pouring method one can first prepare regular LB plates having just a thin layer of LB. After preparation of substrate for cellulase screening add ampicillin to it and then pour this mixture on top of this thin LB layer with constant stirring. Let the plates to dry and then store at 4 °C.</p> |
| − | <p><strong> </strong></p> | + | <p><strong> </strong></p> |
| − | <p><strong> </strong></p> | + | <p><strong> </strong></p> |
| − | <p><strong> </strong></p> | + | <p><strong> </strong></p> |
| − | <p> </p> | + | <p> </p> |
| − | <p> </p> | + | <p> </p> |
| − | + | ||
| + | </div> | ||
<h2>Experiments & Protocols</h2> | <h2>Experiments & Protocols</h2> | ||
| Line 525: | Line 559: | ||
<h5>What should this page contain?</h5> | <h5>What should this page contain?</h5> | ||
<ul> | <ul> | ||
| − | <li> Protocols </li> | + | <li> Protocols </li> |
| − | <li> Experiments </li> | + | <li> Experiments </li> |
| − | <li>Documentation of the development of your project </li> | + | <li>Documentation of the development of your project </li> |
</ul> | </ul> | ||
| Line 534: | Line 568: | ||
<h4>Inspiration</h4> | <h4>Inspiration</h4> | ||
<ul> | <ul> | ||
| − | <li><a href="https://2014.igem.org/Team:Colombia/Protocols">2014 Colombia </a></li> | + | <li><a href="https://2014.igem.org/Team:Colombia/Protocols">2014 Colombia </a></li> |
| − | <li><a href="https://2014.igem.org/Team:Imperial/Protocols">2014 Imperial </a></li> | + | <li><a href="https://2014.igem.org/Team:Imperial/Protocols">2014 Imperial </a></li> |
| − | <li><a href="https://2014.igem.org/Team:Caltech/Project/Experiments">2014 Caltech </a></li> | + | <li><a href="https://2014.igem.org/Team:Caltech/Project/Experiments">2014 Caltech </a></li> |
</ul> | </ul> | ||
</div> | </div> | ||
</html> | </html> | ||
Revision as of 22:15, 10 September 2015
LB Medium
Plasmid Extraction - using peqGOLD Plasmid Miniprep Kit I (PEQLAB Technologies)
Plasmid Extraction - using QIAprep Spin Miniprep Kit (QIAGEN)
Blunt End Ligation in pJET1.2 vector –Clone JET PCR Cloning Kit–Thermo Scientific
TOPO® Cloning protocol using Champion™ pET Directional TOPO® Expression Kits. Thermo Fisher Scientific
PCR product purification using QIAquick® PCR Purification Kit (QIAGEN).
Plasmid transformation into Chemically Competent E. coli.
Preparation of competent E.coli cells
Esterase activity test:
PCR Gel extraction, peqGOLD Gel Extraction Kit
Electroporation of BL21 cells with pJET_RFP
Media preparation for cellulase activity screening
Experiments & Protocols
Describe the experiments, research and protocols you used in your iGEM project.
What should this page contain?
- Protocols
- Experiments
- Documentation of the development of your project