|
|
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| <script> | | <script> |
| $(document).ready(function(){ | | $(document).ready(function(){ |
- | $(".standard_headline").click(function(){ | + | $(".iso_whole_headline").click(function(){ |
- | $(".standard_protocol").toggle(); | + | $(".iso_whole").toggle(); |
| }); | | }); |
| $(".cyt_frag1_headline").click(function(){ | | $(".cyt_frag1_headline").click(function(){ |
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| $(".cyt_frag2").toggle(); | | $(".cyt_frag2").toggle(); |
| }); | | }); |
- | $(".cyt_frag3_headline").click(function(){
| + | |
- | $(".cyt_frag3").toggle();
| + | |
- | });
| + | |
- | $(".cyt_psb1c3_headline").click(function(){
| + | |
- | $(".cyt_psb1c3").toggle();
| + | |
- | });
| + | |
- | $(".cyt_mtrCAB_headline").click(function(){
| + | |
- | $(".cyt_mtrCAB").toggle();
| + | |
- | });
| + | |
- | $(".cyt_ccmAH_headline").click(function(){
| + | |
- | $(".cyt_ccmAH").toggle();
| + | |
- | });
| + | |
| }); | | }); |
| | | |
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| | | |
| <style type="text/css"> | | <style type="text/css"> |
- | .standard_protocol{display:none;} | + | .iso_whole{display:none;} |
| .cyt_frag1{display:none;} | | .cyt_frag1{display:none;} |
| .cyt_frag2{display:none;} | | .cyt_frag2{display:none;} |
- | .cyt_frag3{display:none;}
| |
- | .cyt_psb1c3{display:none;}
| |
- | .cyt_mtrCAB{display:none;}
| |
- | .cyt_ccmAH{display:none;}
| |
| .h1{color:#ff6600;} | | .h1{color:#ff6600;} |
| </style> | | </style> |
| | | |
| | | |
| + | <div id=globalwrapper style="padding-left:20px; padding-right:20px;"> |
| + | |
| + | <br><br> |
| + | <h1 style="color:#ff6600;"> Genetic enginering protocols</h1> |
| + | <br> |
| + | <!--<h2>Standard Protocols</h2> --> |
| + | <div class="iso_whole_headline"> |
| + | <a name="iso_whole"><span style="color:#ff6600">[Whole Genome Isolation]</span></a> |
| | | |
| | | |
| | | |
| | | |
- | <div id=globalwrapper style="padding-left:20px; padding-right:20px;">
| |
| | | |
- | <br><br><br> | + | </div> |
- | <h1>PCR Protocols and Programs</h1> | + | <div class="iso_whole"> |
| <br> | | <br> |
- | <h2>Standard Protocols</h2> | + | For the isolation following kit has been used: |
| + | Fermentas GeneJET™ Plasmid Miniprep Kit |
| + | |
| + | <p> - Centrifuge 10 mL of over-night liquid culture</p> |
| + | <p> - Resuspend pellet in 800 µL of resuspension solution</p> |
| + | <p> - Ribolyse three times for 60 s with 6500 rpm (30 s break between every run, 400 mg beads)</p> |
| + | <p> - Centrifuge 3 min at 10,000 rpm</p> |
| + | <p> - Transfer 500 µL of supernatant into new 2 mL tube</p> |
| + | <p> - Add 500 µL of lysis buffer, invert 4 - 6 times</p> |
| + | <p> - Add 700 µL of neutralisation buffer, invert 4 - 6 times</p> |
| + | <p> - Centrifuge 10 min at 12,000 rpm</p> |
| + | <p> - Transfer 2 x 600 µL of supernatant into spin column (centrifuge down each time for 30 s at 12,000 rpm)</p> |
| + | <p> - Two wash steps with 750 µL of washing buffer</p> |
| + | <p> - Dry column</p> |
| + | <p> - Elute in 75 µL of elution buffer</p> |
| + | <p> -</p> |
| + | <p> -</p> |
| + | <p> -</p> |
| + | <p> -</p> |
| <br> | | <br> |
- | <div class="standard_headline">
| |
- | <a name="standard_protocol"><span style="color:#ff6600">[Standard Protocols]</span> Standard protocols</span></a>
| |
- | </div>
| |
- | <div class="standard_protocol">
| |
- | <table border=1 style="float:left; padding-left:10px">
| |
- | <col width="150">
| |
- | <col width="50">
| |
- | <col width="50">
| |
- | <tr> <th>Reagent</th> <th>1x</th> <th>8x</th> </tr>
| |
- | <tr> <td>Hf-Buffer 5x</td> <td align="right">10.0</td> <td align="right">88.0</td> </tr>
| |
- | <tr> <td>dNTPs (10mM)</td> <td align="right">2.0</td> <td align="right">17.6</td> </tr>
| |
- | <tr> <td>Primer1 (10mM)</td> <td align="right">1.0</td> <td align="right">8.8</td> </tr>
| |
- | <tr> <td>Primer2 (10mM)</td> <td align="right">1.0</td> <td align="right">8.8</td> </tr>
| |
- | <tr> <td>Template (16.5ng)</td> <td align="right">3.0</td> <td align="right">26.4</td> </tr>
| |
- | <tr> <td>DMSO</td> <td align="right">4.0</td> <td align="right">35.2</td> </tr>
| |
- | <tr> <td>Phusion (0.5u)</td> <td align="right">1.0</td> <td align="right">8.8</td> </tr>
| |
- | <tr> <td>H2O</td> <td align="right">26.0</td> <td align="right">228.8</td> </tr>
| |
| | | |
- | </table>
| |
| | | |
- | <br><br><br><br><br><br><br><br><br><br><br> | + | <!-- |
| + | <p> -</p> |
| + | <p> -</p> |
| + | <p> -</p> |
| + | <p> -</p> |
| + | --> |
| + | <br> |
| </div> | | </div> |
| | | |
Line 172: |
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| </div> | | </div> |
| | | |
- |
| |
- | <div class="cyt_frag3_headline">
| |
- | <a name="cyt_frag3"><span style="color:#ff6600">[Cytochromes]</span> Phusion 50ul for mtrCAB Fragment3</span></a>
| |
- | </div>
| |
- | <div class="cyt_frag3">
| |
- | <table border=1 style="float:left; padding-left:10px">
| |
- | <col width="150">
| |
- | <col width="50">
| |
- | <col width="50">
| |
- | <tr> <th>Reagent</th> <th>1x</th> <th>8x</th> </tr>
| |
- | <tr> <td>Hf-Buffer 5x</td> <td align="right">10.0</td> <td align="right">88.0</td> </tr>
| |
- | <tr> <td>dNTPs (10mM)</td> <td align="right">2.5</td> <td align="right">22.0</td> </tr>
| |
- | <tr> <td>Primer1 (10mM)</td> <td align="right">1.0</td> <td align="right">8.8</td> </tr>
| |
- | <tr> <td>Primer2 (10mM)</td> <td align="right">1.0</td> <td align="right">8.8</td> </tr>
| |
- | <tr> <td>Template (5.5ng/ul)</td><td align="right">2.0</td> <td align="right">17.6</td> </tr>
| |
- | <tr> <td>DMSO</td> <td align="right">3.0</td> <td align="right">26.4</td> </tr>
| |
- | <tr> <td>Phusion (0.5u)</td> <td align="right">1.0</td> <td align="right">8.8</td> </tr>
| |
- | <tr> <td>H2O</td> <td align="right">29.5</td> <td align="right">259.6</td> </tr>
| |
- |
| |
- | </table>
| |
- |
| |
- | <table border=1 style="float:left; margin-left:20px">
| |
- | <col width="50">
| |
- | <col width="50">
| |
- | <col width="50">
| |
- | <col width="50">
| |
- | <col width="50">
| |
- | <tr><th colspan="5">Program Phusion</th></tr>
| |
- | <tr align="center"><td>98 °C</td><td>98 °C</td><td>70 °C</td><td>72 °C</td><td>72 °C</td></tr>
| |
- | <tr align="center"><td>30s</td> <td>10s</td><td>30s</td> <td>50s</td><td>6:00</td></tr>
| |
- | <tr><td></td><td colspan="3" align="center">35 cycles</td><td></td></tr>
| |
- | <tr><td colspan="5">
| |
- | <b><u>Notes:</u></b>
| |
- | <br>Size: 3000bp
| |
- | <br>Primer1:
| |
- | <br>Primer2:
| |
- | <br>
| |
- | </td></tr>
| |
- |
| |
- | </table>
| |
- | <br><br><br><br><br><br><br><br><br><br><br><br><br>
| |
- | </div>
| |
- |
| |
- | <div class="cyt_psb1c3_headline">
| |
- | <a name="cyt_psb1c3"><span style="color:#ff6600">[Cytochromes]</span> Phusion 50ul for psB1C3 with and without Gibson-overlap for mtrCAB </span></a>
| |
- | </div>
| |
- | <div class="cyt_psb1c3">
| |
- | <table border=1 style="float:left; padding-left:10px">
| |
- | <col width="150">
| |
- | <col width="50">
| |
- | <col width="50">
| |
- | <tr> <th>Reagent</th> <th>1x</th> <th>8x</th> </tr>
| |
- | <tr> <td>GC-Buffer 5x</td> <td align="right">10.0</td> <td align="right">88.0</td> </tr>
| |
- | <tr> <td>dNTPs (10mM)</td> <td align="right">2.0</td> <td align="right">17.6</td> </tr>
| |
- | <tr> <td>Primer1 (10mM)</td> <td align="right">1.25</td> <td align="right">11.0</td> </tr>
| |
- | <tr> <td>Primer2 (10mM)</td> <td align="right">1.25</td> <td align="right">11.0</td> </tr>
| |
- | <tr> <td>Template (5.5ng/ul)</td><td align="right">1.0</td> <td align="right">8.8</td> </tr>
| |
- | <tr> <td>DMSO</td> <td align="right">1.5</td> <td align="right">13.2</td> </tr>
| |
- | <tr> <td>Phusion (0.5u)</td> <td align="right">0.5</td> <td align="right">4.4</td> </tr>
| |
- | <tr> <td>H2O</td> <td align="right">32.5</td> <td align="right">286.0</td> </tr>
| |
- |
| |
- | </table>
| |
- |
| |
- | <table border=1 style="float:left; margin-left:20px">
| |
- | <col width="50">
| |
- | <col width="50">
| |
- | <col width="50">
| |
- | <col width="50">
| |
- | <col width="50">
| |
- | <tr><th colspan="5">Program Phusion</th></tr>
| |
- | <tr align="center"><td>98 °C</td><td>98 °C</td><td>70 °C</td><td>72 °C</td><td>72 °C</td></tr>
| |
- | <tr align="center"><td>45s</td> <td>30s</td><td>1:00</td> <td>45s</td><td>5:00</td></tr>
| |
- | <tr><td></td><td colspan="3" align="center">35 cycles</td><td></td></tr>
| |
- | <tr><td colspan="5">
| |
- | <b><u>Notes:</u></b>
| |
- | <br>Size: 2070bp
| |
- | <br>Primer1_Gibson:
| |
- | <br>Primer2_Gibson:
| |
- | <br>Primer1:
| |
- | <br>Primer2:
| |
- | <br>
| |
- | </td></tr>
| |
- |
| |
- | </table>
| |
- |
| |
- | <br><br><br><br><br><br><br><br><br><br><br><br><br>
| |
- | </div>
| |
- |
| |
- | <div class="cyt_mtrCAB_headline">
| |
- | <a name="cyt_mtrCAB"><span style="color:#ff6600">[Cytochromes]</span> Phusion 50ul for mtrCAB cluster </span></a>
| |
- | </div>
| |
- | <div class="cyt_mtrCAB">
| |
- | <table border=1 style="float:left; padding-left:10px">
| |
- | <col width="150">
| |
- | <col width="50">
| |
- | <col width="50">
| |
- | <tr> <th>Reagent</th> <th>1x</th> <th>8x</th> </tr>
| |
- | <tr> <td>Hf-Buffer 5x</td> <td align="right">10.0</td> <td align="right">88.0</td> </tr>
| |
- | <tr> <td>dNTPs (10mM)</td> <td align="right">2.5</td> <td align="right">22.0</td> </tr>
| |
- | <tr> <td>Primer1 (10mM)</td> <td align="right">1.0</td> <td align="right">8.8</td> </tr>
| |
- | <tr> <td>Primer2 (10mM)</td> <td align="right">1.0</td> <td align="right">8.8</td> </tr>
| |
- | <tr> <td>Template (5.5ng/ul)</td><td align="right">2.0</td> <td align="right">17.6</td> </tr>
| |
- | <tr> <td>DMSO</td> <td align="right">3.0</td> <td align="right">26.4</td> </tr>
| |
- | <tr> <td>Phusion (0.5u)</td> <td align="right">1.0</td> <td align="right">8.8</td> </tr>
| |
- | <tr> <td>H2O</td> <td align="right">29.5</td> <td align="right">259.6</td> </tr>
| |
- |
| |
- | </table>
| |
- |
| |
- | <table border=1 style="float:left; margin-left:20px">
| |
- | <col width="50">
| |
- | <col width="50">
| |
- | <col width="50">
| |
- | <col width="50">
| |
- | <col width="50">
| |
- | <tr><th colspan="5">Program Phusion</th></tr>
| |
- | <tr align="center"><td>98 °C</td><td>98 °C</td><td>60 °C</td><td>72 °C</td><td>72 °C</td></tr>
| |
- | <tr align="center"><td>30s</td> <td>10s</td><td>30s</td> <td>1:15</td><td>6:15</td></tr>
| |
- | <tr><td></td><td colspan="3" align="center">35 cycles</td><td></td></tr>
| |
- | <tr><td colspan="5">
| |
- | <b><u>Notes:</u></b>
| |
- | <br>Size: 5150bp
| |
- | <br>Primer1:
| |
- | <br>Primer2:
| |
- | <br>
| |
- | </td></tr>
| |
- |
| |
- | </table>
| |
- |
| |
- | <br><br><br><br><br><br><br><br><br><br><br><br><br>
| |
- | </div>
| |
- |
| |
- | <div class="cyt_ccmAH_headline">
| |
- | <a name="cyt_ccmAH"><span style="color:#ff6600">[Cytochromes]</span> Phusion 50ul for ccmAH cluster</span></a>
| |
- | </div>
| |
- | <div class="cyt_ccmAH">
| |
- | <table border=1 style="float:left; padding-left:10px">
| |
- | <col width="150">
| |
- | <col width="50">
| |
- | <col width="50">
| |
- | <tr> <th>Reagent</th> <th>1x</th> <th>8x</th> </tr>
| |
- | <tr> <td>Hf-Buffer 5x</td> <td align="right">10.0</td> <td align="right">88.0</td> </tr>
| |
- | <tr> <td>dNTPs (10mM)</td> <td align="right">2.0</td> <td align="right">17.6</td> </tr>
| |
- | <tr> <td>Primer1 (10mM)</td> <td align="right">1.0</td> <td align="right">8.8</td> </tr>
| |
- | <tr> <td>Primer2 (10mM)</td> <td align="right">1.0</td> <td align="right">8.8</td> </tr>
| |
- | <tr> <td>Template (5.5ng/ul)</td><td align="right">3.0</td> <td align="right">26.4</td> </tr>
| |
- | <tr> <td>DMSO</td> <td align="right">3.0</td> <td align="right">26.4</td> </tr>
| |
- | <tr> <td>Phusion (0.5u)</td> <td align="right">1.0</td> <td align="right">8.8</td> </tr>
| |
- | <tr> <td>H2O</td> <td align="right">29.5</td> <td align="right">255.2</td> </tr>
| |
- |
| |
- | </table>
| |
- |
| |
- | <table border=1 style="float:left; margin-left:20px">
| |
- | <col width="50">
| |
- | <col width="50">
| |
- | <col width="50">
| |
- | <col width="50">
| |
- | <col width="50">
| |
- | <tr><th colspan="5">Program Phusion</th></tr>
| |
- | <tr align="center"><td>98 °C</td><td>98 °C</td><td>68 °C</td><td>72 °C</td><td>72 °C</td></tr>
| |
- | <tr align="center"><td>30s</td> <td>10s</td><td>30s</td> <td>1:35</td><td>6:00</td></tr>
| |
- | <tr><td></td><td colspan="3" align="center">35 cycles</td><td></td></tr>
| |
- | <tr><td colspan="5">
| |
- | <b><u>Notes:</u></b>
| |
- | <br>Size: 6311bp
| |
- | <br>Primer1:
| |
- | <br>Primer2:
| |
- | <br>
| |
- | </td></tr>
| |
- |
| |
- | </table>
| |
- |
| |
- | <br><br><br><br><br><br><br><br><br><br><br><br><br>
| |
- | </div>
| |
| | | |
| | | |