Difference between revisions of "Team:UCopenhagen/Collaborations"

 
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                     <img class="img-responsive" src="https://static.igem.org/mediawiki/2017/d/dc/Collab_UCopenhagen.jpg" alt="" width="250" height="200">
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  <figcaption><b>Figure 1 </b>Standard curve of fluorescein fluorescence.
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  <figcaption><b>Image 1 </b>Nordic iGEM teams during the final party of the Nordic iGEM Conference 2017.</figcaption>
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Fluorescence in arbitraty units (a.u.), fluorescein concentration in µM.</figcaption>
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                    <h2 class="section-heading">Introduction </h2>
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                    <p class="lead">We participated in InterLitab, as we want to be contribute to the scientific progress made through this globe spanning project. In InterLab, 6 test devices are inserted in <i>E.coli</i> D5 α, and the growth and fluorescence is measured. <br><br>
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We used the following plasmids provided by iGEM HQ to transform <i>E.coli</i>:
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<h2 class="section-heading">DTU Biobuilders’ BioBrick Weekend (February, 2017)</h2>
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<ul style="text-align:left; color:white;">
 
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<li>Positive control</li>
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<li>DTU-Denmark (Denmark)</li>
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<li>Negative control</li>
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<li>SDU-Denmark (Denmark)</li>
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<li>Test Device 1: J23101+I13504 </li>
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<li>NTNU Trondheim (Norway) </li>
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<li>Test Device 2: J23106+I13504 </li>
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<li>Chalmers-Gothenburg (Sweden) </li>
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<li>Test Device 3: J23117+I13504  </li>
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<li>Test Device 4: J23101.BCD2.E0040.B0015 </li>
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<li>Test Device 5: J23106.BCD2.E0040.B0015 </li>
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<li>Test Device 6: J23117.BCD2.E0040.B0015 </li>
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<p class="lead">An inspiring and practical three-day introduction to iGEM hosted by our friends and closest neighbours. Workshops covered the structure of the competition, hands-on laboratory experience in BioBrick assembly and debate of the ethical considerations surrounding synthetic biology.
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                     <h2 class="section-heading">Cell measurements </h2>
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                    <p class="lead">Two colonies from each transformation were picked, and grown in foil-covered 50 ml falcon tubes over night (18 hours). </p>
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<p class="lead"><strong>Preparation</strong> OD was measured, and a dilution was calculated to achieve an OD of 0.02. Dilution calculations can be found in the table next to this. Here we used the calculated correction factor from our initial abs/OD calibration. From the absorption measurements taken at 0 hours, we see indications of pipetting errors, as the OD<sub>600</sub> (average) ranges from 0.015 to 0.6 (table 1). </p>
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<figcaption><b>Image 2 </b>Incell at DTU Biobuilders’ BioBrick Weekend (February, 2017).</figcaption>
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     <caption><b>Table 1</b> Starting OD.</caption>
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<th scope="col"></th>
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        <th scope="col">Abs<sub>600</sub></th>
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        <th scope="col">OD<sub>600</sub> before</th>
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        <th scope="col">Volume (ml) added to 12 ml media</th>
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        <th scope="col">OD<sub>600</sub> after dilution (0 hours)</th>
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        <th scope="row">Negative Control (Colony 1)</th>
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        <td data-title="Abs600">0,461</td>
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        <td data-title="OD600 before">1,435</td>
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        <td data-title="Volume (ml) added to 12 ml media" data-type="currency">0,167</td>
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        <td data-title="OD600 after dilution (0 hours)" data-type="currency">0,06483974</td>
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      </tr>
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        <th scope="row">Negative Control (Colony 2)</th>
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        <td data-title="Abs600">0,463</td>
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        <td data-title="OD600 before">1,439</td>
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        <td data-title="Volume (ml) added to 12 ml media" data-type="currency">0,167</td>
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        <td data-title="OD600 after dilution (0 hours)" data-type="currency">0,02584249</td>
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        <th scope="row">Positive Control (Colony 1)</th>
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        <td data-title="Abs<sub>600</sub>">0,450</td>
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        <td data-title="OD<sub>600</sub> before">1,400</td>
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        <td data-title="Volume (ml) added to 12 ml media" data-type="currency">0,171</td>
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        <td data-title="OD<sub>600</sub> after dilution (0 hours)" data-type="currency">0,04467949</td>
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        <th scope="row">Positive Control (Colony 2)</th>
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        <td data-title="Abs<sub>600</sub>">0,474</td>
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        <td data-title="OD<sub>600</sub> before">1,475</td>
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        <td data-title="Volume (ml) added to 12 ml media" data-type="currency">0,163</td>
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        <td data-title="OD<sub>600</sub> after dilution (0 hours)" data-type="currency">0,01689103</td>
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      </tr>
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        <th scope="row">Test Device 1: J23101+I13504 (Colony 1)</th>
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        <td data-title="Abs<sub>600</sub>">0,462</td>
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        <td data-title="OD<sub>600</sub> before">1,437</td>
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        <td data-title="Volume (ml) added to 12 ml media" data-type="currency">0,167</td>
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        <td data-title="OD<sub>600</sub> after dilution (0 hours)" data-type="currency">0,03043498</td>
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      </tr>
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        <tr>
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        <th scope="row">Test Device 1: J23101+I13504 (Colony 2)</th>
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        <td data-title="Abs<sub>600</sub>">0,472</td>
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        <td data-title="OD<sub>600</sub> before">1,469</td>
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        <td data-title="Volume (ml) added to 12 ml media" data-type="currency">0,163</td>
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        <td data-title="OD<sub>600</sub> after dilution (0 hours)" data-type="currency">0,01977106</td>
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      </tr>
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        <th scope="row">Test Device 2: J23106+I13504 (Colony 1)</th>
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        <td data-title="Abs<sub>600</sub>">0,477</td>
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        <td data-title="OD<sub>600</sub> before">1,483</td>
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        <td data-title="Volume (ml) added to 12 ml media" data-type="currency">0,162</td>
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        <td data-title="OD<sub>600</sub> after dilution (0 hours)" data-type="currency">0,03175824</td>
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      </tr>
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        <tr>
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        <th scope="row">Test Device 2: J23106+I13504 (Colony 2)</th>
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        <td data-title="Abs<sub>600</sub>">0,454</td>
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        <td data-title="OD<sub>600</sub> before">1,410</td>
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        <td data-title="Volume (ml) added to 12 ml media" data-type="currency">0,170</td>
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        <td data-title="OD<sub>600</sub> after dilution (0 hours)" data-type="currency">0,018837</td>
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      </tr>
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          <tr>
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        <th scope="row">Test Device 3: J23117+I13504 (Colony 1)</th>
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        <td data-title="Abs<sub>600</sub>">0,507</td>
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        <td data-title="OD<sub>600</sub> before">1,577</td>
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        <td data-title="Volume (ml) added to 12 ml media" data-type="currency">0,152</td>
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        <td data-title="OD<sub>600</sub> after dilution (0 hours)" data-type="currency">0,03261447</td>
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      </tr>
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          <tr>
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        <th scope="row">Test Device 3: J23117+I13504 (Colony 2)</th>
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        <td data-title="Abs<sub>600</sub>">0,492</td>
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        <td data-title="OD<sub>600</sub> before">1,529</td>
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        <td data-title="Volume (ml) added to 12 ml media" data-type="currency">0,157</td>
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        <td data-title="OD<sub>600</sub> after dilution (0 hours)" data-type="currency">0,01471154</td>
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      </tr>
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        <th scope="row">Test Device 4: J23101.BCD2.E0040.B0015 (Colony 1)</th>
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        <td data-title="Abs<sub>600</sub>">0,420</td>
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        <td data-title="OD<sub>600</sub> before">1,307</td>
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        <td data-title="Volume (ml) added to 12 ml media" data-type="currency">0,184</td>
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        <td data-title="OD<sub>600</sub> after dilution (0 hours)" data-type="currency">0,03759615</td>
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      </tr>
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          <tr>
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        <th scope="row">Test Device 4: J23101.BCD2.E0040.B0015 (Colony 2)</th>
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        <td data-title="Abs600">0,472</td>
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        <td data-title="OD600 before">1,468</td>
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        <td data-title="Volume (ml) added to 12 ml media" data-type="currency">0,163</td>
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        <td data-title="OD600 after dilution (0 hours)" data-type="currency">0,01860348</td>
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      </tr>
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      <tr>
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        <th scope="row">Test Device 5: J23106.BCD2.E0040.B0015 (Colony 1)</th>
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        <td data-title="Abs600">0,513</td>
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        <td data-title="OD600 before">1,595</td>
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        <td data-title="Volume (ml) added to 12 ml media" data-type="currency">0,150</td>
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        <td data-title="OD600 after dilution (0 hours)" data-type="currency">0,04234432</td>
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      </tr>
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      <tr>
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        <th scope="row">Test Device 5: J23106.BCD2.E0040.B0015 (Colony 2)</th>
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        <td data-title="Abs600">0,467</td>
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        <td data-title="OD600 before">1,451</td>
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        <td data-title="Volume (ml) added to 12 ml media" data-type="currency">0,165</td>
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        <td data-title="OD600 after dilution (0 hours)" data-type="currency">0,01494505</td>
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        <th scope="row">Test Device 6: J23117.BCD2.E0040.B0015 (Colony 1)</th>
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        <td data-title="Abs600">0,482</td>
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        <td data-title="OD600 before">1,498</td>
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        <td data-title="Volume (ml) added to 12 ml media" data-type="currency">0,160</td>
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        <td data-title="OD600 after dilution (0 hours)" data-type="currency">0,04452381</td>
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        <th scope="row">Test Device 6: J23117.BCD2.E0040.B0015 (Colony 2)</th>
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        <td data-title="Abs600">0,455</td>
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        <td data-title="OD600 before">1,416</td>
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        <td data-title="Volume (ml) added to 12 ml media" data-type="currency">0,170</td>
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        <td data-title="OD600 after dilution (0 hours)" data-type="currency">0,02008242</td>
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<h2 class="section-heading">Nordic iGEM Conference (June, 2017)</h2>
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                    <h2 class="section-heading">OD<sub>600</sub </h2>
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    <p class="lead">
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<div class="clearfix"></div>
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<ul style="text-align:left; color:white;">
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<li>DTU-Denmark (Denmark)</li>
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<li>SDU-Denmark (Denmark)</li>
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<li>Stockholm (Sweden) </li>
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<li>Lund (Sweden)</li>
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<li>Uppsala University (Sweden)</li>
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<li>Chalmers-Gothenburg (Sweden) </li>
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<li>Aalto-Helsinki (Finland)</li>
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</ul>
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</p>
 
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<p class="lead">Cell growth stagnated between 4 and 6 hours. Cells transformed with Test Device 1 and 4 grew slower than the 6 other transformations, and even decreased in OD between 4 and 6 hours. Click on figures for enlarged images:</p>
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<p class="lead">In the tradition of the previous year’s winners hosting the following year’s conference, we had the pleasure to host teams from the Nordic region in Copenhagen. Teams had the opportunity to present their projects and receive questions and feedback from peers and judges. It was beneficial and a huge confidence boost for teams to be able to play with presentation strategy and get a feel for which parts of project stories gained traction and areas in need of development. All in a safe space in front of an audience of equals.
  
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    <img class="fblogo" border="0" alt="Graph1" src="https://static.igem.org/mediawiki/2017/d/d9/Graph1_InterLab.png"/></a>
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  <img src="https://static.igem.org/mediawiki/2017/6/69/BGraph1_InterLab_UCopenhagen.png">
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<figcaption><b>Image 3 </b>Will Wright at Nordic iGEM Conference (June, 2017).</figcaption>
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                    <h2 class="section-heading">Fluorescence</h2>
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<h2 class="section-heading">Incell podcast series (August–November, 2017)</h2>
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    <p class="lead">
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<ul style="text-align:left; color:white;">
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<li>Toronto (Canada)</li>
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<li>REC-CHENNAI (India)</li>
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</ul>
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</p>
 
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<p class="lead">Some transformed cells continue to increase fluorescence despite a decrease in OD in the same samples. Devices 3 and 6 are very close to the negative control in fluorescence. Click on figures for enlarged images:</p>
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<p class="lead">We have been and continue to be, very motivated in taking Incell beyond the lab. The Incell podcast series has enabled us to draw upon diverse scientific, non-scientific, cultural and environmental perspectives from around the world. Incell is an abstract, foundational science project and we felt it important for development to be in the spirit of the humanity we hope to serve. Collaborating with other teams from Canada and India enhanced our content, multiplied our audience and maximised the public outreach and human value of our work.
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                    <a href="https://soundcloud.com/user-552447321" style="background:transparent"><img class="img-responsive" src="https://static.igem.org/mediawiki/2017/7/73/Podcast_Incell.png" alt="" width="250" height="200"></a>
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<figcaption><b>Image 4 </b>Two first releases of Incell's podcast. </figcaption>
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                    <p class="lead">Our data indicate which plasmid elements induce the highest production of GFP.
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Plasmids containing J23117 (Test devices 3 and 6) does not express fluorescence to a higher degree than the negative control. Plasmids with J23101 (Device 1 and 4) induced the highest fluorescence, and plasmids containing J23106 (Test devices 2 and 5) were somewhere in between. Combining the J23101 or J23106 with I13504 (Test devices 1-3) gave a higher fluorescence than adding BCD2.E0040.B0015 (Test devices 4-6).
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<h2 class="section-heading">SDU Wiki writing workshop (August, 2017)</h2>
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<li>DTU-Denmark (Denmark)</li>
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<li>SDU-Denmark (Denmark)</li>
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<p class="lead">A brilliant day of workshops offering advice and inspiration for producing an effective and beautiful wiki. SDU are established leaders in producing exceptional iGEM wikis and their counsel proved indispensable when designing and creating our own. We added further value to the event — producing and sharing a video blog of the experience and take home messages with our social media network.
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These results are not reliable on their own, but will be more robust and reliable when combined with data from the other teams participating in the interlab study.  
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<figcaption><b>Image 5 </b>DTU BioBuilders, SDU iGEM and Incell</figcaption>
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Latest revision as of 23:25, 1 November 2017

C O L L A B O R A T I O N S

Collaboration is a powerful driver of progress in science. To stand on the shoulders of giants is increasingly unrealistic in a globalised world where scientists work in ever more specialised areas and without geographic or language barriers.

For science to continue to benefit from globalisation, we must advance the axiom and seek to build a human pyramid from the shoulders before and around us. Collaboration and open source data are at the heart of iGEM and so too the heart of Incell.

Below we describe our most significant collaborations within the iGEM community. The symbiosis we strive for in our project has shone brightly through the partnerships established with teams around the world. Our story — and the stories of our friends — have been mutually shaped by the diversity of our shared experiences, knowledge and perspectives.

Image 1 Nordic iGEM teams during the final party of the Nordic iGEM Conference 2017.

DTU Biobuilders’ BioBrick Weekend (February, 2017)

  • DTU-Denmark (Denmark)
  • SDU-Denmark (Denmark)
  • NTNU Trondheim (Norway)
  • Chalmers-Gothenburg (Sweden)



An inspiring and practical three-day introduction to iGEM hosted by our friends and closest neighbours. Workshops covered the structure of the competition, hands-on laboratory experience in BioBrick assembly and debate of the ethical considerations surrounding synthetic biology.




Image 2 Incell at DTU Biobuilders’ BioBrick Weekend (February, 2017).

Nordic iGEM Conference (June, 2017)

  • DTU-Denmark (Denmark)
  • SDU-Denmark (Denmark)
  • Stockholm (Sweden)
  • Lund (Sweden)
  • Uppsala University (Sweden)
  • Chalmers-Gothenburg (Sweden)
  • Aalto-Helsinki (Finland)


In the tradition of the previous year’s winners hosting the following year’s conference, we had the pleasure to host teams from the Nordic region in Copenhagen. Teams had the opportunity to present their projects and receive questions and feedback from peers and judges. It was beneficial and a huge confidence boost for teams to be able to play with presentation strategy and get a feel for which parts of project stories gained traction and areas in need of development. All in a safe space in front of an audience of equals.





Image 3 Will Wright at Nordic iGEM Conference (June, 2017).

Incell podcast series (August–November, 2017)

  • Toronto (Canada)
  • REC-CHENNAI (India)


We have been and continue to be, very motivated in taking Incell beyond the lab. The Incell podcast series has enabled us to draw upon diverse scientific, non-scientific, cultural and environmental perspectives from around the world. Incell is an abstract, foundational science project and we felt it important for development to be in the spirit of the humanity we hope to serve. Collaborating with other teams from Canada and India enhanced our content, multiplied our audience and maximised the public outreach and human value of our work.



Image 4 Two first releases of Incell's podcast.

SDU Wiki writing workshop (August, 2017)

  • DTU-Denmark (Denmark)
  • SDU-Denmark (Denmark)


A brilliant day of workshops offering advice and inspiration for producing an effective and beautiful wiki. SDU are established leaders in producing exceptional iGEM wikis and their counsel proved indispensable when designing and creating our own. We added further value to the event — producing and sharing a video blog of the experience and take home messages with our social media network.



Image 5 DTU BioBuilders, SDU iGEM and Incell

Find Incell here: