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| - | <img src="https://static.igem.org/mediawiki/2014/thumb/b/b7/Tokyo_Tech_Logo.png/613px-Tokyo_Tech_Logo.png" height="150" /></h1></div>
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| - | <li><a href="https://2014.igem.org/Team:Tokyo_Tech">Home</a></li>
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| - | <li><a href="https://2014.igem.org/Team:Tokyo_Tech/Project">Project</a></li>
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| - | <li class="current_page_item"><a href="#">Experiment</a>
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| - | <ul>
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| - | <li><a href="https://2014.igem.org/Team:Tokyo_Tech/Experiment/C4HSL-dependent_3oxoC12HSL_production" style="width:400px; margin-left:-135px;">C4HSL-dependent 3oxoC12HSL production</a></li>
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| - | <li><a href="https://2014.igem.org/Team:Tokyo_Tech/Experiment/3oxoC12HSL-dependent_C4HSL_production" style="width:400px; margin-left:-135px;">3oxoC12HSL-dependent C4HSL production</a></li>
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| - | <li><a href="https://2014.igem.org/Team:Tokyo_Tech/Experiment/Symbiosis_confirmation_by_co-culture" style="width:400px; margin-left:-135px;">Symbiosis confirmation by co-culture </a></li>
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| - | <li><a href="https://2014.igem.org/Team:Tokyo_Tech/Experiment/Prhl_reporter_assay" style="width:400px; margin-left:-135px;">Prhl reporter assay </a></li>
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| - | <li><a href="#">Modeling</a>
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| - | <li><a href="https://2014.igem.org/Team:Tokyo_Tech/Modeling/Modeling1" style="width:260px; margin-left:-63px;">なぞなぞ</a></li>
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| - | <li><a href="https://2014.igem.org/Team:Tokyo_Tech/Modeling/Modeling2" style="width:260px; margin-left:-63px;">Parameter sensitivity analysis</a></li>
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| - | <li><a href="https://2014.igem.org/Team:Tokyo_Tech/Modeling/Modeling3" style="width:260px; margin-left:-63px;">The effect of economic wave</a></li>
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| - | <li><a href="https://igem.org/Team.cgi?id=1529" style="width:240px; margin-left:-53px;">Official Team Page</a></li>
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| - | <img src="https://static.igem.org/mediawiki/2014/thumb/b/b7/Tokyo_Tech_Logo.png/613px-Tokyo_Tech_Logo.png" height="150" /></h1></div>
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| - | <div align="right"><img src="https://static.igem.org/mediawiki/2014/b/b4/Tokyo_Tech_Logo2.png" height="150" /></div>
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| - | <h2 class="title">Experiment</h2>
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| - | <span class="meta">C4HSL-dependent 3OC12HSL production</span>
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| - | <div class="entry-long">
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| - | <p> </p>
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| - | <table width="900" border="0">
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| - | <tr>
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| - | <td width="890"><div align="center" class="title-small">C4HSL-dependent 3OC12HSL production module</div></td>
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| - | <td> </td>
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| - | <td> </td>
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| - | <td><h2>1. Summary of the experiment </h2></td>
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| - | <td><p class="info-18">Construction of the C4HSL-dependent 3OC12HSL production and chloramphenicol resistance expression module.</p> </td>
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| - | <td><p class="info-18">We created a symbiosis of Company E.coli and Customer E.coli for reproducing the situation in real economy. We used signaling molecules and antibiotics resistance gene ,and constructed signal-dependent signal production in our system. </p></td>
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| - | </tr>
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| - | <td><p class="info-18">For construction of the C4HSL-dependent chloramphenicol resistance (CmR) and 3OC12HSL production module, we constructed a new part Plux-CmR-lasI (BBa_). Plux-CmR-lasI cell is an engineered E.coli that contains a C4HSL-dependent lasI generator and a constitutive rhlR generator. We constructed a new Biobrick part Plux-CmR-lasI by combining Plux-CmR (BBa_K39562) and lasI (BBa_). As a constitutive rhlR generator, we used Pret-rhlR (BBa_S0319). In our bank story, this part is company. </p></td>
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| - | </tr>
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| - | <td><p class="head">1-1 C4HSL-dependent 3OC12HSL production </p></td>
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| - | </tr>
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| - | <td><p class="info-18">First, we performed a reporter assay by using Lux reporter cell to characterize the function of C4HSL-dependent 3OC12HSL production. As the negative control of 3OC12HSL production, we prepared 3OC12HSL non-producer cell. 3OC12HSL non-producer cell contains Plux-CmR instead of Plux-CmR-lasI. The cell of negative control does not produce 3OC12HSL even in the presence of C4HSL.</p></td>
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| - | <td> </td>
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| - | <td><p class="info-18">Sender</p></td>
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| - | </tr>
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| - | <td> </td>
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| - | <td><div align="center"><img src="http://sg.openrice.com/images/v4/previewimg/sr1-icon-noResult.png" alt="" width="600" /></div></td>
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| - | </tr>
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| - | <td><div align="center"><img src="http://sg.openrice.com/images/v4/previewimg/sr1-icon-noResult.png" alt="" width="600" /></div></td>
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| - | </tr>
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| - | <td><div align="center"><img src="http://sg.openrice.com/images/v4/previewimg/sr1-icon-noResult.png" alt="" width="600" /></div></td>
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| - | </tr>
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| - | <td> </td>
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| - | </tr>
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| - | <td><p class="info-18">Repoter</p></td>
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| - | </tr>
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| - | <td> </td>
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| - | <td><div align="center"><img src="http://sg.openrice.com/images/v4/previewimg/sr1-icon-noResult.png" alt="" width="600" /></div></td>
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| - | </tr>
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| - | <td><div align="center"><img src="http://sg.openrice.com/images/v4/previewimg/sr1-icon-noResult.png" alt="" width="600" /></div></td>
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| - | </tr>
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| - | <td><div align="center"><img src="http://sg.openrice.com/images/v4/previewimg/sr1-icon-noResult.png" alt="" width="600" /></div></td>
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| - | </tr>
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| - | <td> </td>
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| - | </tr>
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| - | <td><p class="info-18">We prepared four culture conditions as follow.</p></td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18"> A) Culture containing Plux-CmR-LasI cell with C4HSL induction</td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18"> B) Culture containing Plux-CmR-LasI cell without C4HSL induction</td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18"> C) Culture containing Plux-CmR cell with C4HSL induction</td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18"> D) Culture containing Plux-CmR cell without C4HSL induction</td>
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| - | </tr>
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| - | <tr>
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| - | <td><p class="info-18">The supernatants of this four different culture were used as the inducer in the reporter assay.</p></td>
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| - | </tr>
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| - | <td> </td>
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| - | <td><p class="info-18">In the reporter assay, we used a Lux reporter strain that contains Ptet-luxR and Plux-GFP. Also, a reporter cell that expresses GFP constitutively and a reporter cell that does not express GFP were used as the positive control and the negative control, respectively.</p></td>
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| - | <td> </td>
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| - | <td><p class="head">1-2 C4HSL-dependent growth</p></td>
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| - | </tr>
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| - | <tr>
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| - | <td><p class="info-18">The cell which contains Plux-CmR-lasI can grow in the medium containing chloramphenicol<br />
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| - | (Chloramphenicol is one of the antibiotics. ) </p></td>
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| - | </tr>
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| - | <tr>
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| - | <td><p class="info-18">After induction, we added chloramphenicol into the medium and measured optical density<br />
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| - | after induction.</p></td>
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| - | <td> </td>
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| - | <td><h2>2. Results</h2></td>
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| - | </tr>
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| - | <td> </td>
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| - | <td><p class="head">2-1 C4HSL-dependent 3OC12HSL production</p></td>
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| - | </tr>
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| - | <tr>
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| - | <td><p class="info-18">We measured the expression of GFP in the reporter cell by flow cytometer.</p></td>
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| - | </tr>
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| - | <tr>
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| - | <td><p class="head">2-2 C4HSL-dependent growth</p> </td>
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| - | </tr>
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| - | <td><p class="info-18">After induction, optical density were measured to estimate the concentration of the cell.</p></td>
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| - | </tr>
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| - | <td><div align="center"><a href="https://2014.igem.org/File:Tokyo_Tech_3-1-1.png"><img src="http://sg.openrice.com/images/v4/previewimg/sr1-icon-noResult.png" alt="" width="600" /></a></div></td>
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| - | </tr>
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| - | <td><div align="center">Fig. 3-1-1 </div></td>
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| - | <td> </td>
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| - | <td><div align="center"><a href="https://2014.igem.org/File:Tokyo_Tech_3-1-2.png"><img src="http://sg.openrice.com/images/v4/previewimg/sr1-icon-noResult.png" alt="" width="600" /></a></div></td>
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| - | <td><div align="center">Fig. 3-1-2 </div></td>
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| - | <td> </td>
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| - | <td><p class="info-18">explanation? </p> </td>
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| - | <td> </td>
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| - | <td><h2>3. Materials and methods</h2></td>
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| - | </tr>
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| - | <td> </td>
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| - | <td><p class="head">3-1 Construction</p></td>
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| - | <td><p class="head">-Strain</p></td>
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| - | <td><p class="info-18">All the samples were JM2.300 strain</p></td>
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| - | <td><p class="head">-Plasmids</p></td>
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| - | <td> </td>
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| - | <td><p class="head">3-2 </p></td>
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| - | <td><p class="info-18" style="text-indent:0px;">3-2-1. C4HSL-dependent 3OC12HSL production assay by using reporter assay</p></td>
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| - | </tr>
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| - | <td><p class="info-18">Prepare the supernatant of the sender cell</p></td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18">1. Grow the colony of sender cell in LB containing antibiotic O/N at 37°C.</td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18">2. Make a 1:100 dilution in 3 mL of fresh LB containing antibiotic and grow the cells at 37C until the observed OD590 reaches 0.5. </td>
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| - | </tr>
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| - | <td class="info-18">3. Centrifuge 1mL of the sample at 5000g, RT for 1 minute.</td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18">4. Suspend the pellet in<u> </u><u>1 mL of LB containing Ampicillin</u><u>（</u><u>50μg/mL</u><u>）</u><u>and Kanamycin(30μg/mL) .</u></td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18">5. Add 30µL of suspension in the following medium.</td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18"> Add 30µL of 500µM C12HSL to 3mL LB containing Amp and Kan</td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18"> Add 30µL DMSO to 3mL of LB containing Amp and Kan </td>
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| - | </tr>
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| - |
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| - | <tr>
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| - | <td class="info-18">6. Grow the samples of sender cell at 37°C for 4 hours.</td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18">7. Measure optical density every hour. (If optical density is over 1.0, dilute the cell medium.)</td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18">8. Centrifuge sample at 9000g, 4°C for 1minute. Filter sterilize supernatant.</td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18">9. Use the supernatant in reporter assay.</td>
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| - | <td class="info-18"> </td>
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| - | <td><p class="info-18"><strong>Reporter Assay</strong></p></td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18">1. Grow the colony of Reporter cell(D～F) in LB containing antibiotic O/N at 37°C.</td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18">2. Make a 1:100 dilution in 3 mL of fresh LB+ antibiotic and grow the cells at 37°C until you reach an 0.5 OD590. (fresh culture).</td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18">3. Centrifuge sample at 5000g, 25°C RT for 1 minute. Discard the supernatant.</td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18">4. Suspended the sample in 3 mL of LB containing Ampicillin(50μg/mL) and Kanamycin(30μg/mL).</td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18">5. Add 30µL of suspension in the following medium.</td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18"> Filtrate of A①＋3mL of LB containing Amp and Kan</td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18"> Filtrate of A②＋3mL of LB containing Amp and Kan</td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18"> Filtrate of B①＋3mL of LB containing Amp and Kan</td>
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| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td class="info-18"> Filtrate of B②＋3mL of LB containing Amp and Kan</td>
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| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td class="info-18"> Filtrate of C①＋3mL of LB containing Amp and Kan</td>
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| - | </tr>
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| - | <tr>
| + | |
| - | <td class="info-18"> Filtrate of C②＋3mL of LB containing Amp and Kan</td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18"> 3OC12HSL＋3mL of LB containing Amp and Kan</td>
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| - | </tr>
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| - | <tr>
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| - | <td class="info-18"> DMSO + 3mL of LB containing Amp and Kan</td>
| + | |
| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td class="info-18">6. Grow the samples of Reporter cell in incubator at 37°C for 4 hours.</td>
| + | |
| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td class="info-18">7. Start preparing the flow cytometer 1 h before the end of incubation.</td>
| + | |
| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td class="info-18">8. Take 200 microL of the sample, and centrifuge at 9000 Xg, 1 min, 4°C.</td>
| + | |
| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td class="info-18">9. Remove the supernatant by using P1000 pipette.</td>
| + | |
| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td class="info-18">10. Add 1 mL of filtered PBS (phosphate-buffered saline) and suspend.</td>
| + | |
| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td class="info-18">11. Dispense all of each suspension into a disposable tube through a cell strainer.</td>
| + | |
| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td class="info-18">12. Use flow cytometer to measure the fluorescence of GFP. (We used BD FACSCaliburTM Flow Cytometer of Becton, Dickenson and Company).</td>
| + | |
| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td class="info-18"> </td>
| + | |
| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td class="head"><p>3-2-2. C4HSL-depemdent CmR expression</p></td>
| + | |
| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td class="info-18">1. Grow the colony of sender cell in LB containing antibiotic O/N at 37°C.</td>
| + | |
| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td class="info-18">2. Make a 1:100 dilution in 3 mL of fresh LB containig antibiotic and grow the cells at 37°C until the observed OD590 reaches 0.5 (fresh culture).</td>
| + | |
| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td class="info-18">3. Centrifuge 1mL of the sample at 5000g, RT for 1 minute.</td>
| + | |
| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td class="info-18">4. Suspend the pellet in <u>1 mL of LB containing Ampicillin（50 microg/mL）and Kanamycin(30 microg/mL)</u></td>
| + | |
| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td class="info-18">5. Add 30µL of suspension in the following medium.</td>
| + | |
| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td class="info-18"> Add 3µL of 5µM C12HSL to 3mL LB containing Amp, Kan(concentration is described upper) and Cm(100 microg /mL).</td>
| + | |
| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td class="info-18"> Add 3microL DMSO to 3mL of LB containing Amp and Kan.</td>
| + | |
| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td class="info-18">6. Grow the samples of sender cell at 37°C for 4 hours.</td>
| + | |
| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td class="info-18">7. Measure optical density every hour. (If optical density is over 1.0, dilute the cell medium.)</td>
| + | |
| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td class="info-18"> </td>
| + | |
| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td><h2>4. Reference</h2></td>
| + | |
| - | </tr>
| + | |
| - | <tr>
| + | |
| - | <td class="info-18"> </td>
| + | |
| - | </tr>
| + | |
| - | </table>
| + | |
| - | <p> </p>
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