Difference between revisions of "Team:HUST-China/Basic Part"

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{{HUST-China}}
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<h3>★  ALERT! </h3>
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<p>This page is used by the judges to evaluate your team for the <a href="https://2016.igem.org/Judging/Awards#Special_Prizes">basic part special prize</a>. </p>
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                                <li><a href="https://2016.igem.org/Team:HUST-China/project/background">Background</a></li>
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                                <li><a href="https://2016.igem.org/Team:HUST-China/Description">Description</a></li>
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                                <li><a href="https://2016.igem.org/Team:HUST-China/project/inprovement">Previous improvement</a></li>
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A <b>basic part</b> is a functional unit of DNA that cannot be subdivided into smaller component parts. <a href="http://parts.igem.org/wiki/index.php/Part:BBa_R0051">BBa_R0051</a> is an example of a basic part, a promoter regulated by lambda cl.
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                                <li><a href="https://2016.igem.org/Team:HUST-China/Safety">Safety</a></li>
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                        </li>
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<p>Most genetically-encoded functions have not yet been converted to BioBrick parts. Thus, there are <b>many</b> opportunities to find new, cool, and important genetically encoded functions, and refine and convert the DNA encoding these functions into BioBrick standard biological parts. </p>
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                                <li><a href="https://2016.igem.org/Team:HUST-China/Experiments">Experiments</a></li>
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                                <li><a href="https://2016.igem.org/Team:HUST-China/Results">Results</a></li>
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                                <li><a href="https://2016.igem.org/Team:HUST-China/wetlab/protocols">Protocols</a></li>
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<h4>Note</h4>
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                            </ul>
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<p>This page should list all the basic parts your team has made during your project. You must add all characterization information for your parts on the Registry. You should not put characterization information on this page.</p>
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                                <li><a href="https://2016.igem.org/Team:HUST-China/Model">Overview</a></li>
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                                <li><a href="https://2016.igem.org/Team:HUST-China/Model/model-pro">Prokaryotic circuit</a></li>
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                                <li><a href="https://2016.igem.org/Team:HUST-China/Model/model-euk">Eukaryotic circuit</a></li>
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                                <li><a href="https://2016.igem.org/Team:HUST-China/Model/model-app">Application circuit</a></li>
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            <h2 class="text-center">Basic Part</h2>
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            <p  style="color:#fff;margin-bottom:10px;text-align:center;">Following documented basic parts are respectively from three circuits this year:</p>
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            <div class="ref"></div>
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            <article>
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                <h2>Prokaryotic Version of Signal Filter</h2>
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                <img src="https://static.igem.org/mediawiki/2016/8/88/T--HUST-China--Description-Fig-Eukaryote.png" alt="">
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                <h3>Transcriptional Regulation:</h3>
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                <table align="center" border="1">
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                    <tr>
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                        <td>Part Number</td>
 +
                        <td>Name</td>
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                        <td>Description</td>
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                    </tr>
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                    <tr>
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                        <td><a href="http://parts.igem.org/Part:BBa_K2036000"> BBa_K2036000 </a></td>
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                        <td> RBS-CII </td>
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                        <td> A protein in bacteriophage λ operon which can activate promoter RE.</td>
 +
                    </tr>
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                    <tr>
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                        <td><a href="http://parts.igem.org/Part:BBa_K2036001"> BBa_K2036001 </a></td>
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                        <td> CIII </td>
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                        <td> A protein in bacteriophage λ operon which can free CII from its inhibitor, FtsH.</td>
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                    </tr>
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                    <tr>
 +
                        <td><a href="http://parts.igem.org/Part:BBa_K2036006"> BBa_K2036006 </a></td>
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                        <td> RBS-CIII </td>
 +
                        <td> A protein in bacteriophage λ operon which can free CII from its inhibitor, FtsH.</td>
 +
                    </tr>
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                </table>
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                <p>Note: We didn’t submit the single parts of pRE, pRM and pR because they are too small to construct, but we have constructed and submitted the composite type of them, using GFP as the report gene in the characterization pathways.</p>
 +
                <h3>Protein&Promoter Interaction:</h3>
 +
                <img src="https://static.igem.org/mediawiki/2016/0/06/T--HUST-China--Experiments-Fig10.png" alt="">
 +
                <table align="center" border="1">
 +
                    <tr>
 +
                        <td>Part Number</td>
 +
                        <td>Name</td>
 +
                        <td>Description</td>
 +
                    </tr>
 +
                    <tr>
 +
                        <td><a href="http://parts.igem.org/Part:BBa_K2036007"> BBa_K2036007 </a></td>
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                        <td>RBS-CII-RBS-CII</td>
 +
                        <td>A protein in bacteriophage λ operon which can activate promoter RE. We use tandem to amplify its function.</td>
 +
                    </tr>
 +
                    <tr>
 +
                        <td><a href="http://parts.igem.org/Part:BBa_K2036012"> BBa_K2036012 </a></td>
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                        <td>RBS-CII-TT</td>
 +
                        <td>A protein in bacteriophage λ operon which can activate promoter RE. We use tandem to amplify its function.</td>
 +
                    </tr>
 +
                    <tr>
 +
                        <td><a href="http://parts.igem.org/Part:BBa_K2036011"> BBa_K2036011 </a></td>
 +
                        <td>pRE-GFP-LVAssrAtag</td>
 +
                        <td>The report part of the characterization pathway and it’s used to characterize promoter RE.</td>
 +
                    </tr>
 +
                    <tr>
 +
                        <td><a href="http://parts.igem.org/Part:BBa_K2036032"> BBa_K2036032 </a></td>
 +
                        <td>CII-TT-pRE-RBS-GFP-LVAssrAtag</td>
 +
                        <td>To characterize function of CII.</td>
 +
                    </tr>
 +
                </table>
 +
                <h3>Protein&Protein Interaction:</h3>
 +
                <img src="https://static.igem.org/mediawiki/2016/f/f9/T--HUST-China--Experiments-Fig6.png" alt="">
 +
                <table align="center" border="1">
 +
                    <tr>
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                        <td>Part Number</td>
 +
                        <td>Name</td>
 +
                        <td>Description</td>
 +
                    </tr>
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                    <tr>
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                        <td><a href="http://parts.igem.org/Part:BBa_K2036007"> BBa_K2036007 </a></td>
 +
                        <td> RBS-CII-RBS-CII </td>
 +
                        <td> A protein in bacteriophage λ operon which can activate promoter RE. We use tandem to amplify its function.</td>
 +
                    </tr>
 +
                    <tr>
 +
                        <td><a href="http://parts.igem.org/Part:BBa_K2036008"> BBa_K2036008 </a></td>
 +
                        <td> RBS-CIII-RBS-CIII </td>
 +
                        <td> A protein in bacteriophage λ operon which can free CII from its inhibitor, FtsH. We use tandem to amplify its function.</td>
 +
                    </tr>
 +
                    <tr>
 +
                        <td><a href="http://parts.igem.org/Part:BBa_K2036013"> BBa_K2036013 </a></td>
 +
                        <td> RBS-CII-TT-pRE-RBS-GFP-LVAssrAtag </td>
 +
                        <td> To characterize CII’s function.</td>
 +
                    </tr>
 +
                </table>
 +
                <p>Note: CIII and CII circuit above shares the same assembly composition of pRE-RBS-GFP-LVAssrAtag with CII and pRE characterization circuit so the part is not listed repeatedly.</p>
 +
                <h3>Tri-stable Function:</h3>
 +
                <img src="https://static.igem.org/mediawiki/2016/1/17/T--HUST-China--Experiments-Fig14.png" alt="">
 +
                <table align="center" border="1">
 +
                    <tr>
 +
                        <td>Part Number</td>
 +
                        <td>Name</td>
 +
                        <td>Description</td>
 +
                    </tr>
 +
                    <tr>
 +
                        <td><a href="http://parts.igem.org/Part:BBa_K2036018"> BBa_K2036018 </a></td>
 +
                        <td> pRE-RBS-Cro-RBS-CII-TT-ptrp </td>
 +
                        <td> Used to construct the circuit. A part of the positive-feedback system.</td>
 +
                    </tr>
 +
                    <tr>
 +
                        <td><a href="http://parts.igem.org/Part:BBa_K2036019"> BBa_K2036019 </a></td>
 +
                        <td> RFP-LAAssrAtag-TT-pRM-RBS-GFP-LVAssrAtag </td>
 +
                        <td> The report part of the circuit.RFP is used as gene of interest 1 and GFP as gene of interest 2.</td>
 +
                    </tr>
 +
                    <tr>
 +
                        <td><a href="http://parts.igem.org/Part:BBa_K2036020"> BBa_K2036020 </a></td>
 +
                        <td> RBS-CI-TT-pR-RBS-CIII-RBS-RFP-LAAssrAtag-TT-pRM-RBS-GFP-LVAssrAtag </td>
 +
                        <td> Used to construct the circuit.</td>
 +
                    </tr>
 +
                </table>
 +
                <h2>Eukaryotic Version of Signal Filter</h2>
 +
                <h3>Functional Protein and Promoter:</h3>
 +
                <img src="https://static.igem.org/mediawiki/2016/1/1e/T--HUST-China--Description-Fig-prokaryote.png" alt="">
 +
                <table align="center" border="1">
 +
                    <tr>
 +
                        <td>Part Number</td>
 +
                        <td>Name</td>
 +
                        <td>Description</td>
 +
                    </tr>
 +
                    <tr>
 +
                        <td><a href="http://parts.igem.org/Part:BBa_K2036005"> BBa_K2036005 </a></td>
 +
                        <td> PP2CA </td>
 +
                        <td> Clade A protein phosphatases type 2C which can dephosphorylate ABF2.</td>
 +
                    </tr>
 +
                    <tr>
 +
                        <td><a href="http://parts.igem.org/Part:BBa_K2036004"> BBa_K2036004 </a></td>
 +
                        <td> ABF2</td>
 +
                        <td> A leucine zipper transcription factor which can activate Prd29A.</td>
 +
                    </tr>
 +
                    <tr>
 +
                        <td><a href="http://parts.igem.org/Part:BBa_K2036003"> BBa_K2036003 </a></td>
 +
                        <td> SnRK2.2</td>
 +
                        <td> Sucrose Nonfermenting1 Related Subfamily2 (SnRK2s) protein kinase which can phosphorylate ABF2.</td>
 +
                    </tr>
 +
                    <tr>
 +
                        <td><a href="http://parts.igem.org/Part:BBa_K2036002"> BBa_K2036002 </a></td>
 +
                        <td> Prd29A </td>
 +
                        <td> A promoter in the Abscisic Acid signaling network which can be activated by ABF2.</td>
 +
                    </tr>
 +
                </table>
 +
                <h3>Bi-stable Function</h3>
 +
                <img src="https://static.igem.org/mediawiki/2016/b/be/T--HUST-China--Experiments-Fig4-2.png" alt="" class="half_width"><img src="https://static.igem.org/mediawiki/2016/b/be/T--HUST-China--Experiments-Fig4-2.png" alt="" class="half_width">
 +
                <table align="center" border="1">
 +
                    <tr>
 +
                        <td>Part Number</td>
 +
                        <td>Name</td>
 +
                        <td>Description</td>
 +
                    </tr>
 +
                    <tr>
 +
                        <td><a href="http://parts.igem.org/Part:BBa_K2036025"> BBa_K2036025 </a></td>
 +
                        <td> Kozak-Snrk2.2-TTADH1-pCyc </td>
 +
                        <td> Used to construct the circuit.</td>
 +
                    </tr>
 +
                    <tr>
 +
                        <td><a href="http://parts.igem.org/Part:BBa_K2036029"> BBa_K2036029 </a></td>
 +
                        <td> Kozak-ABF2-TTADH1-Prd29A-Kozak-GFP-LVAssrAtag </td>
 +
                        <td> The report part of the circuit.GFP is used as gene of interest.</td>
 +
                    </tr>
 +
                    <tr>
 +
                        <td><a href="http://parts.igem.org/Part:BBa_K2036031"> BBa_K2036031 </a></td>
 +
                        <td> PP2CA-TTADH1-pCyc </td>
 +
                        <td> Used to construct the circuit.</td>
 +
                    </tr>
 +
                </table>
 +
                <h2>Application of Signal Filter</h2>
 +
                <img src="https://static.igem.org/mediawiki/2016/a/a3/T--HUST-China--modeling-application.png" alt="">
 +
                <table align="center" border="1">
 +
                    <tr>
 +
                        <td>Part Number</td>
 +
                        <td>Name</td>
 +
                        <td>Description</td>
 +
                    </tr>
 +
                    <tr>
 +
                        <td><a href="http://parts.igem.org/Part:BBa_K2036021"> BBa_K2036021 </a></td>
 +
                        <td> placm-pRE-RBS-Cro-RBS-CII-TT </td>
 +
                        <td> Used to construct the circuit. A part of the positive-feedback system. placm can respond to lactose signal.</td>
 +
                    </tr>
 +
                    <tr>
 +
                        <td><a href="http://parts.igem.org/Part:BBa_K2036022"> BBa_K2036022 </a></td>
 +
                        <td> patp2-RBS-CI-TT-pR-RBS-CIII </td>
 +
                        <td> Used to construct the circuit. Patp2 can respond to base signal.</td>
 +
                    </tr>
 +
                    <tr>
 +
                        <td><a href="http://parts.igem.org/Part:BBa_K2036023"> BBa_K2036023 </a></td>
 +
                        <td> RBS-iLDH-TT-pRM-RBS-beta-galactosidase </td>
 +
                        <td> The report part of the application circuit.iLDH is used as gene of interest 1 and beta-galactosidase as gene of interest 2.</td>
 +
                    </tr>
 +
                    <tr>
 +
                        <td><a href="http://parts.igem.org/Part:BBa_K2036028"> BBa_K2036028 </a></td>
 +
                        <td>placm-pRE-RBS-Cro-RBS-CII-TT-patp2-RBS-CI-TT-pR-RBS-CIII-RBS-ompA-iLDH-TT-pRM-RBS-beta-galactosidase </td>
 +
                        <td> The whole circuit of the application.</td>
 +
                    </tr>
 +
                </table>
 +
            </article>
 +
        </div>
 +
    </div>
 +
    <div class="returnTop">
 +
        <img src="https://static.igem.org/mediawiki/2016/f/f0/T--HUST-China--returnTop.png" alt="">
 +
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Latest revision as of 23:36, 19 October 2016

Parts

Basic Part

Following documented basic parts are respectively from three circuits this year:

Prokaryotic Version of Signal Filter

Transcriptional Regulation:

Part Number Name Description
BBa_K2036000 RBS-CII A protein in bacteriophage λ operon which can activate promoter RE.
BBa_K2036001 CIII A protein in bacteriophage λ operon which can free CII from its inhibitor, FtsH.
BBa_K2036006 RBS-CIII A protein in bacteriophage λ operon which can free CII from its inhibitor, FtsH.

Note: We didn’t submit the single parts of pRE, pRM and pR because they are too small to construct, but we have constructed and submitted the composite type of them, using GFP as the report gene in the characterization pathways.

Protein&Promoter Interaction:

Part Number Name Description
BBa_K2036007 RBS-CII-RBS-CII A protein in bacteriophage λ operon which can activate promoter RE. We use tandem to amplify its function.
BBa_K2036012 RBS-CII-TT A protein in bacteriophage λ operon which can activate promoter RE. We use tandem to amplify its function.
BBa_K2036011 pRE-GFP-LVAssrAtag The report part of the characterization pathway and it’s used to characterize promoter RE.
BBa_K2036032 CII-TT-pRE-RBS-GFP-LVAssrAtag To characterize function of CII.

Protein&Protein Interaction:

Part Number Name Description
BBa_K2036007 RBS-CII-RBS-CII A protein in bacteriophage λ operon which can activate promoter RE. We use tandem to amplify its function.
BBa_K2036008 RBS-CIII-RBS-CIII A protein in bacteriophage λ operon which can free CII from its inhibitor, FtsH. We use tandem to amplify its function.
BBa_K2036013 RBS-CII-TT-pRE-RBS-GFP-LVAssrAtag To characterize CII’s function.

Note: CIII and CII circuit above shares the same assembly composition of pRE-RBS-GFP-LVAssrAtag with CII and pRE characterization circuit so the part is not listed repeatedly.

Tri-stable Function:

Part Number Name Description
BBa_K2036018 pRE-RBS-Cro-RBS-CII-TT-ptrp Used to construct the circuit. A part of the positive-feedback system.
BBa_K2036019 RFP-LAAssrAtag-TT-pRM-RBS-GFP-LVAssrAtag The report part of the circuit.RFP is used as gene of interest 1 and GFP as gene of interest 2.
BBa_K2036020 RBS-CI-TT-pR-RBS-CIII-RBS-RFP-LAAssrAtag-TT-pRM-RBS-GFP-LVAssrAtag Used to construct the circuit.

Eukaryotic Version of Signal Filter

Functional Protein and Promoter:

Part Number Name Description
BBa_K2036005 PP2CA Clade A protein phosphatases type 2C which can dephosphorylate ABF2.
BBa_K2036004 ABF2 A leucine zipper transcription factor which can activate Prd29A.
BBa_K2036003 SnRK2.2 Sucrose Nonfermenting1 Related Subfamily2 (SnRK2s) protein kinase which can phosphorylate ABF2.
BBa_K2036002 Prd29A A promoter in the Abscisic Acid signaling network which can be activated by ABF2.

Bi-stable Function

Part Number Name Description
BBa_K2036025 Kozak-Snrk2.2-TTADH1-pCyc Used to construct the circuit.
BBa_K2036029 Kozak-ABF2-TTADH1-Prd29A-Kozak-GFP-LVAssrAtag The report part of the circuit.GFP is used as gene of interest.
BBa_K2036031 PP2CA-TTADH1-pCyc Used to construct the circuit.

Application of Signal Filter

Part Number Name Description
BBa_K2036021 placm-pRE-RBS-Cro-RBS-CII-TT Used to construct the circuit. A part of the positive-feedback system. placm can respond to lactose signal.
BBa_K2036022 patp2-RBS-CI-TT-pR-RBS-CIII Used to construct the circuit. Patp2 can respond to base signal.
BBa_K2036023 RBS-iLDH-TT-pRM-RBS-beta-galactosidase The report part of the application circuit.iLDH is used as gene of interest 1 and beta-galactosidase as gene of interest 2.
BBa_K2036028 placm-pRE-RBS-Cro-RBS-CII-TT-patp2-RBS-CI-TT-pR-RBS-CIII-RBS-ompA-iLDH-TT-pRM-RBS-beta-galactosidase The whole circuit of the application.