Difference between revisions of "Team:UCopenhagen/Parts"

 
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                         <h1> P A R T S</h1>
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                         <h1>PARTS</h1>
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                     <h2 class="section-heading">Introduction </h2>
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                     <h2 class="section-heading">Overview of our Biobricks </h2>
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                     <p class="lead">Our team believes that establishing a stable platform for scientists to create naïve orthogonal living compartments, would allow for an unpredictable advancement in the field of synthetic biology. Our project will not attempt to create an endosymbiont, but instead investigate the mechanisms in free-living cells in a bottom-up approach to endosymbiosis. 
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The endosymbiotic theory, formulated in the early years of the previous century, outlines that the organelles of the eukaryotic cell, such as the mitochondria, have their origin in free-living prokaryotes engulfed by bigger cells. These incorporated cells then co-evolved with their host conferring to it novel emergent properties which ultimately helped fuel the development of more complex multicellular biological systems such as plants and animals (Archibald, 2015). </p>
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All our submitted Biobricks are listed on this page. Special attention should be directed to our two favorite parts: 
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<li>
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                <a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K2455003">BBa_K2455003</a>, a Cell-Penetrating USER Cassette, which is completely novel in iGEM. We believe this brick can benefit many iGEM teams in the years to come, as we have made it easy to insert any protein of interest in the USER casette. We have already used it ourselves, to create our second favorite part.  
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</li>
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<li>
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                <a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K2455002">BBa_K2455002</a>, an improved version of the super yellow fluorescent protein <a href="http://parts.igem.org/Part:BBa_K864100">BBa_K864100</a> that we believe fulfills the gold medal criteria to improve a previous part or project.
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<p>We have identified three mechanisms we believe to be mandatory for the development of a stable endosymbiotic relationship, which we will be trying to replicate in free-living cells. First of all, in order for the relationship to be stable, the two organisms must  be mutually dependent on each other; there must be a mutually beneficial interaction between host and symbiont. Secondly, there has to be some sort of control and synchronization of symbiont replication. If the symbiont were to be replicating freely we could end up with way too many or not enough symbionts in the host. Finally, a common feature of the endosymbiotic organelles we have looked at, is the transfer of genes from the symbiont to the host. Because of this transfer, the gene and protein expression is taking place in the nucleus and the proteins and metabolites are transported to the organelle. This import of proteins is interesting not just for understanding endosymbiosis, but also for the potential applications in synthetic biology.</p>
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<p>Based on these considerations, we decided to work on three distinct, but intertwined, projects pertaining to endosymbiosis, namely Interdependence, Number Control, and Protein import. We believe that by combining these three projects, a key step towards the understanding of endosymbiosis and its employment in synthetic biology will be obtained. </p>
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        <th scope="col">Name</th>
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        <th scope="col">Type</th>
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        <th scope="col">Type</th>
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        <th scope="col">Designer</th>
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<th scope="col">Length</th>
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        <th scope="row"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K2455000" style="color:black">BBa_K2455000</a></th>
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        <td data-title="Type">Basic Part</td>
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        <td data-title="Description">His-tagged AroG gene from E. coli MG1655</td>
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        <td data-title="Designer" data-type="currency">Jon Fugl</td>
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        <td data-title="Length" data-type="currency">1092</td>
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      </tr>
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  <tr>
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        <th scope="row"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K2455001" style="color:black">BBa_K2455001</a></th>
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        <td data-title="Type">Basic Part</td>
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        <td data-title="Description">His-tagged TrpE gene from E. coli MG1655</td>
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        <td data-title="Designer" data-type="currency">Jon Fugl</td>
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        <td data-title="Length" data-type="currency">1602</td>
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      </tr>
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  <tr>
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        <th scope="row"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K2455002" style="color:black">BBa_K2455002</a></th>
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        <td data-title="Type">Basic Part (Improvement of old)</td>
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        <td data-title="Description">R9-SYFP2-6His</td>
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        <td data-title="Designer" data-type="currency">Jon Fugl</td>
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        <td data-title="Length" data-type="currency">804</td>
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      </tr>
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        <th scope="row"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K2455003" style="color:black">BBa_K2455003</a></th>
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        <td data-title="Type">Basic Part</td>
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        <td data-title="Description">Nona-Arginine with his-tag</td>
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        <td data-title="Designer" data-type="currency">Jon Fugl</td>
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        <td data-title="Length" data-type="currency">81</td>
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      </tr>
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        <th scope="row"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K2455004" style="color:black">BBa_K2455004</a></th>
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        <td data-title="Type">Basic Part</td>
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        <td data-title="Description">YddG E. coli Tyr, Trp, Phe exporter </td>
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        <td data-title="Designer" data-type="currency">Jon Fugl</td>
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        <td data-title="Length" data-type="currency">885</td>
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      </tr>
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        <th scope="row"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K2455005" style="color:black">BBa_K2455005</a></th>
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        <td data-title="Type">Basic Part (Improvement of old - Illegal)</td>
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        <td data-title="Description">R9-mTag BFP-6His </td>
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        <td data-title="Designer" data-type="currency">Jon Fugl</td>
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        <td data-title="Length" data-type="currency">786</td>
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        <th scope="row"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K2455007" style="color:black">BBa_K2455007</a></th>
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        <td data-title="Type">Basic Part (Composite)</td>
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        <td data-title="Description">YddG-TrpE construct with an E. coli RBS between (BBa_K2455004 & BBa_K2455001)</td>
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        <td data-title="Designer" data-type="currency">Jon Fugl</td>
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        <td data-title="Length" data-type="currency">2513</td>
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      </tr>
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         <th scope="row"><a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K2455008" style="color:black">BBa_K2455008</a></th>
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         <td data-title="Type">Basic Part (Composite)</td>
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        <td data-title="Description">YddG-AroG construct with an E. coli RBS between (BBa_K2455004 & BBa_K2455000) </td>
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        <td data-title="Designer" data-type="currency">Jon Fugl</td>
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        <td data-title="Length" data-type="currency">2005</td>
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                    <h2 class="section-heading">Applications and Implications</h2>
 
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                    <<p>By understanding the basic principles behind the creation of stable endosymbiotic events we hope that in the future it will be possible to use artificial endosymbiosis as a new technology in synthetic biology, and we believe that value can be created in the foundational track of the iGEM competition. History has shown that great scientific advances has followed the implementation of new revolutionary technologies (Gershon 2003). </p>
 
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<p>We envision that artificial endosymbiosis could be applied in a broad range of fields, including agriculture, medicine and production of valuable compounds. A deeper understanding of the relationships intertwining endosymbionts and their hosts could unravel new knowledge applicable for the treatment of mitochondrial diseases, while a living compartment able to fixate nitrogen from the air could decrease the fertilizer use in agricultural production. </p>
 
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<p>However, the applications are only limited by the imagination of future users. Indeed, the game-changing role of endosymbiosis has not gone unseen to the eyes of the modern bioengineers, who predict that the establishment of a novel interaction has the potential to radically alter the host cell physiology without directly affecting the host genome (Scientific America Vol 105 pp. 36-45).</p>
 
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<p>Before the potential application of artificial endosymbiosis, there are many things to consider. While the current regulations regarding GMO limits what is possible to apply in agriculture and medicine, regulations regarding synthetically modified organisms (SMOs) have not yet been systematically put into place. How will a new field of SMO be regulated, and how will it influence possible applications of artificial endosymbiosis?</p>
 
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<p>In addition to our scientific investigation we are enthused to trigger debate about synthetic biology. We intend to podcast intriguing conversations with experts, thereby hoping to reach the general public and impel the discussion about the ethics and future prospects in combining biology and engineering.</p>
 
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                     <h2>Find Incell here:</h2>
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                     <h2>Find inCell here:</h2>
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                         <a class="page-scroll" href="https://2017.igem.org/Team:UCopenhagen/Results">Previous</a>
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                         <a class="page-scroll" href="https://2017.igem.org/Team:UCopenhagen/Model">Next</a>
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                         <a class="page-scroll" href= "https://2017.igem.org/Team:UCopenhagen/Interdependency">Next</a>
 
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Latest revision as of 03:25, 2 November 2017

P A R T S

Overview of our Biobricks

All our submitted Biobricks are listed on this page. Special attention should be directed to our two favorite parts:

  • BBa_K2455003, a Cell-Penetrating USER Cassette, which is completely novel in iGEM. We believe this brick can benefit many iGEM teams in the years to come, as we have made it easy to insert any protein of interest in the USER casette. We have already used it ourselves, to create our second favorite part.
  • BBa_K2455002, an improved version of the super yellow fluorescent protein BBa_K864100 that we believe fulfills the gold medal criteria to improve a previous part or project.

    • Name Type Type Designer Length
    BBa_K2455000 Basic Part His-tagged AroG gene from E. coli MG1655 Jon Fugl 1092
    BBa_K2455001 Basic Part His-tagged TrpE gene from E. coli MG1655 Jon Fugl 1602
    BBa_K2455002 Basic Part (Improvement of old) R9-SYFP2-6His Jon Fugl 804
    BBa_K2455003 Basic Part Nona-Arginine with his-tag Jon Fugl 81
    BBa_K2455004 Basic Part YddG E. coli Tyr, Trp, Phe exporter Jon Fugl 885
    BBa_K2455005 Basic Part (Improvement of old - Illegal) R9-mTag BFP-6His Jon Fugl 786
    BBa_K2455007 Basic Part (Composite) YddG-TrpE construct with an E. coli RBS between (BBa_K2455004 & BBa_K2455001) Jon Fugl 2513
    BBa_K2455008 Basic Part (Composite) YddG-AroG construct with an E. coli RBS between (BBa_K2455004 & BBa_K2455000) Jon Fugl 2005

    Find Incell here: