Team:Dundee

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<h1><a href="/Team:Dundee">The University of Dundee</a></h1>
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  <h2><span>iGem 2011</span></h2>
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                class='new'       ><a href="/wiki/index.php?title=Talk:Team:WITS-CSIR_SA&amp;action=edit&amp;redlink=1">Discussion              </a></li>
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                    ><a href="/wiki/index.php?title=Team:WITS-CSIR_SA&amp;action=history">History              </a></li>
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<li><a href="/Team:Dundee/Project" title="Project">Project</a></li>  
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<li><a href="/Team:Dundee/Team" title="Team">Team</a></li>
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            <li><a href="/Team:Dundee/Modelling" title="Modelling">Modelling</a></li>  
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            <li><a href="/Team:Dundee/Notebook" title="Notebook">Notebook</a></li>
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            <li><a href="/Team:Dundee/Results" title="Data">Data</a></li>
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              <li style='color:#808080;cursor:default'>teams</li>
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            <li><a href="/Team:Dundee/Safety" title="Safety">Safety</a></li>
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            <li><a href="/Team:Dundee/Sponsors" title="Sponsors">Sponsors</a></li>
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            <li ><a href="/Team:Dundee/dnaapp" title="DNA App">DNA App</a></li>
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            <h2><a href="/Team:Dundee/Project">The Sphereactor Project</a></h2>
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<p>Over millennia, eukaryotic cells have evolved sophisticated organelles, which enabled them to partition their cytoplasmic contents into functional sectors (e.g. the nucleus for storage of genetic material).Such compartmentalisation allows greater efficiency of cellular processes,where each organelle is allocated a set of specific metabolic tasks. Some prokaryotes have also developed a method of forming intracellular subdivisions called bacterial microcompartments (BMCs) by producing a set of proteins that ‘cage in’ a reaction pathway to make it more efficient.
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One such set of proteins is expressed from the propanediol utilisation (Pdu) operon in Salmonella enterica. Our team aims to design and construct a versatile synthetic microcompartment - The Sphereactor - using genes from the Salmonella pdu operon and an E. coli chassis. In conjunction with new biobricks, and those made by other iGEM groups in the past, we aim to test a universal targeting signal that can be used to pack the Sphereactor with enzymes. This will also help us understand the versatility of our microcompartment and to expand our BMC approach into a wide variety of new applications.</p>  
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<h1 class="firstHeading">Team:WITS-CSIR SA</h1>
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<h3 id="siteSub" class='noprint'>From 2011.igem.org</h3>
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<h2>Introduction</h2>
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<p>In its simplest form, our Sphereactor is a protein shell, that with the addition of enzymes, can do work for us. Whether we want it to clean water of pollutants, degrade a toxic spill or create a new future for softdrinks, we believe our Sphereactor hold the key. And the brilliant thing is that through our experiments, we have shown it to survive outside of the cell, opening up a huge range of possibilities for the use of our sphereactor as a cell free system. This is a foundational advance in the field of synthetic biology, bypassing all concerns for the eventual release of genetically modified bacteria. We have also investigated the targeting of Ferritin to the Sphereactor with the aim of developing a recall system. This application of the sphereactor represents not only a new way to think about synthetic biology in the lab but is also simple way to avoid all issues of competition and horizontal gene transfer upon release.</p>
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              <h2><a href="/Team:Dundee/Software">Software for All</a></h2>
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<p>We are lucky enough to have two Applied Computing students on our team this year. They are focusing on creating software tools and mobile applications to assist the synthetic biologist. </p>
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<p>One of tools we are developing right now is a multi-platform application that aims to reduce the need for looking up codon tables and hence speeding up the sequencing process.</p>
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<p>As part of our human practices effort, we have created <a href="http://jspnet.computing.dundee.ac.uk/synbin/">The Syn Bin</a> in order to share and discuss lab accidents.</p>
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<p>The main aim of our technology team is to provide efficient, usable and super-cool software for all.</p>
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      <li class="current"><a href="https://2011.igem.org/Team:WITS-CSIR_SA">Home</a></li>
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      <li><a href="#">Project</a>  
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          <li><a href="https://2011.igem.org/Team:WITS-CSIR_SA/Project/Overview">Overview</a></li>
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        <h2><a href="/Team:Dundee/Team">The Sphereactor Team</a></h2>
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          <li><a href="https://2011.igem.org/Team:WITS-CSIR_SA/Project/Submissions">Parts Submitted</a></li>  
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<p>This is the first iGem team to emerge from the University of Dundee. We are all very excited to be taking part in the competition.</p>
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                <p>We are a multi-disciplined team made up of students, advisors and supervisors from Applied Computing, Life Sciences and Mathematics. We feel having a mix of these skills will give us a competitive edge and a well-rounded skill set.</p>              
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          <li><a href="https://2011.igem.org/Team:WITS-CSIR_SA/Scrapbook/Minutes">Minutes</a></li>
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        <h2><a href="/Team:Dundee/Sponsors"">Sphereactor Sponsors</a></h2>
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          <li><a href="https://2011.igem.org/Team:WITS-CSIR_SA/Scrapbook/Gallery">Gallery</a></li>  
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<p>Thanks for the support our sponsors have given us. Without them the project would not have happened.</p>
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          <li><a href="https://2011.igem.org/Team:WITS-CSIR_SA/Sponsors/CSIR">CSIR</a></li>  
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                Abstract            </div>  
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E.coli has chemoreceptors, and proteins which act downstream, to regulate the bacterium's proportions of runs and tumbles controlling its movement towards an attractant. The CheZ protein dephosphorylates the CheY protein, allowing the bacteria to run instead of tumbling. We used CheZ mutants, unable to move, and only allowed the expression of the CheZ protein on a riboswitch sensitive to theophylline. This allows the bacteria to be artificially sensitive to it. Once the attractant was reached, these genes were switched off and the bacteria was sensitive to another attractant, allowing it to return to its start position.</p>  
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                  <strong>This</strong> dude has some <em>chalk</em>. Mostly I don't have any content
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                  <strong>A board</strong> ... with writing.
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                  <strong>Reading </strong>something.
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                      Boomerang Bacteria                    </div>  
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                      We have decided on a project manipulating bacterial chemotaxis. What is chemotaxis? Well, it's the ability of bacteria to swim towards something they're attracted to and swim away from chemicals that are potentially dangerous to them. We will be engineering bacteria to be attracted to a substance, reach the source of that substance and once they are there, turn off their attraction to this substance and become attracted to another substance. This means we can send a bacteria out to detect something. Once it's found its highest concentration, it will swim back to the start to report back. This project has potential applications in mining, medicine and water treatment!                </div>  
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                            Meet the team                          </div>  
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                            The CSIR Wits South Africa team consists of six enthusiastic undergraduate students
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                  each having their own area of expertise. Four of the members are studying science
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                  and two are studying engineering at the University of the Witwatersrand. The biologists
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                  are from the schools of Molecular and Cell Biology and Molecular Medicine and Hematology.
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                  The team has two engineering students, one studying information engineering and
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                  the other, chemical engineering. This team is a dynamic one where each team member
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                  has something unique to offer to the competition.
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                            Software                          </div>
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                            We created the following software during the competition.                           </div>
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Latest revision as of 20:20, 28 October 2011

The Sphereactor Project

Over millennia, eukaryotic cells have evolved sophisticated organelles, which enabled them to partition their cytoplasmic contents into functional sectors (e.g. the nucleus for storage of genetic material).Such compartmentalisation allows greater efficiency of cellular processes,where each organelle is allocated a set of specific metabolic tasks. Some prokaryotes have also developed a method of forming intracellular subdivisions called bacterial microcompartments (BMCs) by producing a set of proteins that ‘cage in’ a reaction pathway to make it more efficient. One such set of proteins is expressed from the propanediol utilisation (Pdu) operon in Salmonella enterica. Our team aims to design and construct a versatile synthetic microcompartment - The Sphereactor - using genes from the Salmonella pdu operon and an E. coli chassis. In conjunction with new biobricks, and those made by other iGEM groups in the past, we aim to test a universal targeting signal that can be used to pack the Sphereactor with enzymes. This will also help us understand the versatility of our microcompartment and to expand our BMC approach into a wide variety of new applications.

Gold Medal Microcompartment

Introduction

In its simplest form, our Sphereactor is a protein shell, that with the addition of enzymes, can do work for us. Whether we want it to clean water of pollutants, degrade a toxic spill or create a new future for softdrinks, we believe our Sphereactor hold the key. And the brilliant thing is that through our experiments, we have shown it to survive outside of the cell, opening up a huge range of possibilities for the use of our sphereactor as a cell free system. This is a foundational advance in the field of synthetic biology, bypassing all concerns for the eventual release of genetically modified bacteria. We have also investigated the targeting of Ferritin to the Sphereactor with the aim of developing a recall system. This application of the sphereactor represents not only a new way to think about synthetic biology in the lab but is also simple way to avoid all issues of competition and horizontal gene transfer upon release.

Software for All

We are lucky enough to have two Applied Computing students on our team this year. They are focusing on creating software tools and mobile applications to assist the synthetic biologist.

One of tools we are developing right now is a multi-platform application that aims to reduce the need for looking up codon tables and hence speeding up the sequencing process.

As part of our human practices effort, we have created The Syn Bin in order to share and discuss lab accidents.

The main aim of our technology team is to provide efficient, usable and super-cool software for all.

The Sphereactor Team

This is the first iGem team to emerge from the University of Dundee. We are all very excited to be taking part in the competition.

We are a multi-disciplined team made up of students, advisors and supervisors from Applied Computing, Life Sciences and Mathematics. We feel having a mix of these skills will give us a competitive edge and a well-rounded skill set.

Sphereactor Sponsors

Thanks for the support our sponsors have given us. Without them the project would not have happened.

sponsors logos
iGEM Logo
twitter bird

Retrieved from "http://2011.igem.org/Team:Dundee"