Team:Grenoble/Projet/Design

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    <h1>Biology</h1>
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  <h2>Table of content</h2>  
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<h1>Genetic Network</h1>
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  Our device is oriented in this problematic, Mercuro-Coli is a mercury biosensor which allows detecting and quantifying this molecule contained into polluted water. Intended to fieldwork studies, the device should be very easy to use.
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we design the following circuit, based on Gardner and al. Gardner's <a href="#1">[1]</a> work and balagadd and al. on Predator–Prey ecosystem <a href="#2">[2]</a>.
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<center><a href="https://static.igem.org/mediawiki/2011/8/80/Reseau_regulation_compl2_%281%29.png"><img height="400" src="https://static.igem.org/mediawiki/2011/8/80/Reseau_regulation_compl2_%281%29.png"></a></center>
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It can be divided into four parts: the Toggle Switch, the Quorum Sensing, the Coloration and the post-transcriptional regulation. (Coloration is included in Quorum Sensing page) </p>
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        <div class="blocbackground">
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<h2>Table of content</h2>
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We think to create a plate, with bacteria fixed on. Each bacteria have the same Regulating network, which is composed by a choice way (Toggle Switch), a specific communication inter bacterial (Quorum Sensing)and a coloration way depending of Quorum Sensing. all of these compounds are regulated by a post-transcriptional regulator (Rsma system).
 
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overall our fixed bacteria have a regulatory network, with ability to detect two different molecules (mercury and IPTG), and the concentration ratio between both engaged definitively bacteria in one way and turn off the second. This activated pathway contain one of the two protein required for a functional Quorum Sensing (CinI (sender) and CinR (receptor)).
 
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So one bacteria can just have one active way and one Quorum Sensing protein. one bacterium can't lead to the last step of our network, she need other bacteria which have activate the other way.  Clearly the senders bacteria emit Quorum sensing molecule synthesize by CinI to receptor cells (expressing CinR). Now the AHL (quorum sensing molecule) can be complexed with the receptor and activate the synthesis of a red pigment.
 
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The finality of our project is to use our bacteria on a plate containing an IPTG gradient, we the water sample to test(homogeneous concentration). the ratio of concentration lead all bacteria in the right way depending the IPTG gradient. The plate is separate in two group of differentiate cells (senders and receptors). the bacteria communicate in short distance, so the two Quorum Sensing elements are present both exclusively at he interface of the two cell populations. Finally it's only here that the pigment is activated. and generate a red band on our plate, locate in function of tested molecule concentration. 
 
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In the following pages, you can find the explanation about the differents sub-parts of our genetic network. Moreover we explane to you the importance of both to our project.
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For an introduction to the genetic circuit, see our tutorials in the human practice
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  <a href="https://2011.igem.org/Team:Grenoble/Projet/Design/toggle" ><img class="icon" src="https://static.igem.org/mediawiki/2011/3/38/Image2993.png"/></a>
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section or download them here :
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<ul>
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      <big><big><a href="https://2011.igem.org/Team:Grenoble/Projet/Design/toggle" class="menu">Toggle Switch:</a></big></big><br/>
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<li>
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<a href="https://static.igem.org/mediawiki/2011/9/91/M_for_B.png">
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<a class="menu">In Few Words</a><br/>
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Modelling for biologist</a>
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<a class="menu">Genetically what's happening</a><br/>
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</li>
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<a class="menu">the importance for 'Le Projet'</a><br/><br/>
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<li>
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<a href="https://static.igem.org/mediawiki/2011/5/54/B_for_M.png">
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  <a href="https://2011.igem.org/Team:Grenoble/Projet/Design/quorum" class="menu"><img class="icon" src="https://static.igem.org/mediawiki/2011/0/0a/Image3030.png"/></a>
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Synthetic Biology for modellers</a>
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</li>
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<big><big><a href="https://2011.igem.org/Team:Grenoble/Projet/Design/quorum" class="menu">Quorum Sensing :</a></big></big><br/>
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</ul>
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<a class="menu">In Few Words</a><br/>
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<a class="menu">Genetically what's happening</a><br/>
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<a class="menu">importance for 'Le Projet'</a><br/><br/>
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  <a href="https://2011.igem.org/Team:Grenoble/Projet/design/quorum" ><img class="icon" src="https://static.igem.org/mediawiki/2011/6/6e/Icon_rsma.png"/></a>
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<br/><big><big><a class="menu">Post-transcriptional regulation :</a></big></big><br/><br/><br/><br/>
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    </p>
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<a href="https://2011.igem.org/Team:Grenoble/Projet/Design/toggle"><img class="icon" src="https://static.igem.org/mediawiki/2011/2/20/Bouton_toggle.png"/></a>
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<big><big><a href="https://2011.igem.org/Team:Grenoble/Projet/Design/toggle" class="menu">Toggle Switch:</a></big></big><br/>
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<a href="https://2011.igem.org/Team:Grenoble/Projet/Design/quorum" class="menu"><img class="icon" src="https://static.igem.org/mediawiki/2011/f/f8/Bouton_QS_color.png"/></a>
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<big><big><a href="https://2011.igem.org/Team:Grenoble/Projet/Design/quorum" class="menu">Quorum Sensing :</a></big></big><br/>
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<a  href="https://2011.igem.org/Team:Grenoble/Projet/Design/quorum" class="menu">The Quorum Sensing</a><br/>
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<a  href="https://2011.igem.org/Team:Grenoble/Projet/Design/quorum#coloration" class="menu">Coloration</a><br/>
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<a href="https://2011.igem.org/Team:Grenoble/Projet/regulation" ><img class="icon" src="https://static.igem.org/mediawiki/2011/9/97/Bouton_regulation.png"/></a>
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<big><big><a href="https://2011.igem.org/Team:Grenoble/Projet/regulation" class="menu">Post-transcriptional regulation :</a></big></big><br/>
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<a  href="https://2011.igem.org/Team:Grenoble/Projet/regulation" class="menu">A post-transcriptional regulation system</a><br/>
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<a  href="https://2011.igem.org/Team:Grenoble/Projet/regulation#rsma" class="menu">The RsmA translational regulation system</a><br/>
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<a  href="https://2011.igem.org/Team:Grenoble/Projet/regulation#rpos" class="menu">The rpoS regulation system</a><br/>
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<br/><br/><br/>
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</p>
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<p>
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You can find the results of our biological experiments in the
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<a href="https://2011.igem.org/Team:Grenoble/Projet/Results">results page
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</a>.
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        </p>
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<h2>References :</h2>
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<li id="1">
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GARDNER'S WORK: "Construction of a genetic toggle switch in Escherichia coli", Timothy S. Gardner, Charles R. Cantor and James J. Collins, Nature, 2000, Vol.403, p339-42.
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<li id="2">
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PREY AND PREDATOR: "A synthetic Escherichia coli predator–prey ecosystem", Frederick K Balagadd, Hao Song, Jun Ozaki, Cynthia H Collins, Matthew Barnet, Frances H Arnold, Stephen R Quake and Lingchong You, Molecular Systems Biology, 2008;4:187.
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document.getElementById('submenu').innerHTML = '<h3><span class="vert">Biology</span> work</h3><ul><li><a href="#lab">Toggle Switch</a></li><ol><li><a href="#general">in a few words</a></li><li><a href="#instru">genetically what happened</a></li><li><a href="#chemical">in a few words</a></li></ol><li><a href="#bio">genetically what happened</a></li><ol><li><a href="#microorg">Importance for our project</a></li><li><a href="#bioparts">Biobrick parts used</a></li><ol><li><a href="#toggle">Toggle switch</a></li><li><a href="#qs">Quorum sensing</a></li><li><a href="#tomato">The lycopen</a></li><li><a href="#rsma">The rsma regulation system</a></li><li><a href="#outlab">Analysis of a catastrophic scenario</a></li></ol><li><a href="#robustus">Robustness of the device</a></li></ol><li><a href="#bibli">References</a></li><li><a href="#optional">Optional question</a></li></ul>'
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    <option value="#Content" selected="selected">General network</option>
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    <optgroup label="Toggle Switch" >
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                                    <option value="/Design/toggle" >The Toggle Switch</option>
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                            <optgroup label="Quorum Sensing">
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                                    <option value="/Design/quorum">The Quorum Sensing</option>
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                                    <option value="/Design/quorum#coloration">The Coloration</option>
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                            <optgroup label="Post Transcriptional Regulation">
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    <option value="/regulation">A Post-Transcriptional Regulation System</option>
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    <option value="/regulation#rsma">The RsmA Translational Regulation System</option>
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    <option value="/regulation#rpos">The rpoS regulation system</option>
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Latest revision as of 18:24, 31 January 2012

Grenoble 2011, Mercuro-Coli iGEM


Genetic Network

we design the following circuit, based on Gardner and al. Gardner's [1] work and balagadd and al. on Predator–Prey ecosystem [2].



It can be divided into four parts: the Toggle Switch, the Quorum Sensing, the Coloration and the post-transcriptional regulation. (Coloration is included in Quorum Sensing page)



Table of content

In the following pages, you can find the explanation about the differents sub-parts of our genetic network. Moreover we explane to you the importance of both to our project.

For an introduction to the genetic circuit, see our tutorials in the human practice section or download them here :

Toggle Switch:




Quorum Sensing :
The Quorum Sensing
Coloration


Post-transcriptional regulation :
A post-transcriptional regulation system
The RsmA translational regulation system
The rpoS regulation system



You can find the results of our biological experiments in the results page .

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iGEM 2011 Main Page


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