http://2012.igem.org/wiki/index.php?title=Special:Contributions&feed=atom&limit=20&target=ChristopheD&year=&month=2012.igem.org - User contributions [en]2024-03-28T15:16:18ZFrom 2012.igem.orgMediaWiki 1.16.0http://2012.igem.org/Team:Bordeaux/ContactsTeam:Bordeaux/Contacts2012-10-20T15:05:47Z<p>ChristopheD: </p>
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<title>Contacts - iGEM Bordeaux 2012</title><br />
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<h1><a href="https://2012.igem.org/Team:Bordeaux"><strong>iGEM</strong>Bordeaux 2012</a></h1><br />
<ul><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Team">team</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Project">project</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Modelling">modelling</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Biology">biology</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Partners">partners</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Contacts" class="current">contacts</a></li><br />
</ul><br />
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</nav><br />
<section class="adv-content"><br />
<div class="container"><br />
<ul class="breadcrumbs"><br />
<li>Contacts</li><br />
</ul><br />
</div><br />
</section><br />
</header><br />
<section id="content"><br />
<div class="top"><br />
<div class="container"><br />
<div class="clearfix"><br />
<br />
<div class="grid3 first"><br />
<h2>Laboratories</h2><br />
<br />
<p><a href="http://www.iecb.u-bordeaux.fr/" target="_blanck"><strong>Institut Européen de Chimie et Biologie</strong></a><br />
<br/><br />
Address: 2, Rue Robert Escarpit <br/> 33607 PESSAC - France<br />
</p> <br />
<br />
<p><a href="http://www.u-bordeaux1.fr/" target="_blanck"><strong>University of Bordeaux 1</strong></a><br />
<br/><br />
Address: 351 cours de la libération <br/> 33405 Talence Cedex - France <br />
</p> <br />
<br />
<p><a href="http://www.univ-bordeauxsegalen.fr/fr/index.html" target="_blanck"><strong>University of Bordeaux Segalen</strong></a> <br />
<br/><br />
Address: 146 rue Léo-Saignat <br/> 33076 Bordeaux Cedex - France <br />
</p> <br />
<br />
<p><a href="http://www.enstbb.ipb.fr/" target="_blanck"><strong>École Nationale Supérieure de Technologie des Biomolécules de Bordeaux</strong></a> <br />
<br/><br />
Address: 146 rue Léo-Saignat <br/> 33076 Bordeaux Cedex - France <br />
</p> <br />
</div><br />
<br />
<div class="grid9"><br />
<h2>Did you know?</h2><br />
<div class="img-wrap"><figure><img src="https://static.igem.org/mediawiki/2012/f/ff/Iecblab.jpg" alt="" width="178px"><img src="https://static.igem.org/mediawiki/2012/7/7c/University_bdx1_redim.jpg" alt="" width="178px"><img src="https://static.igem.org/mediawiki/2012/c/c7/Segalen_bdx_redim_320.jpg" alt="" width="178px"><img src="https://static.igem.org/mediawiki/2012/1/1b/Enstbb_blue_redim.jpg" alt="" width="178px"></figure></div><br />
<br />
<p><br />
The Bordeaux team won a bronze medal. See you next year and we want you. You can contact us by email <br />
<strong><br />
<a href="mailto:contact@igem-bordeaux.com">contact@igem-bordeaux.com</a><br />
</strong><br />
</p><br />
<p><a href="http://www.ufrsdv.u-bordeaux2.fr/cmsufrsdv/wp-content/uploads/2012/10/IGEM-recrute.pdf" target="_blanck" class="more">Download Poster We want you</a></p><br />
</div><br />
</div><br />
</div><br />
</div><br />
<div class="middle"><br />
<div class="container"><br />
<div class="clearfix"><br />
<div class="grid3 first"><br />
<h2>Instructors</h2><br />
<div class="wrapper"><br />
<dl class="departments"><br />
<dt>Denis Dupuy</dt><br />
<dd><span>Telephone:</span>+33(0)5 4000 8404</dd><br />
<dd><span>FAX:</span>+33(0)5 4000 8390</dd><br />
<dd><span>E-mail:</span><a href="mailto:d.dupuy@iecb.u-bordeaux.fr">d.dupuy@iecb.u-bordeaux.fr</a></dd><br />
<br />
<dt>Cécile Quéré</dt><br />
<dd><span>Telephone:</span>+33 (0)5 4000 8356</dd><br />
<dd><span>FAX:</span>+33 (0)5 4000 8376</dd><br />
<dd><span>E-mail:</span><a href="mailto:c.quere(a)iecb.u-bordeaux.fr">c.quere@iecb.u-bordeaux.fr</a></dd><br />
<br />
<dt>Marie Beurton-Aimar</dt><br />
<dd><span>Telephone:</span>+33(0)5 4000 3525</dd><br />
<dd><span>E-mail:</span><a href="mailto:marie.beurton@labri.fr">marie.beurton@labri.fr</a></dd><br />
</dl><br />
</div><br />
</div><br />
<div class="grid9"><br />
<h2>Web Designer</h2><br />
<p>All design by Christophe Djemiel. You can contact me by email : <br />
<a href="mailto:christophe.djemiel@gmail.com"><strong>christophe.djemiel@gmail.com</strong></a></p><br />
<h2>Modelling - Bioinformatics</h2><br />
<p>All Python Script by Christophe Djemiel & Arnaud Frèche. You can contact us by email : <br />
<br><br />
<a href="mailto:christophe.djemiel@gmail.com"><strong>christophe.djemiel@gmail.com</strong></a> &<br />
<a href="mailto:arnaud.freche@etu.u-bordeaux1.fr"><strong>arnaud.freche@etu.u-bordeaux1.fr</strong></a></p> <br />
<h2>Biology</h2><br />
<p>Cécile Quéré, Julie DiMartino, Jonathan Millet, Antoine Ribeiro & Sophie Vaud</p> <br />
</div><br />
</div><br />
</div><br />
</div><br />
<div class="bottom"><br />
<div class="container"><br />
<div class="clearfix"><br />
<div class="grid3 first"><br />
<h3>Postal Address</h3><br />
<div class="wrapper"><br />
<dl class="address"><br />
<dt>Institut Europeen de Chimie et Biologie<br /><br />
2, rue Robert Escarpit,<br /><br />
33607 Pessac France</dt><br />
<dd><span>Telephone:</span>+33(0)5 4000 8404</dd><br />
<dd><span>FAX:</span>+33(0)5 4000 8390</dd><br />
<dd><span>E-mail:</span><a href="mailto:d.dupuy@iecb.u-bordeaux.fr">d.dupuy@iecb.u-bordeaux.fr</a></dd><br />
<dd><a href="mailto:igem-bordeaux2-2012@googlegroups.com">igem-bordeaux2-2012@googlegroups.com</a></dd><br />
</dl><br />
</div><br />
</div><br />
<div class="grid3"><br />
<h3>Various Links</h3><br />
<ul class="list2"><br />
</ul><br />
</div><br />
<div class="grid6"><br />
<h3>Contact Form</h3><br />
<form method="post" action="mailto:christophe.djemiel@gmail.com" enctype="text/plain" id="contacts-form"><br />
<fieldset><br />
<div class="grid3 first"><br />
<label>Name:<br /><br />
<input type="text" value="" /><br />
</label><br />
<label>E-mail:<br /><br />
<input type="email" value="" /><br />
</label><br />
<label>Fax:<br /><br />
<input type="text" value="" /><br />
</label><br />
</div><br />
<div class="grid3">Message:<br /><br />
<textarea></textarea><br />
<div class="alignright"><br />
<a href="https://2012.igem.org/Team:Bordeaux/Contacts" class="alt" onClick="document.getElementById('contacts-form').reset()">Clear</a> &nbsp; &nbsp; &nbsp;<a href="https://2012.igem.org/Team:Bordeaux/Contacts" class="alt" onClick="document.getElementById('contacts-form').submit()">Submit</a><br />
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<footer><br />
<div class="container"><br />
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<div class="copy">iGEM Bordeaux Team (c) 2012 |</div><br />
<address class="phone"><br />
You can contact us by email or phone : <br />
<strong><br />
<a href="mailto:igem-bordeaux2-2012@googlegroups.com">igem-bordeaux2-2012@googlegroups.com</a> or +33(0)5 4000 8404<br />
</strong><br />
</address><br />
</div><br />
</div><br />
</footer><br />
</body><br />
</html></div>ChristopheDhttp://2012.igem.org/Team:Bordeaux/ContactsTeam:Bordeaux/Contacts2012-10-20T15:04:49Z<p>ChristopheD: </p>
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<h1><a href="https://2012.igem.org/Team:Bordeaux"><strong>iGEM</strong>Bordeaux 2012</a></h1><br />
<ul><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Team">team</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Project">project</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Modelling">modelling</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Biology">biology</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Partners">partners</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Contacts" class="current">contacts</a></li><br />
</ul><br />
</div><br />
</div><br />
</nav><br />
<section class="adv-content"><br />
<div class="container"><br />
<ul class="breadcrumbs"><br />
<li>Contacts</li><br />
</ul><br />
</div><br />
</section><br />
</header><br />
<section id="content"><br />
<div class="top"><br />
<div class="container"><br />
<div class="clearfix"><br />
<br />
<div class="grid3 first"><br />
<h2>Laboratories</h2><br />
<br />
<p><a href="http://www.iecb.u-bordeaux.fr/" target="_blanck"><strong>Institut Européen de Chimie et Biologie</strong></a><br />
<br/><br />
Address: 2, Rue Robert Escarpit <br/> 33607 PESSAC - France<br />
</p> <br />
<br />
<p><a href="http://www.u-bordeaux1.fr/" target="_blanck"><strong>University of Bordeaux 1</strong></a><br />
<br/><br />
Address: 351 cours de la libération <br/> 33405 Talence Cedex - France <br />
</p> <br />
<br />
<p><a href="http://www.univ-bordeauxsegalen.fr/fr/index.html" target="_blanck"><strong>University of Bordeaux Segalen</strong></a> <br />
<br/><br />
Address: 146 rue Léo-Saignat <br/> 33076 Bordeaux Cedex - France <br />
</p> <br />
<br />
<p><a href="http://www.enstbb.ipb.fr/" target="_blanck"><strong>École Nationale Supérieure de Technologie des Biomolécules de Bordeaux</strong></a> <br />
<br/><br />
Address: 146 rue Léo-Saignat <br/> 33076 Bordeaux Cedex - France <br />
</p> <br />
</div><br />
<br />
<div class="grid9"><br />
<h2>Did you know?</h2><br />
<div class="img-wrap"><figure><img src="https://static.igem.org/mediawiki/2012/f/ff/Iecblab.jpg" alt="" width="178px"><img src="https://static.igem.org/mediawiki/2012/7/7c/University_bdx1_redim.jpg" alt="" width="178px"><img src="https://static.igem.org/mediawiki/2012/c/c7/Segalen_bdx_redim_320.jpg" alt="" width="178px"><img src="https://static.igem.org/mediawiki/2012/1/1b/Enstbb_blue_redim.jpg" alt="" width="178px"></figure></div><br />
<p><br />
<a href="mailto:contact@igem-bordeaux.com">contact@igem-bordeaux.com</a><br />
<br />
</p><br />
<br />
</div><br />
</div><br />
</div><br />
</div><br />
<div class="middle"><br />
<div class="container"><br />
<div class="clearfix"><br />
<div class="grid3 first"><br />
<h2>Instructors</h2><br />
<div class="wrapper"><br />
<dl class="departments"><br />
<dt>Denis Dupuy</dt><br />
<dd><span>Telephone:</span>+33(0)5 4000 8404</dd><br />
<dd><span>FAX:</span>+33(0)5 4000 8390</dd><br />
<dd><span>E-mail:</span><a href="mailto:d.dupuy@iecb.u-bordeaux.fr">d.dupuy@iecb.u-bordeaux.fr</a></dd><br />
<br />
<dt>Cécile Quéré</dt><br />
<dd><span>Telephone:</span>+33 (0)5 4000 8356</dd><br />
<dd><span>FAX:</span>+33 (0)5 4000 8376</dd><br />
<dd><span>E-mail:</span><a href="mailto:c.quere(a)iecb.u-bordeaux.fr">c.quere@iecb.u-bordeaux.fr</a></dd><br />
<br />
<dt>Marie Beurton-Aimar</dt><br />
<dd><span>Telephone:</span>+33(0)5 4000 3525</dd><br />
<dd><span>E-mail:</span><a href="mailto:marie.beurton@labri.fr">marie.beurton@labri.fr</a></dd><br />
</dl><br />
</div><br />
</div><br />
<div class="grid9"><br />
<h2>Web Designer</h2><br />
<p>All design by Christophe Djemiel. You can contact me by email : <br />
<a href="mailto:christophe.djemiel@gmail.com"><strong>christophe.djemiel@gmail.com</strong></a></p><br />
<h2>Modelling - Bioinformatics</h2><br />
<p>All Python Script by Christophe Djemiel & Arnaud Frèche. You can contact us by email : <br />
<br><br />
<a href="mailto:christophe.djemiel@gmail.com"><strong>christophe.djemiel@gmail.com</strong></a> &<br />
<a href="mailto:arnaud.freche@etu.u-bordeaux1.fr"><strong>arnaud.freche@etu.u-bordeaux1.fr</strong></a></p> <br />
<h2>Biology</h2><br />
<p>Cécile Quéré, Julie DiMartino, Jonathan Millet, Antoine Ribeiro & Sophie Vaud</p> <br />
</div><br />
</div><br />
</div><br />
</div><br />
<div class="bottom"><br />
<div class="container"><br />
<div class="clearfix"><br />
<div class="grid3 first"><br />
<h3>Postal Address</h3><br />
<div class="wrapper"><br />
<dl class="address"><br />
<dt>Institut Europeen de Chimie et Biologie<br /><br />
2, rue Robert Escarpit,<br /><br />
33607 Pessac France</dt><br />
<dd><span>Telephone:</span>+33(0)5 4000 8404</dd><br />
<dd><span>FAX:</span>+33(0)5 4000 8390</dd><br />
<dd><span>E-mail:</span><a href="mailto:d.dupuy@iecb.u-bordeaux.fr">d.dupuy@iecb.u-bordeaux.fr</a></dd><br />
<dd><a href="mailto:igem-bordeaux2-2012@googlegroups.com">igem-bordeaux2-2012@googlegroups.com</a></dd><br />
</dl><br />
</div><br />
</div><br />
<div class="grid3"><br />
<h3>Various Links</h3><br />
<ul class="list2"><br />
</ul><br />
</div><br />
<div class="grid6"><br />
<h3>Contact Form</h3><br />
<form method="post" action="mailto:christophe.djemiel@gmail.com" enctype="text/plain" id="contacts-form"><br />
<fieldset><br />
<div class="grid3 first"><br />
<label>Name:<br /><br />
<input type="text" value="" /><br />
</label><br />
<label>E-mail:<br /><br />
<input type="email" value="" /><br />
</label><br />
<label>Fax:<br /><br />
<input type="text" value="" /><br />
</label><br />
</div><br />
<div class="grid3">Message:<br /><br />
<textarea></textarea><br />
<div class="alignright"><br />
<a href="https://2012.igem.org/Team:Bordeaux/Contacts" class="alt" onClick="document.getElementById('contacts-form').reset()">Clear</a> &nbsp; &nbsp; &nbsp;<a href="https://2012.igem.org/Team:Bordeaux/Contacts" class="alt" onClick="document.getElementById('contacts-form').submit()">Submit</a><br />
</div><br />
</div><br />
</fieldset><br />
</form><br />
</div><br />
</div><br />
</div><br />
</div><br />
</section><br />
<footer><br />
<div class="container"><br />
<div class="wrapper"><br />
<div class="copy">iGEM Bordeaux Team (c) 2012 |</div><br />
<address class="phone"><br />
You can contact us by email or phone : <br />
<strong><br />
<a href="mailto:igem-bordeaux2-2012@googlegroups.com">igem-bordeaux2-2012@googlegroups.com</a> or +33(0)5 4000 8404<br />
</strong><br />
</address><br />
</div><br />
</div><br />
</footer><br />
</body><br />
</html></div>ChristopheDhttp://2012.igem.org/Team:BordeauxTeam:Bordeaux2012-10-20T15:02:56Z<p>ChristopheD: </p>
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<h1><a href="https://2012.igem.org/Team:Bordeaux"><strong>iGEM</strong>Bordeaux 2012</a></h1><br />
<ul><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Team">team</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Project">project</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Modelling">modelling</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Biology">biology</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Partners">partners</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Contacts">contacts</a></li><br />
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</section><br />
<section id="intro"><br />
<div class="inner"><br />
<h2>Results - Jamboree - Amsterdam</h2><br />
<p><br />
The Bordeaux team won a bronze medal. See you next year and we want you. You can contact us by email <br />
<strong><br />
<a href="mailto:contact@igem-bordeaux.com">contact@igem-bordeaux.com</a><br />
</strong><br />
</p><br />
<p><a href="http://www.ufrsdv.u-bordeaux2.fr/cmsufrsdv/wp-content/uploads/2012/10/IGEM-recrute.pdf" target="_blanck" class="more">Download Poster We want you</a></p><br />
<br />
<h2>Synthetic Biology<br/> Bordeaux Project <span>Summary</span></h2><br />
<p>Our project aims at reproducing multicellular-like behavior in the bacteria Escherichia coli. The idea came from the patterns visible on some animals, like the “pseudo-eyes” on a butterfly wing. As well, we thought about the formation of stripes on tigers or zebra. Such patterns are created thanks to a very precise genetic regulation. So what we want to do here is modeling a regulation mechanism existing in eukaryotes in a simple organism. The bacteria will share the same DNA but should be able to display a different phenotype depending on the signal received by its neighbors. The phenotype here will be the expression of three different colors. The bacteria should be able to communicate between them. A light signal is used as the first inducer of our mechanism. Then, the first cells activated by the input signal send a signal to its neighbor that will react to it by changing its color, and sending another message to the next cell. This will allow us to draw different patterns on the petri dish. </p><br />
<a href="https://2012.igem.org/Team:Bordeaux/Biology" class="extra-button">Read More</a><br />
</div><br />
</section><br />
</div><br />
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<div class="middle"><br />
<div class="container"><br />
<div class="wrapper"><br />
<div class="grid9"><br />
<h2>Modelling - Python - Script</h2><br />
<p>Our IGEM project aim to create a regulation system into the bacteria (a strain of Escherichia coli). The goal of that project is to have just one strain of bacteria able to create concentric patterns on flat surfaces. The challenge consist of modeling a regulation mecanism that mimic the cellular differentiation and cellular communication seen with eucaryotes.<br />
</p><br />
<p><br />
We have first decided to make a modeling and simulation software of that regulation system. This first step will permit us to test several parameters and try some variations of the concentration and others factors involved (reduction of the activity of some operon, etc ). This parts we hope will give us the best conditions for our next biological manipulations.</p><br />
<p><a href="https://2012.igem.org/Team:Bordeaux/Modelling" class="more">Read More</a></p><br />
<br />
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<li><a href="http://www.iecb.u-bordeaux.fr/" title="IECB" target="_blank">IECB</a></li><br />
<li><a href="http://ambafrance-us.org/spip.php?article415" title="Mst" target="_blank">AmbaFrance-us</a></li><br />
<li><a href="http://www.labri.fr/" title="LaBRI" target="_blank">LaBRI</a></li><br />
<li><a href="http://www.thermoscientific.com/" title="Thermo_scientific" target="_blank">Thermo Scientific</a></li><br />
<li><a href="http://www.univ-bordeaux.fr/" title="NUB" target="_blank">Université de Bordeaux</a></li><br />
</ul><br />
</div><br />
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<h3>Project</h3><br />
<ul class="list2"><br />
<li><a href="#">Overview</a></li><br />
<li><a href="#">Introduction</a></li><br />
<li><a href="#">Biobricks</a></li><br />
</ul><br />
</div><br />
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<h3>Others</h3><br />
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<h1><a href="https://2012.igem.org/Team:Bordeaux"><strong>iGEM</strong>Bordeaux 2012</a></h1><br />
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<li><a href="https://2012.igem.org/Team:Bordeaux/Team">team</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Project">project</a></li><br />
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</section><br />
<section id="intro"><br />
<div class="inner"><br />
<h2>Results - Jamboree - Amsterdam</h2><br />
<p><br />
The Bordeaux team won a bronze medal. See you next year and we want you. You can contact us by email <br />
<strong><br />
<a href="mailto:contact@igem-bordeaux.com">contact@igem-bordeaux.com</a><br />
</strong><br />
</p><br />
<h2>Synthetic Biology<br/> Bordeaux Project <span>Summary</span></h2><br />
<p>Our project aims at reproducing multicellular-like behavior in the bacteria Escherichia coli. The idea came from the patterns visible on some animals, like the “pseudo-eyes” on a butterfly wing. As well, we thought about the formation of stripes on tigers or zebra. Such patterns are created thanks to a very precise genetic regulation. So what we want to do here is modeling a regulation mechanism existing in eukaryotes in a simple organism. The bacteria will share the same DNA but should be able to display a different phenotype depending on the signal received by its neighbors. The phenotype here will be the expression of three different colors. The bacteria should be able to communicate between them. A light signal is used as the first inducer of our mechanism. Then, the first cells activated by the input signal send a signal to its neighbor that will react to it by changing its color, and sending another message to the next cell. This will allow us to draw different patterns on the petri dish. </p><br />
<a href="https://2012.igem.org/Team:Bordeaux/Biology" class="extra-button">Read More</a><br />
</div><br />
</section><br />
</div><br />
</div><br />
</div><br />
<div class="middle"><br />
<div class="container"><br />
<div class="wrapper"><br />
<div class="grid9"><br />
<h2>Modelling - Python - Script</h2><br />
<p>Our IGEM project aim to create a regulation system into the bacteria (a strain of Escherichia coli). The goal of that project is to have just one strain of bacteria able to create concentric patterns on flat surfaces. The challenge consist of modeling a regulation mecanism that mimic the cellular differentiation and cellular communication seen with eucaryotes.<br />
</p><br />
<p><br />
We have first decided to make a modeling and simulation software of that regulation system. This first step will permit us to test several parameters and try some variations of the concentration and others factors involved (reduction of the activity of some operon, etc ). This parts we hope will give us the best conditions for our next biological manipulations.</p><br />
<p><a href="https://2012.igem.org/Team:Bordeaux/Modelling" class="more">Read More</a></p><br />
<br />
<br />
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</div><br />
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<div class="container"><br />
<div class="wrapper"><br />
<div class="grid3 first"><br />
<h3>Partners</h3><br />
<ul class="list1"><br />
<li><a href="http://www.iecb.u-bordeaux.fr/" title="IECB" target="_blank">IECB</a></li><br />
<li><a href="http://ambafrance-us.org/spip.php?article415" title="Mst" target="_blank">AmbaFrance-us</a></li><br />
<li><a href="http://www.labri.fr/" title="LaBRI" target="_blank">LaBRI</a></li><br />
<li><a href="http://www.thermoscientific.com/" title="Thermo_scientific" target="_blank">Thermo Scientific</a></li><br />
<li><a href="http://www.univ-bordeaux.fr/" title="NUB" target="_blank">Université de Bordeaux</a></li><br />
</ul><br />
</div><br />
<div class="grid3"><br />
<h3>Project</h3><br />
<ul class="list2"><br />
<li><a href="#">Overview</a></li><br />
<li><a href="#">Introduction</a></li><br />
<li><a href="#">Biobricks</a></li><br />
</ul><br />
</div><br />
<div class="grid3"><br />
<h3>Others</h3><br />
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<strong><br />
<a href="mailto:igem-bordeaux2-2012@googlegroups.com">igem-bordeaux2-2012@googlegroups.com</a> or +33(0)5 4000 8404<br />
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<h1><a href="https://2012.igem.org/Team:Bordeaux"><strong>iGEM</strong>Bordeaux 2012</a></h1><br />
<ul><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Team">team</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Project">project</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Modelling">modelling</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Biology">biology</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Partners">partners</a></li><br />
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</section><br />
<section id="intro"><br />
<div class="inner"><br />
<h2>Results - Jamboree - Amsterdam</h2><br />
<p><br />
The Bordeaux team won a bronze medal. See you next year and we want you. You can contact us by email <br />
<strong><br />
<a href="mailto:contact@igem-bordeaux.com">contact@igem-bordeaux.com</a><br />
</strong><br />
</p><br />
<h2>Synthetic Biology<br/> Bordeaux Project <span>Summary</span></h2><br />
<p>Our project aims at reproducing multicellular-like behavior in the bacteria Escherichia coli. The idea came from the patterns visible on some animals, like the “pseudo-eyes” on a butterfly wing. As well, we thought about the formation of stripes on tigers or zebra. Such patterns are created thanks to a very precise genetic regulation. So what we want to do here is modeling a regulation mechanism existing in eukaryotes in a simple organism. The bacteria will share the same DNA but should be able to display a different phenotype depending on the signal received by its neighbors. The phenotype here will be the expression of three different colors. The bacteria should be able to communicate between them. A light signal is used as the first inducer of our mechanism. Then, the first cells activated by the input signal send a signal to its neighbor that will react to it by changing its color, and sending another message to the next cell. This will allow us to draw different patterns on the petri dish. </p><br />
<a href="https://2012.igem.org/Team:Bordeaux/Biology" class="extra-button">Read More</a><br />
</div><br />
</section><br />
</div><br />
</div><br />
</div><br />
<div class="middle"><br />
<div class="container"><br />
<div class="wrapper"><br />
<div class="grid9"><br />
<h2>Modelling - Python - Script</h2><br />
<p>Our IGEM project aim to create a regulation system into the bacteria (a strain of Escherichia coli). The goal of that project is to have just one strain of bacteria able to create concentric patterns on flat surfaces. The challenge consist of modeling a regulation mecanism that mimic the cellular differentiation and cellular communication seen with eucaryotes.<br />
</p><br />
<p><br />
We have first decided to make a modeling and simulation software of that regulation system. This first step will permit us to test several parameters and try some variations of the concentration and others factors involved (reduction of the activity of some operon, etc ). This parts we hope will give us the best conditions for our next biological manipulations.</p><br />
<p><a href="https://2012.igem.org/Team:Bordeaux/Modelling" class="more">Read More</a></p><br />
<br />
<br />
</div><br />
</div><br />
</div><br />
</div><br />
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<div class="container"><br />
<div class="wrapper"><br />
<div class="grid3 first"><br />
<h3>Partners</h3><br />
<ul class="list1"><br />
<li><a href="http://www.iecb.u-bordeaux.fr/" title="IECB" target="_blank">IECB</a></li><br />
<li><a href="http://ambafrance-us.org/spip.php?article415" title="Mst" target="_blank">AmbaFrance-us</a></li><br />
<li><a href="http://www.labri.fr/" title="LaBRI" target="_blank">LaBRI</a></li><br />
<li><a href="http://www.thermoscientific.com/" title="Thermo_scientific" target="_blank">Thermo Scientific</a></li><br />
<li><a href="http://www.univ-bordeaux.fr/" title="NUB" target="_blank">Université de Bordeaux</a></li><br />
</ul><br />
</div><br />
<div class="grid3"><br />
<h3>Project</h3><br />
<ul class="list2"><br />
<li><a href="#">Overview</a></li><br />
<li><a href="#">Introduction</a></li><br />
<li><a href="#">Biobricks</a></li><br />
</ul><br />
</div><br />
<div class="grid3"><br />
<h3>Others</h3><br />
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<li><a href="#">Other</a></li><br />
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<div class="copy">iGEM Bordeaux Team (c) 2012 |</div><br />
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You can contact us by email or phone : <br />
<strong><br />
<a href="mailto:igem-bordeaux2-2012@googlegroups.com">igem-bordeaux2-2012@googlegroups.com</a> or +33(0)5 4000 8404<br />
</strong><br />
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</html></div>ChristopheDhttp://2012.igem.org/Team:BordeauxTeam:Bordeaux2012-10-20T14:57:46Z<p>ChristopheD: </p>
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<h1><a href="https://2012.igem.org/Team:Bordeaux"><strong>iGEM</strong>Bordeaux 2012</a></h1><br />
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<li><a href="https://2012.igem.org/Team:Bordeaux/Team">team</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Project">project</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Modelling">modelling</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Biology">biology</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Partners">partners</a></li><br />
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<h2>Synthetic Biology<br/> Bordeaux Project <span>Summary</span></h2><br />
<p>Our project aims at reproducing multicellular-like behavior in the bacteria Escherichia coli. The idea came from the patterns visible on some animals, like the “pseudo-eyes” on a butterfly wing. As well, we thought about the formation of stripes on tigers or zebra. Such patterns are created thanks to a very precise genetic regulation. So what we want to do here is modeling a regulation mechanism existing in eukaryotes in a simple organism. The bacteria will share the same DNA but should be able to display a different phenotype depending on the signal received by its neighbors. The phenotype here will be the expression of three different colors. The bacteria should be able to communicate between them. A light signal is used as the first inducer of our mechanism. Then, the first cells activated by the input signal send a signal to its neighbor that will react to it by changing its color, and sending another message to the next cell. This will allow us to draw different patterns on the petri dish. </p><br />
<a href="https://2012.igem.org/Team:Bordeaux/Biology" class="extra-button">Read More</a><br />
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<h2>Modelling - Python - Script</h2><br />
<p>Our IGEM project aim to create a regulation system into the bacteria (a strain of Escherichia coli). The goal of that project is to have just one strain of bacteria able to create concentric patterns on flat surfaces. The challenge consist of modeling a regulation mecanism that mimic the cellular differentiation and cellular communication seen with eucaryotes.<br />
</p><br />
<p><br />
We have first decided to make a modeling and simulation software of that regulation system. This first step will permit us to test several parameters and try some variations of the concentration and others factors involved (reduction of the activity of some operon, etc ). This parts we hope will give us the best conditions for our next biological manipulations.</p><br />
<p><a href="https://2012.igem.org/Team:Bordeaux/Modelling" class="more">Read More</a></p><br />
<h2>Results - Jamboree - Amsterdam</h2><br />
<p><br />
The Bordeaux team won a bronze medal. See you next year and we want you. You can contact us by email <br />
<strong><br />
<a href="mailto:contact@igem-bordeaux.com">contact@igem-bordeaux.com</a><br />
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<li><a href="http://www.iecb.u-bordeaux.fr/" title="IECB" target="_blank">IECB</a></li><br />
<li><a href="http://ambafrance-us.org/spip.php?article415" title="Mst" target="_blank">AmbaFrance-us</a></li><br />
<li><a href="http://www.labri.fr/" title="LaBRI" target="_blank">LaBRI</a></li><br />
<li><a href="http://www.thermoscientific.com/" title="Thermo_scientific" target="_blank">Thermo Scientific</a></li><br />
<li><a href="http://www.univ-bordeaux.fr/" title="NUB" target="_blank">Université de Bordeaux</a></li><br />
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</html></div>ChristopheDhttp://2012.igem.org/Team:Bordeaux/SafetyTeam:Bordeaux/Safety2012-10-01T11:13:01Z<p>ChristopheD: </p>
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<h1><a href="https://2012.igem.org/Team:Bordeaux"><strong>iGEM</strong>Bordeaux 2012</a></h1><br />
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<li><a href="https://2012.igem.org/Team:Bordeaux/Team">team</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Project" class="current">project</a></li><br />
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<h2>iGEM - Bordeaux - Safety</h2><br />
<p><br />
The Bordeaux team is really concerned about safety of the team members and of the environment. Here are our answers to the four safety questions about our iGEM project. Our experiments were led in the lab of Denis Dupuy, located in the IECB (European Institute of Chemistry and Biology) among other labs and team. <br />
</p><br />
<h2>General safety</h2><br />
<hr><br />
</br><br />
<b>1. Would any of your project ideas raise safety issues in terms of:</b><br />
<li> researcher safety ?</li> <br />
<p>Our project relies on working with DH5α strains of Escherichia coli. This bacteria is not dangerous for the operator, however it is advised to work under an extractor hood, to wear gloves and wash hands afterwards. The project aims at creating a communication path between cells. To make this work, we used genes from bacteria mainly from quorum sensing. The colors will be generated by proteins that are not dangerous (GFP, mCherry), nor are the molecules signals. The only safety issues are about the experiments themselves.<br />
</br><br />
As in any lab, some products can be dangerous for the researcher. About our project, the most dangerous products used were ethidium bromide and chloramphenicol powder. The operator had to work wearing a lab coat, gloves and glasses under an extractor hood.<br />
To prevent burns, thick gloves are available to manipulate anything very hot or very cold.<br />
</p><br />
<br />
<li> public safety ?</li> <br />
<p><br />
The communication between cells will be seen thanks to the expression of different colors, depending on the location of the bacteria in the plate. Thus, our transgenic bacteria are not meant to be used in any applications, so it raises no safety issues in terms of public safety.<br />
To make this work, we used genes from bacteria mainly from quorum sensing. Thus, even if our bacteria should mutate or not work as expected, no harmful molecules could be released.<br />
</p><br />
<li> environmental safety ?</li> <br />
<p><br />
We work with strains of <i>Escherichia coli</i>. These bacteria are genetically modified and thus resistant to some antibiotics. Then we must be careful about not releasing it in to the environment even if it cannot grow easily outside the lab. The unused cultures or remains have to be inactivated with bleach. A room is dedicated to the manipulation of bacteria. The manipulations were done in this room under another extractor hood. The incubators are also located in this room so no one has to carry cultures in and out of the room.<br />
</br><br />
Any waste is eliminated in the right way: biological waste goes in a special bin, chemical waste in another one; glass and broken glassware are collected separately. Wastes containing ethidium bromide is collected and treated by a private society.<br />
</p><br />
<br />
<b>2. Do any of the new BioBrick parts (or devices) that you made this year raise any safety issues ? </b><br />
<p><br />
No, all our biobricks are safe to use, and cannot produce any dangerous molecules.<br />
</p><br />
<br />
<b>3. Is there a local biosafety group, committee, or review board at your institution ?</b><br />
<p><br />
At our institution, no biosafety group is reviewing the project. However, we have persons responsible for the safety questions we can talk to whenever needed. These people are in charge of checking all safety rules from our country are applied. They are also in charge of checking that wastes are eliminated the right way in order to protect the environment. All the materials related to safety (extractor hoods, culture rooms…) are also verified as demanded.<br />
The lab is closed to external people, and we never work with opened windows. The lab has obtained all the authorizations to work with genetically modified organisms as demanded by the French and European laws.<br />
</br><br />
All safety rules about working in a laboratory and how to behave in case of accident are posted on the walls and the doors.<br />
</p><br />
<br />
<br />
<b>4. Do you have any other ideas how to deal with safety issues that could be useful for future iGEM competitions ? How could parts, devices and systems be made even safer through biosafety engineering ?</b><br />
<p>Some more rules are applied in our own lab. Some of them are from common sense; some other could give ideas to other teams.<br />
It is forbidden to bring any food or drinks in the lab.<br />
</br><br />
It is forbidden to work isolated and outside the presence hours (Monday to Friday: 7a.m to 8p.m). If someone has to work outside the presence hours, he must not be left alone in the lab and come with a permanent from the lab (teacher, engineer, or technician). It is also possible to use a phone with a direct line to someone who will check if everything is alright and can come if something goes wrong.<br />
</br><br />
The emergency exits must remain opened. In case of alarm, everyone has to go out by the closest exit. People are in charge of checking that no one is left inside the building, so it is not an individual responsibility to check for anyone else. If someone is hurt, burnt or sick, the security center is in charge of taking care of the problem and give first aid. The phone number of the security center is written above the phone and on the doors. It is advisable to record this phone number in the mobile phone memory. If it is not possible to call, start the fire alarm in order to get help.<br />
</p><br />
<p><br />
The main point of iGEM is to make undergrad students work in a lab. However, depending of the year and the formation, some students don’t know how to behave in a lab. Some guidelines are international. Maybe writing a document about “first time in a lab” could help to avoid accidents like exposure to chemicals.<br />
<br />
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<li><a href="http://ambafrance-us.org/spip.php?article415" title="Mst" target="_blank">AmbaFrance-us</a></li><br />
<li><a href="http://www.labri.fr/" title="LaBRI" target="_blank">LaBRI</a></li><br />
<li><a href="http://www.thermoscientific.com/" title="Thermo_scientific" target="_blank">Thermo Scientific</a></li><br />
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<a href="mailto:igem-bordeaux2-2012@googlegroups.com">igem-bordeaux2-2012@googlegroups.com</a> or +33(0)5 4000 8404<br />
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</html></div>ChristopheDhttp://2012.igem.org/Team:Bordeaux/SafetyTeam:Bordeaux/Safety2012-10-01T11:10:16Z<p>ChristopheD: </p>
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<h1><a href="https://2012.igem.org/Team:Bordeaux"><strong>iGEM</strong>Bordeaux 2012</a></h1><br />
<ul><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Team">team</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Project" class="current">project</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Modelling">modelling</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Biology">biology</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Partners">partners</a></li><br />
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<li><a href="https://2012.igem.org/Team:Bordeaux/Safety" class="current">Safety</a></li><br />
</ul><br />
</div><br />
<div class="grid9"><br />
<h2>iGEM - Bordeaux - Safety</h2><br />
<p><br />
The Bordeaux team is really concerned about safety of the team members and of the environment. Here are our answers to the four safety questions about our iGEM project. Our experiments were led in the lab of Denis Dupuy, located in the IECB (European Institute of Chemistry and Biology) among other labs and team. <br />
</p><br />
<h2>General safety</h2><br />
<hr><br />
</br><br />
<b>1. Would any of your project ideas raise safety issues in terms of:</b><br />
<li> researcher safety ?</li> <br />
<p>Our project relies on working with DH5α strains of Escherichia coli. This bacteria is not dangerous for the operator, however it is advised to work under an extractor hood, to wear gloves and wash hands afterwards. The project aims at creating a communication path between cells. To make this work, we used genes from bacteria mainly from quorum sensing. The colors will be generated by proteins that are not dangerous (GFP, mCherry), nor are the molecules signals. The only safety issues are about the experiments themselves.<br />
</br><br />
As in any lab, some products can be dangerous for the researcher. About our project, the most dangerous products used were ethidium bromide and chloramphenicol powder. The operator had to work wearing a lab coat, gloves and glasses under an extractor hood.<br />
To prevent burns, thick gloves are available to manipulate anything very hot or very cold.<br />
</p><br />
<br />
<li> public safety ?</li> <br />
<p><br />
The communication between cells will be seen thanks to the expression of different colors, depending on the location of the bacteria in the plate. Thus, our transgenic bacteria are not meant to be used in any applications, so it raises no safety issues in terms of public safety.<br />
To make this work, we used genes from bacteria mainly from quorum sensing. Thus, even if our bacteria should mutate or not work as expected, no harmful molecules could be released.<br />
</p><br />
<li> environmental safety ?</li> <br />
<p><br />
We work with strains of Escherichia coli. These bacteria are genetically modified and thus resistant to some antibiotics. Then we must be careful about not releasing it in to the environment even if it cannot grow easily outside the lab. The unused cultures or remains have to be inactivated with bleach. A room is dedicated to the manipulation of bacteria. The manipulations were done in this room under another extractor hood. The incubators are also located in this room so no one has to carry cultures in and out of the room.<br />
</br><br />
Any waste is eliminated in the right way: biological waste goes in a special bin, chemical waste in another one; glass and broken glassware are collected separately. Wastes containing ethidium bromide is collected and treated by a private society.<br />
</p><br />
<br />
<b>2. Do any of the new BioBrick parts (or devices) that you made this year raise any safety issues ? </b><br />
<p><br />
No, all our biobricks are safe to use, and cannot produce any dangerous molecules.<br />
</p><br />
<br />
<b>3. Is there a local biosafety group, committee, or review board at your institution ?</b><br />
<p><br />
At our institution, no biosafety group is reviewing the project. However, we have persons responsible for the safety questions we can talk to whenever needed. These people are in charge of checking all safety rules from our country are applied. They are also in charge of checking that wastes are eliminated the right way in order to protect the environment. All the materials related to safety (extractor hoods, culture rooms…) are also verified as demanded.<br />
The lab is closed to external people, and we never work with opened windows. The lab has obtained all the authorizations to work with genetically modified organisms as demanded by the French and European laws.<br />
</br><br />
All safety rules about working in a laboratory and how to behave in case of accident are posted on the walls and the doors.<br />
</p><br />
<br />
<br />
<b>4. Do you have any other ideas how to deal with safety issues that could be useful for future iGEM competitions ? How could parts, devices and systems be made even safer through biosafety engineering ?</b><br />
<p>Some more rules are applied in our own lab. Some of them are from common sense; some other could give ideas to other teams.<br />
It is forbidden to bring any food or drinks in the lab.<br />
</br><br />
It is forbidden to work isolated and outside the presence hours (Monday to Friday: 7a.m to 8p.m). If someone has to work outside the presence hours, he must not be left alone in the lab and come with a permanent from the lab (teacher, engineer, or technician). It is also possible to use a phone with a direct line to someone who will check if everything is alright and can come if something goes wrong.<br />
</br><br />
The emergency exits must remain opened. In case of alarm, everyone has to go out by the closest exit. People are in charge of checking that no one is left inside the building, so it is not an individual responsibility to check for anyone else. If someone is hurt, burnt or sick, the security center is in charge of taking care of the problem and give first aid. The phone number of the security center is written above the phone and on the doors. It is advisable to record this phone number in the mobile phone memory. If it is not possible to call, start the fire alarm in order to get help.<br />
</p><br />
<p><br />
The main point of iGEM is to make undergrad students work in a lab. However, depending of the year and the formation, some students don’t know how to behave in a lab. Some guidelines are international. Maybe writing a document about “first time in a lab” could help to avoid accidents like exposure to chemicals.<br />
<br />
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<h1><a href="https://2012.igem.org/Team:Bordeaux"><strong>iGEM</strong>Bordeaux 2012</a></h1><br />
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<h2>iGEM - Bordeaux - Safety</h2><br />
<p><br />
The Bordeaux team is really concerned about safety of the team members and of the environment. Here are our answers to the four safety questions about our iGEM project. Our experiments were led in the lab of Denis Dupuy, located in the IECB (European Institute of Chemistry and Biology) among other labs and team. <br />
</p><br />
<h2>General safety</h2><br />
<hr><br />
</br><br />
<b>1. Would any of your project ideas raise safety issues in terms of:</b><br />
<li> researcher safety ?</li> <br />
<p>Our project relies on working with DH5α strains of Escherichia coli. This bacteria is not dangerous for the operator, however it is advised to work under an extractor hood, to wear gloves and wash hands afterwards. The project aims at creating a communication path between cells. To make this work, we used genes from bacteria mainly from quorum sensing. The colors will be generated by proteins that are not dangerous (GFP, mCherry), nor are the molecules signals. The only safety issues are about the experiments themselves.<br />
</br><br />
As in any lab, some products can be dangerous for the researcher. About our project, the most dangerous products used were ethidium bromide and chloramphenicol powder. The operator had to work wearing a lab coat, gloves and glasses under an extractor hood.<br />
To prevent burns, thick gloves are available to manipulate anything very hot or very cold.<br />
</p><br />
<br />
<li> public safety ?</li> <br />
<p><br />
The communication between cells will be seen thanks to the expression of different colors, depending on the location of the bacteria in the plate. Thus, our transgenic bacteria are not meant to be used in any applications, so it raises no safety issues in terms of public safety.<br />
To make this work, we used genes from bacteria mainly from quorum sensing. Thus, even if our bacteria should mutate or not work as expected, no harmful molecules could be released.<br />
</p><br />
<li> environmental safety ?</li> <br />
<p><br />
We work with strains of Escherichia coli. These bacteria are genetically modified and thus resistant to some antibiotics. Then we must be careful about not releasing it in to the environment even if it cannot grow easily outside the lab. The unused cultures or remains have to be inactivated with bleach. A room is dedicated to the manipulation of bacteria. The manipulations were done in this room under another extractor hood. The incubators are also located in this room so no one has to carry cultures in and out of the room.<br />
</br><br />
Any waste is eliminated in the right way: biological waste goes in a special bin, chemical waste in another one; glass and broken glassware are collected separately. Wastes containing ethidium bromide is collected and treated by a private society.<br />
</p><br />
<br />
<b>2. Do any of the new BioBrick parts (or devices) that you made this year raise any safety issues ? </b><br />
<p><br />
No, all our biobricks are safe to use, and cannot produce any dangerous molecules.<br />
</p><br />
<br />
<b>3. Is there a local biosafety group, committee, or review board at your institution ?</b><br />
<p><br />
At our institution, no biosafety group is reviewing the project. However, we have persons responsible for the safety questions we can talk to whenever needed. These people are in charge of checking all safety rules from our country are applied. They are also in charge of checking that wastes are eliminated the right way in order to protect the environment. All the materials related to safety (extractor hoods, culture rooms…) are also verified as demanded.<br />
The lab is closed to external people, and we never work with opened windows. The lab has obtained all the authorizations to work with genetically modified organisms as demanded by the French and European laws.<br />
</br><br />
All safety rules about working in a laboratory and how to behave in case of accident are posted on the walls and the doors.<br />
</p><br />
<br />
<br />
<b>4. Do you have any other ideas how to deal with safety issues that could be useful for future iGEM competitions? How could parts, devices and systems be made even safer through biosafety engineering?</b><br />
<p>Some more rules are applied in our own lab. Some of them are from common sense; some other could give ideas to other teams.<br />
It is forbidden to bring any food or drinks in the lab.<br />
</br><br />
It is forbidden to work isolated and outside the presence hours (Monday to Friday: 7a.m to 8p.m). If someone has to work outside the presence hours, he must not be left alone in the lab and come with a permanent from the lab (teacher, engineer, or technician). It is also possible to use a phone with a direct line to someone who will check if everything is alright and can come if something goes wrong.<br />
</br><br />
The emergency exits must remain opened. In case of alarm, everyone has to go out by the closest exit. People are in charge of checking that no one is left inside the building, so it is not an individual responsibility to check for anyone else. If someone is hurt, burnt or sick, the security center is in charge of taking care of the problem and give first aid. The phone number of the security center is written above the phone and on the doors. It is advisable to record this phone number in the mobile phone memory. If it is not possible to call, start the fire alarm in order to get help.<br />
</p><br />
<p><br />
The main point of iGEM is to make undergrad students work in a lab. However, depending of the year and the formation, some students don’t know how to behave in a lab. Some guidelines are international. Maybe writing a document about “first time in a lab” could help to avoid accidents like exposure to chemicals.<br />
<br />
</p><br />
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<li><a href="http://www.labri.fr/" title="LaBRI" target="_blank">LaBRI</a></li><br />
<li><a href="http://www.thermoscientific.com/" title="Thermo_scientific" target="_blank">Thermo Scientific</a></li><br />
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<h1><a href="https://2012.igem.org/Team:Bordeaux"><strong>iGEM</strong>Bordeaux 2012</a></h1><br />
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<h2>Synthetic Biology<br/> Bordeaux Project <span>Summary</span></h2><br />
<p>Our project aims at reproducing multicellular-like behavior in the bacteria Escherichia coli. The idea came from the patterns visible on some animals, like the “pseudo-eyes” on a butterfly wing. As well, we thought about the formation of stripes on tigers or zebra. Such patterns are created thanks to a very precise genetic regulation. So what we want to do here is modeling a regulation mechanism existing in eukaryotes in a simple organism. The bacteria will share the same DNA but should be able to display a different phenotype depending on the signal received by its neighbors. The phenotype here will be the expression of three different colors. The bacteria should be able to communicate between them. A light signal is used as the first inducer of our mechanism. Then, the first cells activated by the input signal send a signal to its neighbor that will react to it by changing its color, and sending another message to the next cell. This will allow us to draw different patterns on the petri dish. </p><br />
<a href="https://2012.igem.org/Team:Bordeaux/Biology" class="extra-button">Read More</a><br />
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<h2>Modelling - Python - Script</h2><br />
<p>Our IGEM project aim to create a regulation system into the bacteria (a strain of Escherichia coli). The goal of that project is to have just one strain of bacteria able to create concentric patterns on flat surfaces. The challenge consist of modeling a regulation mecanism that mimic the cellular differentiation and cellular communication seen with eucaryotes.<br />
</p><br />
<p><br />
We have first decided to make a modeling and simulation software of that regulation system. This first step will permit us to test several parameters and try some variations of the concentration and others factors involved (reduction of the activity of some operon, etc ). This parts we hope will give us the best conditions for our next biological manipulations.</p><br />
<p><a href="https://2012.igem.org/Team:Bordeaux/Modelling" class="more">Read More</a></p><br />
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<li><a href="https://2012.igem.org/Team:Bordeaux/Team">team</a></li><br />
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<h2>iGEM - Bordeaux - Biology</h2><br />
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<p>Our project aims at reproducing multicellular-like behavior in the bacteria Escherichia coli. The idea came from the patterns visible on some animals, like the “pseudo-eyes” on a butterfly wing. As well, we thought about the formation of stripes on tigers or zebra. Such patterns are created thanks to a very precise genetic regulation. So what we want to do here is modeling a regulation mechanism existing in eukaryotes in a simple organism. The bacteria will share the same DNA but should be able to display a different phenotype depending on the signal received by its neighbors. The phenotype here will be the expression of three different colors. The bacteria should be able to communicate between them. A light signal is used as the first inducer of our mechanism. Then, the first cells activated by the input signal send a signal to its neighbor that will react to it by changing its color, and sending another message to the next cell. This will allow us to draw different patterns on the petri dish. </p><br />
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<p>Our project aims at reproducing multicellular-like behavior in the bacteria Escherichia coli. The idea came from the patterns visible on some animals, like the “pseudo-eyes” on a butterfly wing. As well, we thought about the formation of stripes on tigers or zebra. Such patterns are created thanks to a very precise genetic regulation. So what we want to do here is modeling a regulation mechanism existing in eukaryotes in a simple organism. The bacteria will share the same DNA but should be able to display a different phenotype depending on the signal received by its neighbors. The phenotype here will be the expression of three different colors. The bacteria should be able to communicate between them. A light signal is used as the first inducer of our mechanism. Then, the first cells activated by the input signal send a signal to its neighbor that will react to it by changing its color, and sending another message to the next cell. This will allow us to draw different patterns on the petri dish. </p><br />
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<p><a href="https://2012.igem.org/Team:Bordeaux/Biology" class="more">Read More</a></p><br />
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<figure><img src="https://static.igem.org/mediawiki/2012/e/ef/Model.gif" alt=""></figure><br />
<p>Our project aims at reproducing multicellular-like behavior in the bacteria Escherichia coli. The idea came from the patterns visible on some animals, like the “pseudo-eyes” on a butterfly wing. As well, we thought about the formation of stripes on tigers or zebra. Such patterns are created thanks to a very precise genetic regulation. So what we want to do here is modeling a regulation mechanism existing in eukaryotes in a simple organism. The bacteria will share the same DNA but should be able to display a different phenotype depending on the signal received by its neighbors. The phenotype here will be the expression of three different colors. The bacteria should be able to communicate between them. A light signal is used as the first inducer of our mechanism. Then, the first cells activated by the input signal send a signal to its neighbor that will react to it by changing its color, and sending another message to the next cell. This will allow us to draw different patterns on the petri dish. </p><br />
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<p><a href="https://2012.igem.org/Team:Bordeaux/Biology" target="_blanck" class="more">Read More</a></p><br />
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<h1><a href="https://2012.igem.org/Team:Bordeaux"><strong>iGEM</strong>Bordeaux 2012</a></h1><br />
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<li><a href="https://2012.igem.org/Team:Bordeaux/Team">team</a></li><br />
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<li><a href="https://2012.igem.org/Team:Bordeaux/NotebookAll">Note Book</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/First">First Week</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Second">Second Week</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Third">Third Week</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Fourth">Fourth Week</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Fifth">Fifth Week</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Sixth">Sixth Week</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Seventh">Seventh Week</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Eighth">Eighth Week</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Ninth">Ninth Week</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Tenth">Tenth Week</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Eleventh">Eleventh Week</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Twelfth" class="current">Twelfth Week</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Thirteenth">Thirteenth Week</a></li><br />
<br />
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<div class="grid9"><br />
<h4>Day 50 : 17-09-2012</h4><br />
<hr><br />
<p><br />
Today we did the ligations IAIB , IA'IB' , ICIE , IVAIIC5B , 5AIIICIIIEIIID , 5AIVDIVEIVC , IA IIC5B , IVA5AIVB , IVEIVC with the digestions from last friday.<br />
</br><br />
We inactivated the ligase after 1 hour 20°C incubation and pute the tubes overnight at 4°C<br />
</p><br />
<br />
<h4>Day 51 : 18-09-2012</h4><br />
<hr><br />
<p><br />
Today we transformed by electroporation the ligations from yesterday.<br />
</p><br />
<br />
<br />
<br />
<h4>Day 52 : 19-09-2012</h4><br />
<hr><br />
<p> <br />
Today we put the transformants into preculture.<br />
</br><br />
Nothing on IA'IB' , ICIE , IVAIIC5B , 5AIVDIVEIVC plates so we redid ligations for those assemblies.<br />
</p> <br />
<br />
<h4>Day 53 : 20-09-2012</h4><br />
<hr><br />
<p> <br />
Today we did a miniprep of the precultures<br />
<br />
</p><br />
<h4>Day 54 : 21-09-2012</h4><br />
<hr><br />
<p> <br />
Today we tested the plasmids on agarose gel.<br />
<br />
<div class="img-box"><br />
<figure><a><img src="http://openwetware.org/images/b/b9/Restriction2109_1.jpg" alt=""></a></figure><br />
<figure><a><img src="http://openwetware.org/images/1/14/Restriction2109_2.jpg" alt=""></a></figure><br />
<figure><a><img src="http://openwetware.org/images/b/b5/Restriction2109_3.jpg" alt=""></a></figure><br />
<br />
</div> <br />
</p> <br />
<br />
<h4>Day 55 : 22-09-2012</h4><br />
<hr><br />
<p> <br />
We started a new strategy using 3 operons instead of 4. As the first operon does not seem to assemble, we will simply put its promoter before the operon II. Thus, our system should work sooner.<br />
</br><br />
We also rethink operon IV and removed LsrR and LsrK. We removed as well the CIbox from operon III.<br />
</br><br />
We digest, ligate and transform : IVAIVEIVC, IIIA5AIIIC, IIIEIIID.<br />
</p><br />
<br />
<h4>Day 56 : 23-09-2012</h4><br />
<hr><br />
<p> <br />
Culture of single colonies from plates displaying single colonies.<br />
<br />
</p><br />
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<li><a href="https://2012.igem.org/Team:Bordeaux/Third">Third Week</a></li><br />
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<li><a href="https://2012.igem.org/Team:Bordeaux/Thirteenth">Thirteenth Week</a></li><br />
<br />
<br />
</ul><br />
</div><br />
<div class="grid9"><br />
<h4>Day 50 : 17-09-2012</h4><br />
<hr><br />
<p><br />
Today we did the ligations IAIB , IA'IB' , ICIE , IVAIIC5B , 5AIIICIIIEIIID , 5AIVDIVEIVC , IA IIC5B , IVA5AIVB , IVEIVC with the digestions from last friday.<br />
</br><br />
We inactivated the ligase after 1 hour 20°C incubation and pute the tubes overnight at 4°C<br />
</p><br />
<br />
<h4>Day 51 : 18-09-2012</h4><br />
<hr><br />
<p><br />
Today we transformed by electroporation the ligations from yesterday.<br />
</p><br />
<br />
<br />
<br />
<h4>Day 52 : 19-09-2012</h4><br />
<hr><br />
<p> <br />
Today we put the transformants into preculture.<br />
</br><br />
Nothing on IA'IB' , ICIE , IVAIIC5B , 5AIVDIVEIVC plates so we redid ligations for those assemblies.<br />
</p> <br />
<br />
<h4>Day 53 : 20-09-2012</h4><br />
<hr><br />
<p> <br />
Today we did a miniprep of the precultures<br />
<br />
</p><br />
<h4>Day 54 : 21-09-2012</h4><br />
<hr><br />
<p> <br />
Today we tested the plasmids on agarose gel.<br />
<br />
<div class="img-box"><br />
<figure><a><img src="http://openwetware.org/images/b/b9/Restriction2109_1.jpg" alt=""></a></figure><br />
<figure><a><img src="http://openwetware.org/images/1/14/Restriction2109_2.jpg" alt=""></a></figure><br />
<figure><a><img src="http://openwetware.org/images/b/b5/Restriction2109_3.jpg" alt=""></a></figure><br />
<br />
</div> <br />
</p> <br />
<br />
<h4>Day 55 : 22-09-2012</h4><br />
<hr><br />
<p> <br />
We started a new strategy using 3 operons instead of 4. As the first operon does not seem to assemble, we will simply put its promoter before the operon II. Thus, our system should work sooner.<br />
</br><br />
We also rethink operon IV and removed LsrR and LsrK. We removed as well the CIbox from operon III.<br />
</br><br />
We digest, ligate and transform : IVAIVEIVC, IIIA5AIIIC, IIIEIIID.<br />
</p><br />
<br />
<h4>Day 56 : 23-09-2012</h4><br />
<hr><br />
<p> <br />
Culture of single colonies from plates displaying single colonies.<br />
<br />
</p><br />
</div><br />
</div><br />
</div><br />
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<h3>Partners</h3><br />
<ul class="list1"><br />
<li><a href="http://ambafrance-us.org/spip.php?article415" title="Mst" target="_blank">AmbaFrance-us</a></li><br />
<li><a href="http://www.labri.fr/" title="LaBRI" target="_blank">LaBRI</a></li><br />
<li><a href="http://www.thermoscientific.com/" title="Thermo_scientific" target="_blank">Thermo Scientific</a></li><br />
</ul><br />
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<h3>Project</h3><br />
<ul class="list2"><br />
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<br />
<br />
<br />
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<div class="grid9"><br />
<h4>Day 47 : 11-09-2012</h4><br />
<hr><br />
<p><br />
Today we put the transformants into LB preculture.<br />
</p><br />
<br />
<h4>Day 48 : 12-09-2012</h4><br />
<hr><br />
<p><br />
Today we did a miniprep of the precultures and tested the plasmids on agarose gel.<br />
<div class="img-box"><br />
<figure><a><img src="http://openwetware.org/images/5/5c/Restriction1209.jpg" alt=""></a></figure><br />
<br />
</div><br />
</br><br />
Every brick is Ok The ligations didn't worked well the only good one is 5AIIIC.<br />
<br />
</p><br />
<br />
<br />
<br />
<h4>Day 49 : 14-09-2012</h4><br />
<hr><br />
<p> <br />
Today we digested the bricks needed for the ligations IAIB , IA'IB' , ICIE , IVAIIC5B , 5AIIICIIIEIIID , 5AIVDIVEIVC , IA IIC5B , IVA5AIVB , IVEIVC<br />
</br><br />
We decided to try new assemblies for a two operons system because of the little time left we will not be able to complete the 3 operons project<br />
</p> <br />
<br />
<br />
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<li><a href="http://www.labri.fr/" title="LaBRI" target="_blank">LaBRI</a></li><br />
<li><a href="http://www.thermoscientific.com/" title="Thermo_scientific" target="_blank">Thermo Scientific</a></li><br />
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<li><a href="https://2012.igem.org/Team:Bordeaux/Team">team</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Project">project</a></li><br />
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<li><a href="https://2012.igem.org/Team:Bordeaux/Eighth">Eighth Week</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Ninth">Ninth Week</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Tenth" class="current">Tenth Week</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Eleventh">Eleventh Week</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Twelfth">Twelfth Week</a></li><br />
<li><a href="https://2012.igem.org/Team:Bordeaux/Thirteenth">Thirteenth Week</a></li><br />
<br />
<br />
<br />
</ul><br />
</div><br />
<div class="grid9"><br />
<h4>Day 44 : 03-09-2012</h4><br />
<hr><br />
<p><br />
Today we did a miniprep of the precultures and runned a gel to test the plasmids.<br />
<div class="img-box"><br />
<figure><a><img src="http://openwetware.org/images/d/d2/030912_1.jpg" alt=""></a></figure><br />
<figure><a><img src="http://openwetware.org/images/6/6a/030912_2.jpg" alt=""></a></figure><br />
<br />
</div><br />
Operon 2 completed !<br />
</br><br />
But IVA5AIVB , 5AIIIC , IAIB ,ICIE and 5AIVDIVEIVC have to be redone.<br />
</p><br />
<br />
<h4>Day 45 : 06-09-2012</h4><br />
<hr><br />
<p><br />
Today we did the ligations for IVA5AIVB , 5AIVDIVEIVC and 5AIIIC <br />
</br><br />
then inactivated the ligase after 1h 20 °C incubation and put overnight at 4°C<br />
</p><br />
<br />
<br />
<br />
<h4>Day 46 : 07-09-2012</h4><br />
<hr><br />
<p> <br />
We transformed the ligations from yesterday plus biobricks IA ,IB ,IC ,IE and two new bricks IA' and IB' to make a new stock<br />
</br><br />
We then put the plate at room temperature over the weekend<br />
</p> <br />
<br />
<br />
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<li><a href="http://www.labri.fr/" title="LaBRI" target="_blank">LaBRI</a></li><br />
<li><a href="http://www.thermoscientific.com/" title="Thermo_scientific" target="_blank">Thermo Scientific</a></li><br />
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<li><a href="https://2012.igem.org/Team:Bordeaux/Thirteenth">Thirteenth Week</a></li><br />
<br />
<br />
<br />
</ul><br />
</div><br />
<div class="grid9"><br />
<h4>Day 39 : 27-08-2012</h4><br />
<hr><br />
<p><br />
Today we put the transformants (5 coloines per plate ) on LB precuture.<br />
</p><br />
<br />
<h4>Day 40 : 28-08-2012</h4><br />
<hr><br />
<p><br />
Today we did a miniprep of the precultures.<br />
</br><br />
And we runned a gel to test the ligations.<br />
</br><br />
IIIAIIB , 5AIVB and IIIDIIE are OK but ICIE will have to be redone.<br />
</p><br />
<br />
<br />
<br />
<h4>Day 41 : 29-08-2012</h4><br />
<hr><br />
<p> <br />
Today we did ligations for IVA5AIVB , 5AIVDIVEIVC , IIAIIBIIC(1)5B ,IAIB , 5AIIIC , ICIE.<br />
</br><br />
We inactivated the ligase after 1 hour 20°C incubation and put the samples on the fridge overnight.<br />
</p> <br />
<br />
<h4>Day 42 : 30-08-2012</h4><br />
<hr><br />
<p> <br />
Today we purified and transformed the ligations by electoporation.<br />
</p><br />
<br />
<h4>Day 43 : 31-08-2012</h4><br />
<hr><br />
<p> <br />
Today we put the transformants into a LB preculture and put them at room temperature over the weekend.<br />
<br />
</p><br />
<br />
<br />
<br />
</div><br />
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<h3>Partners</h3><br />
<ul class="list1"><br />
<li><a href="http://ambafrance-us.org/spip.php?article415" title="Mst" target="_blank">AmbaFrance-us</a></li><br />
<li><a href="http://www.labri.fr/" title="LaBRI" target="_blank">LaBRI</a></li><br />
<li><a href="http://www.thermoscientific.com/" title="Thermo_scientific" target="_blank">Thermo Scientific</a></li><br />
</ul><br />
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<h3>Project</h3><br />
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<br />
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<br />
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<h4>Day 34 : 20-08-2012</h4><br />
<hr><br />
<p><br />
Today we put 5 transformant colonies per plate into LB preculture And put to incubate overnight a 37°C<br />
</p><br />
<br />
<h4>Day 35 : 21-08-2012</h4><br />
<hr><br />
<p><br />
Today we did a miniprep for the tube witch had grown overnight<br />
</br><br />
Nanodrop results :<br />
<div class="img-box"><br />
<figure><a><img src="http://openwetware.org/images/c/c4/Restrictionsgel2208.jpg" alt=""></a></figure><br />
</div><br />
</p><br />
<br />
<br />
<br />
<h4>Day 36 : 22-08-2012</h4><br />
<hr><br />
<p> <br />
Today we tested the ligations on agarose gel<br />
</br><br />
IIC5B , 5AIVD , IVEIVC are OK but 5AIIIC and IIAIIB have to be remade.<br />
<br />
</p> <br />
<br />
<h4>Day 37 : 23-08-2012</h4><br />
<hr><br />
<p> <br />
Today we did new ligations for IAIB ICIE 5AIVB IIIAIIIB IIIEIIID.<br />
</br><br />
We decided to now put the ligation to incubate 1 hour at 20°C then inactivate the ligase 5 min at 80°C.<br />
<br />
</p><br />
<br />
<h4>Day 38 : 24-08-2012</h4><br />
<hr><br />
<p> <br />
Today we transformed the ligations from yesterday.<br />
</br><br />
Before transformation we purified the DNA by <a href="http://openwetware.org/wiki/Ethanol_precipitation_of_nucleic_acids">ethanol precipitation</a>.<br />
</br><br />
We used a new batch of electro-competent DH5α.<br />
<br />
</p><br />
<br />
<br />
<br />
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<li><a href="http://www.labri.fr/" title="LaBRI" target="_blank">LaBRI</a></li><br />
<li><a href="http://www.thermoscientific.com/" title="Thermo_scientific" target="_blank">Thermo Scientific</a></li><br />
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<h4>Day 29 : 13-08-2012</h4><br />
<hr><br />
<p><br />
Today we transformed the lovtap brick <br />
</p><br />
<br />
<h4>Day 30 : 14-08-2012</h4><br />
<hr><br />
<p><br />
Today we received the primers needed for backbone amplification So we runned a PCR for the four different backbones.<br />
</br><br />
We also started to make a new stock of competent cells by putting the cells to incubate on 250 mL SOB overnight.<br />
</p><br />
<br />
<br />
<br />
<h4>Day 31 : 15-08-2012</h4><br />
<hr><br />
<p> <br />
We checked on gel the results of the PCR wich runned overnight The amplification seem to have worked well we have a good amount of backbones on each tubes<br />
</br><br />
We plated IB1, IVD and IIB2 culture stock because we'll need more of those three bricks<br />
</br><br />
We also finished our new competent cells stock So we decided to test them with different amounts of a new IAIB ligation and as usual 1μg pBlueScript<br />
<div class="img-box"><br />
<figure><a><img src="http://openwetware.org/images/0/0c/Gel_1508.jpg" alt=""></a></figure><br />
</div><br />
<br />
<br />
<h4>Day 32 : 16-08-2012</h4><br />
<hr><br />
<p> <br />
Today we put the IAIB transformants colonies on LB preculture.<br />
</br><br />
We then did a ligation of ICIE , IIAIIB , IIC(1)5B , IIIAIIIB , 5AIIIC , IIIE IIID 5AIVD , IVEIVC and put them overnight at 4°C.<br />
</p><br />
<br />
<h4>Day 33 : 17-08-2012</h4><br />
<hr><br />
<p> <br />
Today we checked the digestions on agarose gel and we transformed the ligations from yesterday.<br />
</br><br />
The IAIB precultures had a fungal contamination.<br />
</p><br />
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</html></div>ChristopheDhttp://2012.igem.org/Team:Bordeaux/SixthTeam:Bordeaux/Sixth2012-09-26T18:48:31Z<p>ChristopheD: </p>
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<h4>Day 24 : 06-08-2012</h4><br />
<hr><br />
<p><br />
As the transformation didn't gave any colonies on the plate We decided to try again , and control on agarose gel as the gel seemed promising we transformed 2 μL of plasmid DNA We also tester the cells competence by transforming 1μg of pBlueScript and pSB1A3. <br />
</p><br />
<br />
<h4>Day 25 : 07-08-2012</h4><br />
<hr><br />
<p><br />
No colonies on the plates again ... even on the two tests we clearly have a competence issue. So we need to make a new stock<br />
today we tested the biobricks from day 19 on agarose gels </p><br />
<div class="img-box"><br />
<figure><a><img src="https://static.igem.org/mediawiki/2012/9/93/Restriction0708_1.jpg" alt=""></a></figure><br />
<figure><a><img src="http://openwetware.org/images/3/3d/Restriction0708_2.jpg" alt=""></a></figure><br />
<figure><a><img src="http://openwetware.org/images/9/92/Restriction0708_3.jpg" alt=""></a></figure><br />
<figure><a><img src="http://openwetware.org/images/2/28/Restriction0708_4.jpg" alt=""></a></figure><br />
<figure><a><img src="http://openwetware.org/images/5/53/Restriction0708_5.jpg" alt=""></a></figure><br />
</div><br />
<br />
<br />
<h4>Day 26 : 08-08-2012</h4><br />
<hr><br />
<p> <br />
Today we did a miniprep with the IAIB precultures from yesterday We got poor results from 14ng/μL to 36,6ng/μL DNA on the tubes We runned simple digested samples on an agarose gel but we couldn't discriminate the difference between the vector only and the IAIB+vector samples due to a too small deferences We'd have to run a more concentrated gel.<br />
</br><br />
We then tried the assembly of IAIB ICIE IIAIIB IIC(1)5B We digested the bricks and tested them on agarose gel. <br />
<div class="img-box"><br />
<figure><a><img src="http://openwetware.org/images/a/a3/Restriction0808_Bricks.jpg" alt=""></a></figure><br />
</div><br />
</br><br />
As IB digestion didn't worked we did and tested it again<br />
<div class="img-box"><br />
<figure><a><img src="http://openwetware.org/images/1/1a/Restriction0808_1B.png" alt=""></a></figure><br />
</div><br />
</br><br />
We then transformed the ligations into two new competent cells batches<br />
</br><br />
One heat shock competent DH10B stock and one heat shock competent DH5α stock<br />
</br><br />
We also tested the competence of the two new stocks with 1μg pBlueScript <br />
</p> <br />
<br />
<h4>Day 27 : 09-08-2012</h4><br />
<hr><br />
<p> <br />
Nothing on the plates ... Except for the DH5α pBluescript test<br />
<br />
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