Team:Paris

From 2008.igem.org

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{{Paris/Menu}}
{{Paris/Menu}}
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<center><font size = "5">'''Welcome to iGEM08 Paris' wiki page'''</font></center>
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<center><html><div style="color:#275D96; font-size:2em;">Grosse GROSSE GROOOOOSSSEEEEE Pomme de Terre !</div></html></center>
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=About Our Project: the BacteriO'Clock=
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[[Image:IGEM_paris_logo_bleu_dernier_copy.jpg|right|200px|iGEM Paris]]
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After several months of deep reflexion, our project took shape !
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Our project aims at biologically devising a “oscillating FIFO behaviour, synchronized at population level”. Such a setup will trigger periodic events and,therefore, can be considered as a “biological clock”. To completely deserve this appellation, the system has to fulfill the following specifications :
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* ''Oscillatory system'' : It will consist in providing a periodic output for the duration of the experiment. To do so, we will use a genetic cascade, initiated by a specific inducer which last step will inhibit the previously mentioned inducer.
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* ''FIFO System'' : The period of the oscillation is even more interesting if it allows the sequential switching on and off of several genes. Our setup involves three genes which will get activated and desactivated successively as a “FIFO : First In, First Out”. This sequence is monitored by a logic structure called Feed-Forward Loop (FFL).
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* ''Synchronization'' : Yet, being able to control this sequential activation within a single cell can be seen as a “first step” in biological clock devising. In order to amplify this phenomenon (to observe it in an easier way or even to find future applications), it has to be extended to a whole population of bacteria. Here comes the synchronization issue: we will use methods based on the “quorum sensing” phenomenon.
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We will base our project on an already existing structure, partly fulfilling the evoked specifications: the system that leads to the production of ''E. coli'' flagella.
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''For more information, have a look to our [[Team:Paris/Project|project]] page !''
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=News=
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''September 26th:''
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<br>Bye Bye Maurice! You were very usefull for us. We hope to see you next year.
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''August 4th:''
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[[Image:Maurice.jpg|thumb|[http://www1.qiagen.com/media/player.aspx?movie=QiaCubeImagefilmlarge&time=132 Maurice]]]
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<br>We are happy to welcome another member in the team : Maurice.<br>
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Maurice is excellent to do MiniPreps and Gel Extraction.<br>
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QIAGEN introduced him to us, his full name is [http://www1.qiagen.com/media/player.aspx?movie=QiaCubeProduktfilmlarge&time=163 QIAcube], he does up to 12 MiniPreps simultaneously in less than 30 minutes...<br> Thanks to him and to QIAGEN, we will spare a lot of time !
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<br><br><br>
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''July:''
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[[Image:Transfo.jpg|thumb|left|A successful Transformation]]
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<br><br><br><br>We managed to build and transform our first biobricks.
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<br>Here, a strong constitutive promoter activates the expression of GFP tripart.
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<br> Beautiful, isn't it ?
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<br><br><br><br><br><br>
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[[Image:image_montre.jpg]]
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= The BacteriO'Clock =  
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=We are extremely grateful to the organizations that support our project=
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{|
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|width=20%| [[Image:bettencourt.png]]
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|width=30%| Bettencourt-Schueller Foundation
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[http://www.fondationbs.org/ www.fondationbs.org]
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|width=20%| [[Image:Logocri.jpg|110px]]
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|width=30%| Centre de Recherches Interdisciplinaires
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[http://www.cri-paris.org/fr/cri/ www.cri-paris.org/fr/cri/]
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|[[Image:Embassy.png|210px]]
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|Embassy of France in the United States
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[http://www.ambafrance-us.org/ www.ambafrance-us.org]
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|[[Image:Gdrbim.jpg|100px]]
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|GdR BiM
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[http://www.gdr-bim.u-psud.fr/ www.gdr-bim.u-psud.fr]
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|[[Image:Ibisc.jpeg|100px]]
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|Ibisc Laboratory
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[http://www.ibisc.univ-evry.fr/ www.ibisc.univ-evry.fr]
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Have you ever dreamt of a new way of thinking everyday life objects ? Be sure, this will come true, under the form of our BacteriO'Clock ! A simple test tube which contains our modified bacteria will give you the time, directly from living organisms. The hours of the day are color-coded and oscillations ensure the repeated periodic behaviour.
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|[[Image:Logo INRIA.jpg|190px]]
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|INRIA
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<embed  width="213" height="160"  src="http://biosynthetique.free.fr/videos/flv_player/flvplayer.swf?autostart=true&amp;repeat&amp;file=http://perso.strepsiade.org/~gvieira/out2.flv" quality="high" type="application/x-shockwave-flash"  allowfullscreen="true" align="right"/>
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[http://www.inria.fr/ www.inria.fr]
 
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|[[Image:LogoPCU1.jpg|130px]]
 
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|Paris Centre Universités
 
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[http://www.pariscentreuniversites.fr/ www.pariscentreuniversites.fr]
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|[[Image:Qiagen.GIF|100px]]
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|Qiagen
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To achieve this incredible project, we relied on a well characterized genetic structure that allows a specific sequence of fluorescent proteins expression to occur in a First In - First Out order. This FIFO behaviour enables us to define a rich color encoding of day time. An additional negative feedback loop generates clock oscillations!
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[http://www.qiagen.com/ www.qiagen.com/]
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Based on in-depth studies and experimentally measured parameters we develope models that show that this system is not likely to oscillate, and indicate ways to improve the initial design. In particular, this can be achieved by HSL production that enforces a necessary delay and provides an elegant cell synchronization mechanism :
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[[Image:Unimo.png|center|Simple visualization of our color coded BacteriO'Clock]]
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In a nutshell, the new trendy item which will make every biologist in your lab jealous will soon be available. Despise a long-cloning period all biobricks and other constructions are now available. Furthermore, we initiated an extensive characterization plan of these parts. If you manage to wait for the updates, you might even get the version which automatically react to daylight saving time ;)
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<a href="http://www4.clustrmaps.com/counter/maps.php?url=https://2008.igem.org/Team:Paris" id="clustrMapsLink">
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Revision as of 01:21, 30 October 2008


Grosse GROSSE GROOOOOSSSEEEEE Pomme de Terre !


The BacteriO'Clock

Have you ever dreamt of a new way of thinking everyday life objects ? Be sure, this will come true, under the form of our BacteriO'Clock ! A simple test tube which contains our modified bacteria will give you the time, directly from living organisms. The hours of the day are color-coded and oscillations ensure the repeated periodic behaviour.

To achieve this incredible project, we relied on a well characterized genetic structure that allows a specific sequence of fluorescent proteins expression to occur in a First In - First Out order. This FIFO behaviour enables us to define a rich color encoding of day time. An additional negative feedback loop generates clock oscillations!

Based on in-depth studies and experimentally measured parameters we develope models that show that this system is not likely to oscillate, and indicate ways to improve the initial design. In particular, this can be achieved by HSL production that enforces a necessary delay and provides an elegant cell synchronization mechanism :

Simple visualization of our color coded BacteriO'Clock

In a nutshell, the new trendy item which will make every biologist in your lab jealous will soon be available. Despise a long-cloning period all biobricks and other constructions are now available. Furthermore, we initiated an extensive characterization plan of these parts. If you manage to wait for the updates, you might even get the version which automatically react to daylight saving time ;)