Team:Toulouse/Safety

From 2014.igem.org

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<!--SUMMARY-->
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<p><b>
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<p class="title1">
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Summary :</b><br><br>
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Summary :</p>
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<p class="texte">
iGEM Safety<br>
iGEM Safety<br>
Chassis Organism<br>
Chassis Organism<br>
New and/or modified coding region<br>
New and/or modified coding region<br>
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Safety in our lab<br>
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Team safety</p>
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</p>
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<br>
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<!--PARTIE iGEM SAFETY-->
<!--PARTIE iGEM SAFETY-->
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<p>
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<p class="title1">iGEM Safety</p>
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<b>iGEM Safety</b><br>
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<p class ="texte">Our safety form was approved on September X, 2014 by the iGEM team. We filled in with the help of Nathalie Doubrovine, safety officer at the LISBP.
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Our safety form was approved on September X, 2014 by the iGEM team. We filled in with the help of Nathalie Doubrovine, safety officer at the LISBP.
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</p>
</p>
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<br>
 
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<br>
 
<!--TABLE CHASSIS ORGANISM-->
<!--TABLE CHASSIS ORGANISM-->
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<p class="title1">Chassis organisms</p>
<table border="1" width="100%" height="20%" id="Chassis">
<table border="1" width="100%" height="20%" id="Chassis">
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<tr>
<tr>
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<td><b>Species name (including strain)</b></td>
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<td><b><p class ="texte">Species name (including strain)</b></td>
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<td><b>Risk group</b></td>
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<td><b><p class ="texte">Risk group</b></td>
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<td><b>Risk Group Source</b></td>
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<td><b><p class ="texte">Risk Group Source</b></td>
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<td><b>Disease risk to humans ?</b></td>
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<td><b><p class ="texte">Disease risk to humans ?</b></td>
</tr>
</tr>
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<td><i>Escherichia coli MC1061</i></td>
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<td><i><p class ="texte">Escherichia coli MC1061</i></p></td>
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<td>1</td>
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<td><p class ="texte">1</p></td>
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<td><a href="http://www.dsmz.de/catalogues/details/culture/DSM-7140.html">DSMZ</a>
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<td><p class ="texte"><a href="http://www.dsmz.de/catalogues/details/culture/DSM-7140.html">DSMZ</p></a>
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<td>No. These organisms do not cause disease in healthy adult humans. (However, they might cause diseases in young children, elderly people, or people with immune system deficiencies.)</td>
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<td><p class ="texte">No. These organisms do not cause disease in healthy adult humans. (However, they might cause diseases in young children, elderly people, or people with immune system deficiencies.)</p></td>
</tr>
</tr>
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<tr>
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<td><i>Bacillus subtilis 168</i></td>
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<td><p class ="texte"><i>Bacillus subtilis 168</i></p></td>
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<td>1</td>
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<td><p class ="texte">1</p></td>
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<td><a href="http://www.dsmz.de/catalogues/details/culture/DSM-23778.html">DSMZ</a>
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<td><p class ="texte"><a href="http://www.dsmz.de/catalogues/details/culture/DSM-23778.html">DSMZ</p></a>
-
<td>No. These organisms do not cause disease in healthy adult humans. (However, they might cause diseases in young children, elderly people, or people with immune system deficiencies.)</td>
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<td><p class ="texte">No. These organisms do not cause disease in healthy adult humans. (However, they might cause diseases in young children, elderly people, or people with immune system deficiencies.)</p></td>
</tr>
</tr>
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<td><i>Aspergillus brasiliensis 246.65 CBS</i></td>
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<td><p class ="texte"><i>Aspergillus brasiliensis 246.65 CBS</i></p></td>
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<td>1</td>
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<td><p class ="texte">1</p></td>
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<td><a href="http://www.dsmz.de/catalogues/details/culture/DSM-63263.html">DSMZ</a>
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<td><p class ="texte"><a href="http://www.dsmz.de/catalogues/details/culture/DSM-63263.html">DSMZ</p></a>
-
<td>No. These organisms do not cause disease in healthy adult humans. (However, they might cause diseases in young children, elderly people, or people with immune system deficiencies.)</td>
+
<td><p class ="texte">No. These organisms do not cause disease in healthy adult humans. (However, they might cause diseases in young children, elderly people, or people with immune system deficiencies.)</p></td>
</tr>
</tr>
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<tr>
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<td><i>Chaetomium globosum 148.51 CBS</i></td>
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<td><p class ="texte"><i>Chaetomium globosum 148.51 CBS</i></p></td>
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<td>1</td>
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<td><p class ="texte">1</p></td>
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<td><a href="http://www.dsmz.de/catalogues/details/culture/DSM-1962.html">DSMZ</a>
+
<td><p class ="texte"><a href="http://www.dsmz.de/catalogues/details/culture/DSM-1962.html">DSMZ</p></a>
-
<td>No. These organisms do not cause disease in healthy adult humans. (However, they might cause diseases in young children, elderly people, or people with immune system deficiencies.)</td>
+
<td><p class ="texte">No. These organisms do not cause disease in healthy adult humans. (However, they might cause diseases in young children, elderly people, or people with immune system deficiencies.)</p></td>
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</tr>
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<tr>
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<td><p class ="texte"><i>Trichoderma reesei CBS 383.78</i></p></td>
 +
<td><p class ="texte">1</p></td>
 +
<td><p class ="texte"><a href="http://www.dsmz.de/catalogues/details/culture/DSM-768.html">DSMZ</p></a>
 +
<td><p class ="texte">No. These organisms do not cause disease in healthy adult humans. (However, they might cause diseases in young children, elderly people, or people with immune system deficiencies.)</p></td>
 +
</tr>
 +
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<tr>
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<td><p class ="texte"><i>Aspergillus nidulans CBS 124.59</i></p></td>
 +
<td><p class ="texte">1</p></td>
 +
<td><p class ="texte"><a href="http://www.dsmz.de/catalogues/details/culture/DSM-820.html">DSMZ</p></a>
 +
<td><p class ="texte">No. These organisms do not cause disease in healthy adult humans. (However, they might cause diseases in young children, elderly people, or people with immune system deficiencies.)</p></td>
</tr>
</tr>
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</table>
</table>
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<br>
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<br><br>
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<br>
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<!--TABLE NEW AND/OR MODIFIED CODING REGION-->
<!--TABLE NEW AND/OR MODIFIED CODING REGION-->
 +
<p class="title1">New and/or modified coding region</p>
<table border="1" width="100%" height="20%" id="Coding">
<table border="1" width="100%" height="20%" id="Coding">
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<tr>
<tr>
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<td><b>Part number/name</b></td>
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<td><b><p class ="texte">Part number/name</p></b></td>
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<td><b>Natural function of part</b></td>
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<td><b><p class ="texte">Natural function of part</p></b></td>
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<td><b>How did you acquire it?</b></td>
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<td><b><p class ="texte">How did you acquire it?</p></b></td>
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<td><b>How will you use it?</b></td>
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<td><b><p class ="texte">How will you use it?</p></b></td>
</tr>
</tr>
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<tr>
<tr>
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<td>RBS (K090505) +  Chimiotaxis + Terminator(B0015)</td>
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<td><p class ="texte"><a href="http://parts.igem.org/Part:BBa_K1364000">BBa_K1364000</p></td>
-
<td>Chimiotaxis code for a chimeric protein (based on McpA (1-34/283-661) from B.sub and VCD_00306(28-315) from V.cholerae)</td>
+
<td><p class ="texte">N-acetylatedGlucosamine based chemotaxis for <i>Bacillus subtilis</i></p></td>
-
<td>We order this gene from a synthesis company (Eurofins)</td>
+
<td><p class ="texte">We order this gene from a synthesis company (Eurofins)</p></td>
-
<td>This part allows the bacterium to reach the fungus</td>
+
<td><p class ="texte">This part allows the bacterium to reach the fungus</p></td>
-
</tr>
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-
<!--3eme ligne-->
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-
<tr>
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-
<td>RBS (K090505) + binding  + Terminator(B0015)</td>
+
-
<td>"Binding" code for a chimeric binding protein (based on LYCT (1-318) from B.sub and GBPA (324-384) from V.Cholerae) with a linker between.</td>
+
-
<td>We order this gene from a synthesis company (Eurofins)</td>
+
-
<td>This part allows the bacterium to fix the fungus</td>
+
</tr>
</tr>
<!--4eme ligne-->
<!--4eme ligne-->
<tr>
<tr>
-
<td>RBS (K090505) + GAFP1</td>
+
<td><p class ="texte"><a href="http://parts.igem.org/Part:BBa_K1364002">BBa_K1364002</p></td>
-
<td>GAFP1 code for a antifungal. GAFP1 come from arachis hypogaea (Peanut)</td>
+
<td><p class ="texte">RBS - Antifungal GAFP-1</p></td>
-
<td>We order this gene from a synthesis company (Eurofins)</td>
+
<td><p class ="texte">We order this gene from a synthesis company (Eurofins)</p></td>
-
<td>This part produces a fungicide. By this way, the bacteria is able to kill fungus.</td>
+
<td><p class ="texte">This part produces a fungicide. By this way, the bacteria is able to kill fungus.</p></td>
</tr>
</tr>
<!--5eme ligne-->
<!--5eme ligne-->
<tr>
<tr>
-
<td>RBS (K090505) + D4E1  + Terminator(B0015)</td>
+
<td><p class ="texte"><a href="http://parts.igem.org/Part:BBa_K1364003">BBa_K1364003</p></td>
-
<td>D4E1 code for a antifungal. DAE1 is a synthetic gene</td>
+
<td><p class ="texte">RBS - Antifungal D4E1 - Double terminator</p></td>
-
<td>We order this gene from a synthesis company (Eurofins)</td>
+
<td><p class ="texte">We order this gene from a synthesis company (Eurofins)</p></td>
-
<td>This part produces a fungicide. By this way, the bacteria is able to kill fungus.</td>
+
<td><p class ="texte">This part produces a fungicide. By this way, the bacteria is able to kill fungus.</p></td>
</tr>
</tr>
<!--6eme ligne-->
<!--6eme ligne-->
<tr>
<tr>
-
<td>Promoter(K823003) + (K1364000: RBS (K090505) +  Chimiotaxis + Terminator(B0015))</td>
+
<td><p class ="texte"><a href="http://parts.igem.org/Part:BBa_K1364004">BBa_K1364004</p></td>
-
<td>Promoter Pveg, and Chimiotaxis part</td>
+
<td><p class ="texte">P<sub>veg</sub> + N-acetylatedglucosamine based chemotaxis for <i>Bacillus subtilis</i></p></td>
-
<td>We made it</td>
+
<td><p class ="texte">We made it</p></td>
-
<td>This part allows the bacterium to reach the fungus</td>
+
<td><p class ="texte">This part allows the bacterium to reach the fungus</p></td>
</tr>
</tr>
<!--7eme ligne-->
<!--7eme ligne-->
<tr>
<tr>
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<td>Promoter(K823003) + (K1364001: RBS (K090505) +  Binding + Terminator(B0015))</td>
+
<td><p class ="texte"><a href="http://parts.igem.org/Part:BBa_K1364005">BBa_K1364005</p></td>
-
<td>Promoter Pveg, and binding part</td>
+
<td><p class ="texte">P<sub>veg</sub> + Chitin Binding Protein for <i>Bacillus subtilis</i></p></td>
-
<td>We made it</td>
+
<td><p class ="texte">We made it</p></td>
-
<td>This part allow the bacterium to fix the fungus</td>
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<td><p class ="texte">This part allow the bacterium to fix the fungus</p></td>
</tr>
</tr>
<!--8eme ligne-->
<!--8eme ligne-->
<tr>
<tr>
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<td>(K1364004: Promoter(K823003) + RBS (K090505) +  Chimiotaxis + Terminator(B0015))+(K1364005: Promoter(K823003) + RBS (K090505) +  Binding + Terminator(B0015))</td>
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<td><p class ="texte"><a href="http://parts.igem.org/Part:BBa_K1364006">BBa_K1364006</p></td>
-
<td>Double expression cassette</td>
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<td><p class ="texte">Double expression cassette</p></td>
-
<td>We made it</td>
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<td><p class ="texte">We made it</p></td>
-
<td>This part allows the bacterium to reach and bind the fungus</td>
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<td><p class ="texte">This part allows the bacterium to reach and bind the fungus</p></td>
</tr>
</tr>
<!--9eme ligne-->
<!--9eme ligne-->
<tr>
<tr>
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<td>Promoteur(K823003) + (K1364002 : RBS (K090505) + GAFP1)</td>
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<td><p class ="texte"><a href="http://parts.igem.org/Part:BBa_K1364007">BBa_K1364007</p></td>
-
<td>Promoter Pveg, and GAFP1 part</td>
+
<td><p class ="texte">RBS + Antifungal GAFP-1 + Double terminator</p></td>
-
<td>We made it</td>
+
<td><p class ="texte">We made it</p></td>
-
<td>This part produces a fungicide. By this way, the bacterium is able to kill fungus</td>
+
<td><p class ="texte">This part produces a fungicide. By this way, the bacterium is able to kill fungus</p></td>
</tr>
</tr>
<!--10eme ligne-->
<!--10eme ligne-->
<tr>
<tr>
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<td>(K1364002 : Promoteur(K823003) + RBS (K090505) + GAFP1) + Terminator (B0015)</td>
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<td><p class ="texte"><a href="http://parts.igem.org/Part:BBa_K1364008">BBa_K1364008</p></td>
-
<td>Promoter Pveg, and GAFP1 part with a double terminator</td>
+
<td><p class ="texte">P<sub>veg</sub> - strong RBS - Antifungal GAFP-1 - Double terminator</p></td>
-
<td>We made it</td>
+
<td><p class ="texte">We made it</p></td>
-
<td>This part produces a fungicide. By this way, the bacterium is able to kill fungus</td>
+
<td><p class ="texte">This part produces a fungicide. By this way, the bacterium is able to kill fungus</p></td>
</tr>
</tr>
<!--11eme ligne-->
<!--11eme ligne-->
<tr>
<tr>
-
<td>Promoter(K823003) + (K1364003 : RBS (K090505) + D4E1  + Terminator(B0015))</td>
+
<td><p class ="texte"><a href="http://parts.igem.org/Part:BBa_K1364009">BBa_K1364009</p></td>
-
<td>Promoter(K823003) + (K1364003 : RBS (K090505) + D4E1 + Terminator(B0015))</td>
+
<td><p class ="texte">P<sub>veg</sub> - RBS - Antifungal D4E1 - Double Terminator</p></td>
-
<td>We made it</td>
+
<td><p class ="texte">We made it</p></td>
-
<td>This part produces a fungicide. By this way, the bacterium is able to kill fungus</td>
+
<td><p class ="texte">This part produces a fungicide. By this way, the bacterium is able to kill fungus</p></td>
</tr>
</tr>
<!--12eme ligne-->
<!--12eme ligne-->
<tr>
<tr>
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<td>K71364010: Promoter + RBS + EcAMP) + terminator(B0015)</td>
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<td><p class ="texte"><a href="http://parts.igem.org/Part:BBa_K1364010">BBa_K1364010</p></td>
-
<td>Promoter Pveg, RBS SpoVG, Antifungal EcAMP, double terminator</td>
+
<td><p class ="texte">P<sub>veg</sub>-SpoVG + EcAMP-1</p></td>
-
<td>We made it</td>
+
<td><p class ="texte">We made it</p></td>
-
<td>This part produces a fungicide. By this way, the bacterium is able to kill fungus</td>
+
<td><p class ="texte">This part produces a fungicide. By this way, the bacterium is able to kill fungus</p></td>
</tr>
</tr>
<!--13eme ligne-->
<!--13eme ligne-->
<tr>
<tr>
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<td>K1364002 : RBS  + GAFP1  ) + (K1364003: RBS + D4E1 + terminator)</td>
+
<td><p class ="texte"><a href="http://parts.igem.org/Part:BBa_K1364011">BBa_K1364011</p></td>
-
<td>RBS consensus, Antifungal GAFP1, RBS consensus, Antifungal D4E1, double terminator</td>
+
<td><p class ="texte">P<sub>veg</sub>-spoVG + EcAMP-1 + Double terminator</p></td>
-
<td>We made it</td>
+
<td><p class ="texte">We made it</p></td>
-
<td>This part produces a fungicide. By this way, the bacterium is able to kill fungus</td>
+
<td><p class ="texte">This part produces a fungicide. By this way, the bacterium is able to kill fungus</p></td>
</tr>
</tr>
-
<!--14eme ligne-->
+
<!--15eme ligne-->
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<tr>
 +
<td><p class ="texte"><a href="http://parts.igem.org/Part:BBa_K1364013">BBa_K1364013</p></td>
 +
<td><p class ="texte">P<sub>veg</sub> - RBS - Antifungal GAFP-1 - RBS - Antifungal D4E1 - Double terminator</p></td>
 +
<td><p class ="texte">We made it</p></td>
 +
<td><p class ="texte">This part produces a fungicide. By this way, the bacterium is able to kill fungus.</p></td>
 +
</tr>
 +
<!--15eme ligne-->
 +
<tr>
 +
<td><p class ="texte"><a href="http://parts.igem.org/Part:BBa_K1364015">BBa_K1364015</p></td>
 +
<td><p class ="texte">P<sub>veg</sub> + RFP</p></td>
 +
<td><p class ="texte">We made it</p></td>
 +
<td><p class ="texte">This part produces a fluorescent protein. By this way we can evaluate promotor P<sub>veg</sub> strength.</p></td>
 +
</tr>
 +
<!--15eme ligne-->
 +
<tr>
 +
<td><p class ="texte"><a href="http://parts.igem.org/Part:BBa_K1364016">BBa_K1364016</p></td>
 +
<td><p class ="texte">P<sub>lepA</sub> + RFP</p></td>
 +
<td><p class ="texte">We made it</p></td>
 +
<td><p class ="texte">This part produces a fluorescent protein. By this way we can evaluate promotor P<sub>lepA</sub> strength.</p></td>
 +
</tr>
 +
<!--15eme ligne-->
 +
<tr>
 +
<td><p class ="texte"><a href="http://parts.igem.org/Part:BBa_K1364017">BBa_K1364017</p></td>
 +
<td><p class ="texte">Promotor P<sub>lepA</sub> + RBS spoVG</p></td>
 +
<td><p class ="texte">We made it</p></td>
 +
<td><p class ="texte">This part provide us a high level of translation.</p></td>
 +
</tr>
 +
<!--15eme ligne-->
<tr>
<tr>
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<td>Promoter(K823003)+(K1364012 : RBS  + GAFP1  +  RBS + D4E1 + terminator)</td>
+
<td><p class ="texte"><a href="http://parts.igem.org/Part:BBa_K1364019">BBa_K1364019</p></td>
-
<td>Promoter Pveg, RBS consensus, Antifungal GAFP1, RBS consensus, Antifungal D4E1, double terminator</td>
+
<td><p class ="texte">P<sub>veg</sub> + RBS + Antifungal EcAMP-1 + Double terminator</p></td>
-
<td>We made it</td>
+
<td><p class ="texte">We made it</p></td>
-
<td>This part produces a fungicide. By this way, the bacterium is able to kill fungus.</td>
+
<td><p class ="texte">This part produces a fungicide. By this way, the bacterium is able to kill fungus.</p></td>
</tr>
</tr>
<!--15eme ligne-->
<!--15eme ligne-->
<tr>
<tr>
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<td>(K71364010: Promoter + RBS + EcAMP) + (K1364012 : RBS  + GAFP1  +  RBS + D4E1 + terminator)</td>
+
<td><p class ="texte"><a href="http://parts.igem.org/Part:BBa_K1364021">BBa_K1364021</p></td>
-
<td>Promoter Pveg,  RBS SpoVG, Antifungal EcAMP, RBS consensus, Antifungal GAFP1, RBS consensus, Antifungal D4E1, double terminator</td>
+
<td><p class ="texte">Integrative plasmid for <i>Bacillus subtilis</i></p></td>
-
<td>We made it</td>
+
<td><p class ="texte">We made it</p></td>
-
<td>This part produces a fungicide. By this way, the bacterium is able to kill fungus.</td>
+
<td><p class ="texte">This part is an integration vector.</p></td>
</tr>
</tr>
</table>
</table>
<br>
<br>
 +
 +
<p class="title1">Team safety</p>
 +
<p class="title2">Safety in INSA de Toulouse</p>
 +
<p class="texte">INSA de Toulouse is a public school for engineers. The biosafety guidelines are not specific to our institution, the French regulations are applied.<br>
 +
The regulation about the workers' prevention against risks resulting from their exposure to pathogenic biological agents (Decree No. 94-352 of 4 May 1994) includes microorganisms, cell cultures and human endoparasites which may cause infection, allergy or toxicity. <br>
 +
This Decree is the French transposition of the Directive 90/679 / EEC and is also transcribed in the Labour Code (Articles L4421-1 R4421-1 to R4427-5.)<br>
 +
The <a href="http://www.legifrance.gouv.fr/affichTexte.do?cidTexte=JORFTEXT000000465273&dateTexte=&categorieLien=id">Decree of the 16 July 2007</a> describes the technical preventive measures (including containment) to set up in research laboratories, education, analysis, anatomy and surgical pathology, autopsy rooms, and industrial and agricultural facilities where workers are likely to be exposed to biological pathogens.<br>
 +
The rules of health, safety, and preventive medicine applied in public services in France (and thus in all public facilities working in scientific and technological domains) are set out in the <a href="http://www.legifrance.gouv.fr/affichTexte.do?cidTexte=LEGITEXT000006063791">Decree No. 82-453</a>. This decree refers to the Labour Code, Public Health Code and Environmental Code.<br>
 +
The <a href="http://legifrance.gouv.fr/affichTexte.do?cidTexte=JORFTEXT000024584737&categorieLien=id">Decree No. 2011-1177</a> is related to the use of genetically modified organisms.<br>
 +
<br>
 +
There is no one in charge of the biological safety at the INSA de Toulouse. However there is an organization which includes one prevention advisor and several prevention assistants in each of the structure. As far as the LISBP (our structure) is concerned, Nathalie Doubrovine is the prevention assistant.<br>
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We have already discussed our project with her. She has given us the safety training and she will give us advices about how to respond to an imminent danger.<br>
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She raised the problem of GMO and the related policy. Indeed she told us there is a special procedure for the destruction of GMO: we cannot wash this kind of organism down the drain.<br>
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We were also informed about the potential chemical and microbiological risks with her.<br>
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<br>
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The laboratory safety training requirements of the LISBP are detailed into the Rules of Procedure of the LISBP.<br>
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The legislation requires employers to inform "all new employees" of the risks that they may encounter as well as ways to protect themselves from those risks. Therefore any newcomer must pass a practical and appropriate training in hygiene and safety to ensure its own safety and the one of his colleagues.<br>
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Every person that enters in the LISBP has to make this training whatever its status (researcher, PhD student, trainee, etc.).<br>
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The training is divided into two parts. The first one is a training concerning general risk prevention into research laboratories. This one is made individually thanks to the software NEO and with the explanations of the prevention assistant. The second one is a training about the techniques used during the occupation.<br>
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<br>
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All the team members have received this safety training. It lasts 1h30. It concerns fire risks, biological and chemical risks and good laboratory practices. We have made this training individually with software designed by the CNRS and INSERM named NEO. This training ends with a questionnaire to check our knowledge. This questionnaire reminds us the basic safety rules in a molecular biology lab and gives us new knowledge about safety.<br>
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We have also made a training to know how to sort out biological waste and how they are treated. We also learned that we cannot use autoclave by ourselves because a specific training is needed. We did not do this specific training.<br>
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</p>
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<p class="title2">Safety in the lab</p>
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<!--CITATION-->
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<p class="citation">
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"If you don't think it's safe, it probably isn't"</p>
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<p class="texte">We have organized our workspace. There is the relaxing room where no microbial material should enter. In this room, we can eat and drink (a fridge, a kettle and a coffeemaker are available) but it is also the room where we have our meetings and where we can work on our computers. There is the lab, where we have to wear protective equipment and respect basic rules.</p>
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<p class="title3">Personal protective equipment</p>
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<p class="texte">As soon as we manipulate in the lab, we have to wear the following personal protective equipment:</p>
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<center><table>
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<tr><td><p class="texte">- A conventional lab coat, closed with long sleeves</p></td>
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<td><img src="https://static.igem.org/mediawiki/2014/9/9c/Lab_coat.png"></td></tr>
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<tr><td><p class="texte">- Closed shoes</p></td>
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<td><img src="https://static.igem.org/mediawiki/2014/8/82/Shoes.png"></td></tr>
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<tr><td><p class="texte">- Gloves</p></td>
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<td><img src="https://static.igem.org/mediawiki/2014/3/37/Gloves.png"></td></tr>
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<tr><td><p class="texte">- - Glasses if needed (UV exposure, hot water or chemicals manipulation.) </p></td>
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<td><img src="https://static.igem.org/mediawiki/2014/b/b4/Glasses.png"></td></tr>
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</table></center>
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<p class="title3">Basic rules in a lab</p>
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<p class="citation">
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"If you don't think it's safe, it probably isn't"
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</p>
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Revision as of 16:27, 11 October 2014