Team:Toulouse/Result/parts/Submitted parts

From 2014.igem.org

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   <div class="fils-ariane" style="width:100%; height:60px; background:#ededed;">
   <div class="fils-ariane" style="width:100%; height:60px; background:#ededed;">
-
   <p style="margin:0 auto; color:#696969; width:960px; padding-top:20px; font-size:16px;"> Results&nbsp;&nbsp;&nbsp;>&nbsp;&nbsp;&nbsp;Parts</p>  
+
   <p style="margin:0 auto; color:#696969; width:960px; padding-top:20px; font-size:16px;"> <a href="https://2014.igem.org/Team:Toulouse/Result/experimental-results">Results</a>&nbsp;&nbsp;&nbsp;>&nbsp;&nbsp;&nbsp;<a href="https://2014.igem.org/Team:Toulouse/Result/parts">Parts</a>&nbsp;&nbsp;&nbsp;>&nbsp;&nbsp;&nbsp;Submitted parts</p>  
   </div>
   </div>
Line 148: Line 148:
      
      
-
<p class="title1">Submitted parts</p>
 
-
 
<p class="texte">
<p class="texte">
-
We have deposed 16 new BioBrick parts to the Registry.  
+
We deposited 16 new BioBrick parts in the Registry.  
-
All of them were cloned into the standard plasmid pSB1C3, tested and sequenced.<br>
+
Most of them were cloned into the standard plasmid pSB1C3, tested and sequenced.<br>
 +
All our Biobrick are resumed in <a href="http://parts.igem.org/cgi/partsdb/pgroup.cgi?pgroup=iGEM2014&group=Toulouse&Done=1">Parts Sandbox</a>.
<!--à vérifier et confirmer-->
<!--à vérifier et confirmer-->
</p>
</p>
-
<p style="font-size:1.3em;"><a href="#" onClick="ddaccordion.collapseall('technology'); return false">Collapse all</a>  | <a href="#" onClick="ddaccordion.expandall('technology'); return false">Expand all</a></p>
+
<p class="title1">Chemotaxis</p>
-
 
+
-
 
+
-
<p class="title2">I. Chemotaxis</p>
+
-
 
+
-
<div class="technology"><a href="http://parts.igem.org/Part:BBa_K1364000">BBa_K1364000</a>: N-acetylglucosamine based chemotaxis for <i>Bacillus subtilis</i></div>
+
-
<div class="thelanguage">
+
 +
<table>
 +
<td valign="top"; align="center";>
 +
<p class="title2";>
 +
<a href="http://parts.igem.org/Part:BBa_K1364000">BBa_K1364000</a></p></td>
 +
<td valign="top"; align="center";>
 +
<div class="technology2">Strong RBS - N-acetylglucosamine based chemotaxis for <i>Bacillus subtilis</i> - Double terminator</div>
 +
<div class="thelanguage2">
<p class="texte">This part is designed to enable a N-acetylglucosamine  
<p class="texte">This part is designed to enable a N-acetylglucosamine  
-
based chemotaxis in <i>Bacillus subtilis</i>.
+
based chemotaxis in <i>B. subtilis</i>.</p>
<p class="title4">Design</p>
<p class="title4">Design</p>
<p class="texte">The encoded protein is a chimera of two proteins:<br>
<p class="texte">The encoded protein is a chimera of two proteins:<br>
-
- the methyl accepting Chemotaxis protein (McpA from <i>Bacillus subtilis</i> which is required for taxis towards glucose.<br>
+
- the methyl accepting Chemotaxis protein (McpA from <i>B. subtilis</i> which is required for taxis towards glucose.<br>
- the N-acetylglucosamine regulated methyl-accepting chemotaxis protein from <i>Vibrio cholerae</i> (VCD).<br>
- the N-acetylglucosamine regulated methyl-accepting chemotaxis protein from <i>Vibrio cholerae</i> (VCD).<br>
<br>
<br>
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these domains correspond to the amino acids 1-37 and 282-610.  
these domains correspond to the amino acids 1-37 and 282-610.  
The extracellular domain of VCD is inserted between the intracellular regions of McpA  
The extracellular domain of VCD is inserted between the intracellular regions of McpA  
-
to sense N-acetylglucosamine and corresponds to the amino acids 31-310.<br></p>
+
to sense N-acetylglucosamine and corresponds to the amino acids 31-310.</p>
<img src="https://static.igem.org/mediawiki/2014/a/a2/BBa_K1364000.png">
<img src="https://static.igem.org/mediawiki/2014/a/a2/BBa_K1364000.png">
<p class="title4">Type</p>
<p class="title4">Type</p>
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<p class="texte">Uniprot:<br>
<p class="texte">Uniprot:<br>
- <a href="http://www.uniprot.org/uniprot/P39214">McpA</a><br>
- <a href="http://www.uniprot.org/uniprot/P39214">McpA</a><br>
-
- <a href="http://www.uniprot.org/uniprot/C3NYT2">N-acetylglucosamine regulated methyl-accepting chemotaxis protein</a><br></p>
+
- <a href="http://www.uniprot.org/uniprot/C3NYT2">N-acetylglucosamine regulated methyl-accepting chemotaxis protein</a></p>
<!--à compléter-->
<!--à compléter-->
-
</p>
+
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology2', 0); return false">Collapse</a></p>
-
<br>
+
</div></td></table>
-
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology', 0); return false">Collapse</a></p>
+
<table>
-
</div>
+
<td valign="top"; align="center";>
-
 
+
<p class="title2";>
-
<div class="technology"><a href="http://parts.igem.org/Part:BBa_K1364004">BBa_K1364004</a>: P<sub>veg</sub> + N-acetylatedglucosamine based chemotaxis for <i>B. subtilis</i></div>
+
<a href="http://parts.igem.org/Part:BBa_K1364004">BBa_K1364004</a></p></td>
-
<div class="thelanguage">
+
<td valign="top"; align="center";>
-
+
<div class="technology2">P<sub>veg</sub> - Strong RBS - N-acetylglucosamine based chemotaxis for <i>Bacillus subtilis</i> - Double terminator</div>
-
<br>
+
<div class="thelanguage2">
<p class="texte">This part is designed to enable a N-acetylglucosamine based chemotaxis in <i>Bacillus subtilis</i>.</p>
<p class="texte">This part is designed to enable a N-acetylglucosamine based chemotaxis in <i>Bacillus subtilis</i>.</p>
<p class="title4">Design</p>
<p class="title4">Design</p>
<p class="texte">This expression cassette is designed for the expression of an antifungal peptide,  
<p class="texte">This expression cassette is designed for the expression of an antifungal peptide,  
-
D4E1 and for its secretion in <i>Bacillus subtilis</i>.
+
D4E1 and for its secretion in <i>B. subtilis</i>.
-
It is composed of the strong, constitutive promotor of <i>B. subtilis</i>  
+
It is composed of the strong, constitutive promoter of <i>B. subtilis</i>  
-
P<sub>veg</sub> (<a href="http://parts.igem.org/wiki/index.php/Part:BBa_K823003">K823003</a>),
+
P<sub>veg</sub> (<a href="http://parts.igem.org/wiki/index.php/Part:BBa_K823003">BBa_K823003</a>),
-
strong RBS for <i>B. subtilis</i> (<a href="http://parts.igem.org/Part:BBa_K780002">K780002</a>),
+
strong RBS for <i>B. subtilis</i> (<a href="http://parts.igem.org/Part:BBa_K780002">BBa_K780002</a>),
the open reading frame of D4E1
the open reading frame of D4E1
-
and a double terminator (<a href="http://parts.igem.org/Part:BBa_B0015">B0015</a>)</p>
+
and a double terminator (<a href="http://parts.igem.org/Part:BBa_B0015">BBa_B0015</a>)</p>
<img src="https://static.igem.org/mediawiki/2014/3/35/BBa_K1364004.png">
<img src="https://static.igem.org/mediawiki/2014/3/35/BBa_K1364004.png">
<p class="title4">Type</p>
<p class="title4">Type</p>
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- <a href="http://www.uniprot.org/uniprot/C3NYT2">N-acetylglucosamine regulated methyl-accepting chemotaxis protein</a></p>
- <a href="http://www.uniprot.org/uniprot/C3NYT2">N-acetylglucosamine regulated methyl-accepting chemotaxis protein</a></p>
-
 
+
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology2', 1); return false">Collapse</a></p>
-
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology', 0); return false">Collapse</a></p>
+
</div></td></table>
-
</div>
+
<br></br>
<br></br>
-
<p class="title2">II. Binding</p>
+
<p class="title1">Binding</p>
-
 
+
<table>
-
<div class="technology"><a href="http://parts.igem.org/Part:BBa_K1364005">BBa_K1364005</a>:  P<sub>veg</sub> + Chitin Binding Cell Wall protein</div>
+
<td valign="top"; align="center";>
-
<div class="thelanguage">
+
<p class="title2";>
 +
<a href="http://parts.igem.org/Part:BBa_K1364005">BBa_K1364005</a></p></td>
 +
<td valign="top"; align="center";>
 +
<div class="technology2"></a>P<sub>veg</sub> - RBS consensus - Chitin Binding protein - Double terminator</div>
 +
<div class="thelanguage2">
<p class="texte">This part is designed to enable the binding of <i>Bacillus subtilis</i> to the fungi wall made of chitin.<p/>
<p class="texte">This part is designed to enable the binding of <i>Bacillus subtilis</i> to the fungi wall made of chitin.<p/>
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<p class="title4">References</p>
<p class="title4">References</p>
<p class="texte">- Wong E, Vaaje-Kolstad G, Ghosh A, Hurtado-Guerrero R, Konarev PV, et al. (2012)<br>
<p class="texte">- Wong E, Vaaje-Kolstad G, Ghosh A, Hurtado-Guerrero R, Konarev PV, et al. (2012)<br>
-
- The Vibrio cholerae Colonization Factor GbpA Possesses a Modular Structure that Governs Binding to Different Host Surfaces. PLoS Pathog 8(1): e1002373. doi:10.1371/journal.ppat.1002373<br>
+
- The <i>Vibrio cholerae</i> Colonization Factor GbpA Possesses a Modular Structure that Governs Binding to Different Host Surfaces. PLoS Pathog 8(1): e1002373. doi:10.1371/journal.ppat.1002373
</p>
</p>
-
 
+
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology2', 2); return false">Collapse</a></p>
-
<br>
+
</div></td></table>
-
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology', 2); return false">Collapse</a></p>
+
-
</div>
+
<br></br>
<br></br>
-
<p class="title2"> III. Fungicides</p>
+
<p class="title1">Fungicides</p>
<p class="title3">GAFP-1</p>
<p class="title3">GAFP-1</p>
<br>
<br>
-
 
+
<table>
-
<div class="technology"><a href="http://parts.igem.org/Part:BBa_K1364002">BBa_K1364002</a>: RBS - Antifungal GAFP-1</div>
+
<td valign="top"; align="center";>
-
<div class="thelanguage">
+
<p class="title2";>
 +
<a href="http://parts.igem.org/Part:BBa_K1364002">BBa_K1364002</a></p></td>
 +
<td valign="top"; align="center";>
 +
<div class="technology2"> Strong RBS - Antifungal GAFP-1</div>
 +
<div class="thelanguage2">
<p class="texte">The <i>Gastrodia</i> anti-fungal protein(GAFP-1), also known as gastrodianin,  is a mannose and chitin binding lectin
<p class="texte">The <i>Gastrodia</i> anti-fungal protein(GAFP-1), also known as gastrodianin,  is a mannose and chitin binding lectin
-
  originating from the Asiatic orchid Gastrodia elata, a traditional Chinese medicinal herb cultured for thousands of years.
+
  originating from the Asiatic orchid <i>Gastrodia elata</i>, a traditional Chinese medicinal herb cultured for thousands of years.
  GAFP-1 is composed of 15 amino acids LDSLSFSYNNFEEDD and is able to inhibit the growth of multiples species of plant pathogenic fungi.</p>
  GAFP-1 is composed of 15 amino acids LDSLSFSYNNFEEDD and is able to inhibit the growth of multiples species of plant pathogenic fungi.</p>
<p class="title4">Design</p>
<p class="title4">Design</p>
-
<p class="texte">This part is composed of a Strong RBS (<a href="http://parts.igem.org/Part:BBa_K780002">K780002</a>) and
+
<p class="texte">This part is composed of a Strong RBS (<a href="http://parts.igem.org/Part:BBa_K780002">BBa_K780002</a>) and
the open reading frame of the <i>Gastrodia</i> anti-fungal protein 1 (GAFP-1)
the open reading frame of the <i>Gastrodia</i> anti-fungal protein 1 (GAFP-1)
optimized for its expression and its secretion in <i>Bacillus subtilis</i>.
optimized for its expression and its secretion in <i>Bacillus subtilis</i>.
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<p class="title4">References</p>
<p class="title4">References</p>
<p class="texte">- Wong E, Vaaje-Kolstad G, Ghosh A, Hurtado-Guerrero R, Konarev PV, et al. (2012)<br>
<p class="texte">- Wong E, Vaaje-Kolstad G, Ghosh A, Hurtado-Guerrero R, Konarev PV, et al. (2012)<br>
-
- The Vibrio cholerae Colonization Factor GbpA Possesses a Modular Structure that Governs Binding to Different Host Surfaces. PLoS Pathog 8(1): e1002373. doi:10.1371/journal.ppat.1002373<br></p>
+
- The <i>Vibrio cholerae</i> Colonization Factor GbpA Possesses a Modular Structure that Governs Binding to Different Host Surfaces. PLoS Pathog 8(1): e1002373. doi:10.1371/journal.ppat.1002373</p>
-
<br>
+
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology2', 3); return false">Collapse</a></p>
-
 
+
</div></td></table>
-
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology', 3); return false">Collapse</a></p>
+
-
</div>
+
-
 
+
-
<div class="technology"><a href="http://parts.igem.org/Part:BBa_K1364007">BBa_K1364007</a>: RBS + Antifungal GAFP-1 + Double terminator</div>
+
-
<div class="thelanguage">
+
-
 
+
 +
<table>
 +
<td valign="top"; align="center";>
 +
<p class="title2";>
 +
<a href="http://parts.igem.org/Part:BBa_K1364007">BBa_K1364007</a></p></td>
 +
<td valign="top"; align="center";>
 +
<div class="technology2">Strong RBS - Antifungal GAFP-1 - Double terminator</div>
 +
<div class="thelanguage2">
<p class="texte">The <i>Gastrodia</i> anti-fungal protein(GAFP-1), also known as gastrodianin,  is a mannose and chitin binding lectin
<p class="texte">The <i>Gastrodia</i> anti-fungal protein(GAFP-1), also known as gastrodianin,  is a mannose and chitin binding lectin
-
  originating from the Asiatic orchid Gastrodia elata, a traditional Chinese medicinal herb cultured for thousands of years.
+
  originating from the Asiatic orchid <i>Gastrodia elata</i>, a traditional Chinese medicinal herb cultured for thousands of years.
  GAFP-1 is composed of 15 amino acids LDSLSFSYNNFEEDD and is able to inhibit the growth of multiples species of plant pathogenic fungi.</p>
  GAFP-1 is composed of 15 amino acids LDSLSFSYNNFEEDD and is able to inhibit the growth of multiples species of plant pathogenic fungi.</p>
<p class="title4">Design</p>
<p class="title4">Design</p>
-
<p class="texte">This part is composed of a Strong RBS (<a href="http://parts.igem.org/Part:BBa_K780002">K780002</a>),
+
<p class="texte">This part is composed of a Strong RBS (<a href="http://parts.igem.org/Part:BBa_K780002">BBa_K780002</a>),
the open reading frame of the <i>Gastrodia</i> anti-fungal protein 1 (GAFP-1)  
the open reading frame of the <i>Gastrodia</i> anti-fungal protein 1 (GAFP-1)  
-
and a double terminator <a href="http://parts.igem.org/Part:BBa_B0015">B0015</a>.
+
and a double terminator <a href="http://parts.igem.org/Part:BBa_B0015">BBa_B0015</a>.
optimized for its expression and its secretion in <i>Bacillus subtilis</i>.
optimized for its expression and its secretion in <i>Bacillus subtilis</i>.
The codon optimization was made thanks to the DNA 2.0 software program.</p>
The codon optimization was made thanks to the DNA 2.0 software program.</p>
Line 299: Line 305:
<p class="title4">References</p>
<p class="title4">References</p>
<p class="texte">- Wong E, Vaaje-Kolstad G, Ghosh A, Hurtado-Guerrero R, Konarev PV, et al. (2012)<br>
<p class="texte">- Wong E, Vaaje-Kolstad G, Ghosh A, Hurtado-Guerrero R, Konarev PV, et al. (2012)<br>
-
- The Vibrio cholerae Colonization Factor GbpA Possesses a Modular Structure that Governs Binding to Different Host Surfaces. PLoS Pathog 8(1): e1002373. doi:10.1371/journal.ppat.1002373<br></p>
+
- The <i>Vibrio cholerae</i> Colonization Factor GbpA Possesses a Modular Structure that Governs Binding to Different Host Surfaces. PLoS Pathog 8(1): e1002373. doi:10.1371/journal.ppat.1002373</p>
-
<br>
+
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology2', 4); return false">Collapse</a></p>
-
 
+
</div></td></table>
-
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology', 4); return false">Collapse</a></p>
+
-
</div>
+
-
 
+
-
<div class="technology"><a href="http://parts.igem.org/Part:BBa_K1364008">BBa_K1364008</a>: P<sub>veg</sub> - strong RBS - Antifungal GAFP-1 - Double terminator</div>
+
-
<div class="thelanguage">
+
 +
<table>
 +
<td valign="top";align="center";>
 +
<p class="title2";>
 +
<a href="http://parts.igem.org/Part:BBa_K1364008">BBa_K1364008</a></p></td>
 +
<td valign="top"; align="center";>
 +
<div class="technology2"> P<sub>veg</sub> - Strong RBS - Antifungal GAFP-1 - Double terminator</div>
 +
<div class="thelanguage2">
<p class="texte">This expression cassette is designed for the expression and secretion of the <i>Gastrodia</i> anti-fungal protein(GAFP-1), also known as gastrodianin. GAFP-1 is a mannose and chitin binding lectin
<p class="texte">This expression cassette is designed for the expression and secretion of the <i>Gastrodia</i> anti-fungal protein(GAFP-1), also known as gastrodianin. GAFP-1 is a mannose and chitin binding lectin
-
  originating from the Asiatic orchid Gastrodia elata, a traditional Chinese medicinal herb cultured for thousands of years.
+
  originating from the Asiatic orchid <i>Gastrodia elata</i>, a traditional Chinese medicinal herb cultured for thousands of years.
  GAFP-1 is composed of 15 amino acids LDSLSFSYNNFEEDD and is able to inhibit the growth of multiples species of plant pathogenic fungi.</p>
  GAFP-1 is composed of 15 amino acids LDSLSFSYNNFEEDD and is able to inhibit the growth of multiples species of plant pathogenic fungi.</p>
<p class="title4">Design</p>
<p class="title4">Design</p>
-
<p class="texte">This part is composed of the strong, constitutive promoter of <i>Bacillus subtilis</i> P<sub>veg</sub> (<a href="http://parts.igem.org/wiki/index.php/Part:BBa_K823003">K823003</a>),
+
<p class="texte">This part is composed of the strong, constitutive promoter of <i>Bacillus subtilis</i> P<sub>veg</sub> (<a href="http://parts.igem.org/wiki/index.php/Part:BBa_K823003">BBa_K823003</a>),
-
strong RBS (<a href="http://parts.igem.org/Part:BBa_K780002">K780002</a>),
+
strong RBS (<a href="http://parts.igem.org/Part:BBa_K780002">BBa_K780002</a>),
the open reading frame of the <i>Gastrodia</i> anti-fungal protein 1 (GAFP-1)  
the open reading frame of the <i>Gastrodia</i> anti-fungal protein 1 (GAFP-1)  
and a double terminator (<a href="http://parts.igem.org/Part:BBa_B0015">B0015</a>).
and a double terminator (<a href="http://parts.igem.org/Part:BBa_B0015">B0015</a>).
-
optimized for its expression and its secretion in <i>Bacillus subtilis</i>.
+
optimized for its expression and its secretion in <i>B. subtilis</i>.
The codon optimization was made thanks to the DNA 2.0 software program.</p>
The codon optimization was made thanks to the DNA 2.0 software program.</p>
-
<img src="https://static.igem.org/mediawiki/2014/6/67/BBa_K1364008.png">
+
<img src="https://static.igem.org/mediawiki/parts/4/47/1364008a.jpg">
<p class="title4">Type</p>
<p class="title4">Type</p>
<p class="texte">Generator</p>
<p class="texte">Generator</p>
Line 325: Line 333:
<p class="title4">References</p>
<p class="title4">References</p>
<p class="texte">- Wong E, Vaaje-Kolstad G, Ghosh A, Hurtado-Guerrero R, Konarev PV, et al. (2012)<br>
<p class="texte">- Wong E, Vaaje-Kolstad G, Ghosh A, Hurtado-Guerrero R, Konarev PV, et al. (2012)<br>
-
- The Vibrio cholerae Colonization Factor GbpA Possesses a Modular Structure that Governs Binding to Different Host Surfaces. PLoS Pathog 8(1): e1002373. doi:10.1371/journal.ppat.1002373<br>
+
- The <i>Vibrio cholerae</i> Colonization Factor GbpA Possesses a Modular Structure that Governs Binding to Different Host Surfaces. PLoS Pathog 8(1): e1002373. doi:10.1371/journal.ppat.1002373
</p>
</p>
-
 
+
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology2', 5); return false">Collapse</a></p>
-
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology', 5); return false">Collapse</a></p>
+
</div></td></table>
-
</div>
+
<br></br>
<br></br>
Line 336: Line 343:
<br>
<br>
-
 
+
<table>
-
<div class="technology"><a href="http://parts.igem.org/Part:BBa_K1364003">BBa_K1364003</a>:RBS - Antifungal D4E1 - Double terminator</div>
+
<td valign="top"; align="center";>
-
<div class="thelanguage">
+
<p class="title2";>
-
 
+
<a href="http://parts.igem.org/Part:BBa_K1364003">BBa_K1364003</a></p></td>
-
 
+
<td valign="top"; align="center";>
 +
<div class="technology2">Strong RBS - Antifungal D4E1 - Double terminator</div>
 +
<div class="thelanguage2">
<p class="texte">D4E1 is a linear synthetic peptide of 17 amino acids  
<p class="texte">D4E1 is a linear synthetic peptide of 17 amino acids  
which has shown to have antifungal activities  
which has shown to have antifungal activities  
by complexing with a sterol present in conodial wall of a varety of fungi.</p>
by complexing with a sterol present in conodial wall of a varety of fungi.</p>
<p class="title4">Design</p>
<p class="title4">Design</p>
-
<p class="texte">This part is composed of a Strong RBS (<a href="http://parts.igem.org/Part:BBa_K780002">K780002</a>),
+
<p class="texte">This part is composed of a Strong RBS (<a href="http://parts.igem.org/Part:BBa_K780002">BBa_K780002</a>),
the open reading frame of D4E1 and  
the open reading frame of D4E1 and  
-
a Double terminator (<a href="http://parts.igem.org/Part:BBa_B0015">B0015</a>)
+
a Double terminator (<a href="http://parts.igem.org/Part:BBa_B0015">BBa_B0015</a>)
optimized for its expression and its secretion in <i>Bacillus subtilis</i>.
optimized for its expression and its secretion in <i>Bacillus subtilis</i>.
-
This part was optimized for the expression and its secretion in <i>Bacillus subtilis </i>
+
This part was optimized for the expression and its secretion in <i>B. subtilis </i>
thanks to the DNA 2.0 software program.</p>
thanks to the DNA 2.0 software program.</p>
<img src="https://static.igem.org/mediawiki/2014/b/bb/BBa_K1364003.png">
<img src="https://static.igem.org/mediawiki/2014/b/bb/BBa_K1364003.png">
Line 357: Line 366:
<p class="texte">This part was tested on the fungi <i>Trichoderma reesei</i> (See <a href="https://2014.igem.org/Team:Toulouse/Result/experimental-results">Fungicides module</a>)</p>
<p class="texte">This part was tested on the fungi <i>Trichoderma reesei</i> (See <a href="https://2014.igem.org/Team:Toulouse/Result/experimental-results">Fungicides module</a>)</p>
<p class="title4">References</p>
<p class="title4">References</p>
-
<p class="texte">- De Lucca AJ, Bland JM, Grimm C, Jacks TJ, Cary JW, Jaynes JM, Cleveland TE, Walsh TJ. Fungicidal properties, sterol binding, and proteolytic resistance of the synthetic peptide D4E1.<br>
+
<p class="texte">- De Lucca AJ, Bland JM, Grimm C, Jacks TJ, Cary JW, Jaynes JM, Cleveland TE, Walsh TJ. Fungicidal properties, sterol binding, and proteolytic resistance of the synthetic peptide D4E1.<br>
-
- Can J Microbiol. 1998 Jun;44(6):514-20.</p>
+
- Can J Microbiol. 1998 Jun;44(6):514-20.</p>
-
 
+
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology2', 6); return false">Collapse</a></p>
-
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology', 6); return false">Collapse</a></p>
+
</div></td></table>
-
</div>
+
-
 
+
-
 
+
-
<div class="technology"><a href="http://parts.igem.org/Part:BBa_K1364009">BBa_K1364009</a>:P<sub>veg</sub> - RBS - Antifungal D4E1 - Double Terminator</div>
+
-
<div class="thelanguage">
+
 +
<table>
 +
<td valign="top"; align="center";>
 +
<p class="title2";>
 +
<a href="http://parts.igem.org/Part:BBa_K1364009">BBa_K1364009</a></p></td>
 +
<td valign="top"; align="center";>
 +
<div class="technology2">P<sub>veg</sub> - Strong RBS - Antifungal D4E1 - Double Terminator</div>
 +
<div class="thelanguage2">
<p class="texte">
<p class="texte">
D4E1 is a linear synthetic peptide of 17 amino acids  
D4E1 is a linear synthetic peptide of 17 amino acids  
Line 372: Line 383:
by complexing with a sterol present in conodial wall of a varety of fungi.</p>
by complexing with a sterol present in conodial wall of a varety of fungi.</p>
<p class="title4">Design</p>
<p class="title4">Design</p>
-
<p class="texte">This part is composed of the strong, constitutive promotor of <i>B. subtilis</i>  
+
<p class="texte">This part is composed of the strong, constitutive promoter of <i>Bacillus subtilis</i>  
-
P<sub>veg</sub> (<a href="http://parts.igem.org/wiki/index.php/Part:BBa_K823003">K823003</a>),
+
P<sub>veg</sub> (<a href="http://parts.igem.org/wiki/index.php/Part:BBa_K823003">BBa_K823003</a>),
-
a strong RBS (<a href="http://parts.igem.org/Part:BBa_K780002">K780002</a>),
+
a strong RBS (<a href="http://parts.igem.org/Part:BBa_K780002">BBa_K780002</a>),
the open reading frame of D4E1 and  
the open reading frame of D4E1 and  
-
a double terminator (<a href="http://parts.igem.org/Part:BBa_B0015">B0015</a>).
+
a double terminator (<a href="http://parts.igem.org/Part:BBa_B0015">BBa_B0015</a>).
-
This part was optimized for the expression and its secretion in <i>Bacillus subtilis </i>
+
This part was optimized for the expression and its secretion in <i>B.subtilis </i>
thanks to the DNA 2.0 software program.</p>
thanks to the DNA 2.0 software program.</p>
<img src="https://static.igem.org/mediawiki/2014/4/47/BBa_K1364009.png">
<img src="https://static.igem.org/mediawiki/2014/4/47/BBa_K1364009.png">
Line 385: Line 396:
<p class="texte">This part was tested on the fungi <i>Trichoderma reesei</i> (See <a href="https://2014.igem.org/Team:Toulouse/Result/experimental-results">Fungicides module</a>)</p>
<p class="texte">This part was tested on the fungi <i>Trichoderma reesei</i> (See <a href="https://2014.igem.org/Team:Toulouse/Result/experimental-results">Fungicides module</a>)</p>
<p class="title4">References</p>
<p class="title4">References</p>
-
<p class="texte">- De Lucca AJ, Bland JM, Grimm C, Jacks TJ, Cary JW, Jaynes JM, Cleveland TE, Walsh TJ. Fungicidal properties, sterol binding, and proteolytic resistance of the synthetic peptide D4E1.<br>
+
<p class="texte">- De Lucca AJ, Bland JM, Grimm C, Jacks TJ, Cary JW, Jaynes JM, Cleveland TE, Walsh TJ. Fungicidal properties, sterol binding, and proteolytic resistance of the synthetic peptide D4E1.<br>
-
- Can J Microbiol. 1998 Jun;44(6):514-20.</p>
+
- Can J Microbiol. 1998 Jun;44(6):514-20.</p>
-
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology', 7); return false">Collapse</a></p>
+
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology2', 7); return false">Collapse</a></p>
-
</div>
+
</div></td></table>
<br></br>
<br></br>
Line 395: Line 406:
<p class="title3">EcAMP-1</p>
<p class="title3">EcAMP-1</p>
-
<div class="technology"><a href="http://parts.igem.org/Part:BBa_K1364010">BBa_K1364010</a>: P<sub>veg</sub> - SpoVG - Antifungal EcAMP-1</div>
+
<table>
-
<div class="thelanguage">
+
<td valign="top"; align="center";>
-
 
+
<p class="title2";>
 +
<a href="http://parts.igem.org/Part:BBa_K1364010">BBa_K1364010</a></p></td>
 +
<td valign="top"; align="center";>
 +
<div class="technology2">P<sub>veg</sub> - RBS SpoVG - Antifungal EcAMP-1</div>
 +
<div class="thelanguage2">
<p class="texte">
<p class="texte">
EcAMP-1 is an antimicrobial peptide of 37 amino acids  
EcAMP-1 is an antimicrobial peptide of 37 amino acids  
Line 407: Line 422:
<p class="title4">Design</p>
<p class="title4">Design</p>
<p class="texte">This part is composed of the constitutive promoter P<sub>veg</sub> and
<p class="texte">This part is composed of the constitutive promoter P<sub>veg</sub> and
-
strong RBS for <i>B. subtilis</i>
+
strong RBS for <i>Bacillus subtilis</i>
-
(<a href="http://parts.igem.org/Part:BBa_K733013">K733013</a>) and
+
(<a href="http://parts.igem.org/Part:BBa_K733013">BBa_K733013</a>) and
the open reading frame of EcAMP-1.<br>
the open reading frame of EcAMP-1.<br>
The EcAMP-1 part was codon optimized for <i>E. coli</i> by the iGEM Utah State team
The EcAMP-1 part was codon optimized for <i>E. coli</i> by the iGEM Utah State team
Line 418: Line 433:
<p class="texte">This part is not tested yet.</p>
<p class="texte">This part is not tested yet.</p>
<p class="title4">References</p>
<p class="title4">References</p>
-
<p class="texte"><!--à compléter : demander à emeline--></p>
+
<p class="texte">Svetlana B. Nolde, Alexander A. Vassilevski, Eugene A. Rogozhin, Nikolay A. Barinov, Tamara A. Balashova, Olga V. Samsonova, Yuri V. Baranov, Alexey S. Arseniev and Eugene V. Grishin. <b>Disulfide-stabilized Helical Hairpin Structure and Activity of a Novel Antifungal Peptide EcAMP1 from Seeds of Barnyard Grass (<i>Echinochloa crus-galli</i>)</b>. The journal of Biological Chemistry. 2011, Vol. 286, 25145–25153</p>
-
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology', 8); return false">Collapse</a></p>
+
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology2', 8); return false">Collapse</a></p>
-
</div>
+
</div></td></table>
-
 
+
<table>
-
<div class="technology"><a href="http://parts.igem.org/Part:BBa_K1364011">BBa_K1364011</a>: P<sub>veg</sub> - SpoVG - Antifungal EcAMP-1 - Double terminator</div>
+
<td valign="top"; align="center";>
-
<div class="thelanguage">
+
<p class="title2";>
 +
<a href="http://parts.igem.org/Part:BBa_K1364011">BBa_K1364011</a></p></td>
 +
<td valign="top"; align="center";>
 +
<div class="technology2"> P<sub>veg</sub> - RBS SpoVG - Antifungal EcAMP-1 - Double terminator</div>
 +
<div class="thelanguage2">
<p class="texte" id="select10">
<p class="texte" id="select10">
Line 436: Line 455:
<p class="title4">Design</p>
<p class="title4">Design</p>
<p class="texte">This part is composed of the constitutive promoter P<sub>veg</sub> and
<p class="texte">This part is composed of the constitutive promoter P<sub>veg</sub> and
-
strong RBS for <i>B. subtilis</i>
+
strong RBS for <i>Bacillus subtilis</i>
-
(<a href="http://parts.igem.org/Part:BBa_K733013">K733013</a>),
+
(<a href="http://parts.igem.org/Part:BBa_K733013">BBa_K733013</a>),
the open reading frame of EcAMP-1 and  
the open reading frame of EcAMP-1 and  
-
a double terminator (<a href="http://parts.igem.org/Part:BBa_B0015">B0015</a>).<br>
+
a double terminator (<a href="http://parts.igem.org/Part:BBa_B0015">BBa_B0015</a>).<br>
-
The EcAMP-1 part was codon optimized for <i>E. coli</i> by the iGEM Utah State team
+
The EcAMP-1 part was codon optimized for <i>Escherichia coli</i> by the iGEM Utah State team
and thanks to the Life Technologies GeneArt software program. </p>
and thanks to the Life Technologies GeneArt software program. </p>
<img src="https://static.igem.org/mediawiki/2014/7/74/BBa_K1364011.png">
<img src="https://static.igem.org/mediawiki/2014/7/74/BBa_K1364011.png">
Line 448: Line 467:
<p class="texte">This part is not tested yet.</p>
<p class="texte">This part is not tested yet.</p>
<p class="title4">References</p>
<p class="title4">References</p>
-
<p class="texte"><!--à compléter : demander à emeline--></p>
+
<p class="texte">Svetlana B. Nolde, Alexander A. Vassilevski, Eugene A. Rogozhin, Nikolay A. Barinov, Tamara A. Balashova, Olga V. Samsonova, Yuri V. Baranov, Alexey S. Arseniev and Eugene V. Grishin. <b>Disulfide-stabilized Helical Hairpin Structure and Activity of a Novel Antifungal Peptide EcAMP1 from Seeds of Barnyard Grass (<i>Echinochloa crus-galli</i>)</b>. The journal of Biological Chemistry. 2011, Vol. 286, 25145–25153</p>
-
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology', 9); return false">Collapse</a></p>
+
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology2', 9); return false">Collapse</a></p>
-
</div>
+
</div></td></table>
 +
 
 +
<table>
 +
<td valign="top"; align="center";>
 +
<p class="title2";>
 +
<a href="http://parts.igem.org/Part:BBa_K1364019">BBa_K1364019</a></p></td>
 +
<td valign="top"; align="center";>
 +
<div class="technology2">P<sub>veg</sub> - RBS - Antifungal EcAMP-1 (revised with a stop codon) - Double terminator</div>
 +
<div class="thelanguage2">
 +
 
 +
<p class="texte">EcAMP-1 is an antimicrobial peptide of 37 amino acids
 +
originated from the specie <i>Echinochloa crus-galli</i>,
 +
a type of wild grass.
 +
This peptide has a particular structure : it is helical because of two disulfide bonds.<br>
 +
EcAMP-1 has shown to have antifungal activities. Its mode of action may be the prevention of hyphae elongation.<br>
 +
This part was added to the Registry by the iGEM Utah State team in 2013.</br>
 +
We observed the presence of the stop codon in the suffix. When we have digested this Biobrick, it disappeared. So we added this codon in upstream of the suffix and now, we can reuse this Biobrick.
 +
</p>
 +
<p class="title4">Design</p>
 +
<p class="texte">This part is composed of the constitutive promoter P<sub>veg</sub> and
 +
strong RBS for <i>Bacillus subtilis</i>
 +
(<a href="http://parts.igem.org/Part:BBa_K733013">BBa_K733013</a>),
 +
<b>the revised open reading frame of EcAMP-1 (with a stop codon) </b> and
 +
a double terminator (<a href="http://parts.igem.org/Part:BBa_B0015">BBa_B0015</a>).<br>
 +
The EcAMP-1 part was codon optimized for <i>Escherichia coli</i> by the iGEM Utah State team
 +
and thanks to the Life Technologies GeneArt software program. </p>
 +
<img src="https://static.igem.org/mediawiki/2014/7/74/BBa_K1364011.png">
 +
<p class="title4">Type</p>
 +
<p class="texte">Composite</p>
 +
<p class="title4">Tests</p>
 +
<p class="texte">This part was not tested yet</p>
 +
<p class="title4">References</p>
 +
<p class="texte">Svetlana B. Nolde, Alexander A. Vassilevski, Eugene A. Rogozhin, Nikolay A. Barinov, Tamara A. Balashova, Olga V. Samsonova, Yuri V. Baranov, Alexey S. Arseniev and Eugene V. Grishin. <b>Disulfide-stabilized Helical Hairpin Structure and Activity of a Novel Antifungal Peptide EcAMP1 from Seeds of Barnyard Grass (<i>Echinochloa crus-galli</i>)</b>. The journal of Biological Chemistry. 2011, Vol. 286, 25145–25153</p>
 +
 
 +
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology2', 13); return false">Collapse</a></p>
 +
</div></td></table>
<br></br>
<br></br>
Line 457: Line 511:
<p class="title3">Fungicide operons</p>
<p class="title3">Fungicide operons</p>
   
   
-
<div class="technology"><a href="http://parts.igem.org/Part:BBa_K1364013">BBa_K1364013</a>: P<sub>veg</sub> - SpoVG - Antifungal EcAMP-1 - Double terminator</div>
+
<table>
-
<div class="thelanguage">
+
<td valign="top"; align="center";>
-
 
+
<p class="title2";>
 +
<a href="http://parts.igem.org/Part:BBa_K1364013">BBa_K1364013</a></p></td>
 +
<td valign="top"; align="center";>
 +
<div class="technology2">P<sub>veg</sub> - Strong RBS - Antifungal GAFP-1 - Strong RBS - Antifungal  D4E1 - Double terminator</div>
 +
<div class="thelanguage2">
<p class="texte">
<p class="texte">
<p class="title4">Design</p>
<p class="title4">Design</p>
<p class="texte">This part is designed for the co-expression of two different peptides  
<p class="texte">This part is designed for the co-expression of two different peptides  
with anti-fungal activities : D4E1 and GAFP-1.  
with anti-fungal activities : D4E1 and GAFP-1.  
-
It is composed of the strong, constitutive promotor of <i>B. subtilis</i>  
+
It is composed of the strong, constitutive promoter of <i>Bacillus subtilis</i>  
-
P<sub>veg</sub> (<a href="http://parts.igem.org/wiki/index.php/Part:BBa_K823003">K823003</a>)  
+
P<sub>veg</sub> (<a href="http://parts.igem.org/wiki/index.php/Part:BBa_K823003">BBa_K823003</a>)  
and the translation unit with GAFP-1 and D4E1 (BBa_K1364012).</p>
and the translation unit with GAFP-1 and D4E1 (BBa_K1364012).</p>
<img src="https://static.igem.org/mediawiki/2014/4/40/BBa_K1364013.png">
<img src="https://static.igem.org/mediawiki/2014/4/40/BBa_K1364013.png">
Line 475: Line 533:
See <a href="http://parts.igem.org/Part:BBa_K1364002">BBa_K1364002</a> and <a href="http://parts.igem.org/Part:BBa_K1364003">BBa_K1364003</a>.</p>
See <a href="http://parts.igem.org/Part:BBa_K1364002">BBa_K1364002</a> and <a href="http://parts.igem.org/Part:BBa_K1364003">BBa_K1364003</a>.</p>
-
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology', 10); return false">Collapse</a></p>
+
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology2', 10); return false">Collapse</a></p>
-
</div>
+
</div></td></table>
<br></br>
<br></br>
-
<p class="title2">Basic tools</p>
+
<p class="title1">Basic tools</p>
-
<div class="technology"><a href="http://parts.igem.org/Part:BBa_K1364015">BBa_K1364015</a>: P<sub>veg</sub> + RFP</div>
+
<table>
-
<div class="thelanguage">
+
<td valign="top"; align="center";>
 +
<p class="title2";>
 +
<a href="http://parts.igem.org/Part:BBa_K1364015">BBa_K1364015</a></p></td>
 +
<td valign="top"; align="center";>
 +
<div class="technology2">P<sub>veg</sub> - SpoVG RBS -  RFP - Double terminator </div>
 +
<div class="thelanguage2">
<p class="texte"><!--Compléter-->
<p class="texte"><!--Compléter-->
 +
This part is designed to enable the expression of a Red Fluorescent Protein in <i>Bacillus subtilis</i> under the control of a constitutive promoter P<sub>veg</sub>. This construction has been checked by sequencing and has shown to work also in <i>Escherichia coli</i>
</p>
</p>
 +
<img src="https://static.igem.org/mediawiki/parts/6/69/Pveg%2BRFP.jpg">
<p class="title4">Design</p>
<p class="title4">Design</p>
-
<p class="texte">Coming soon! </p>
+
<p class="texte">This part is composed of a constitutive promoter P<sub>veg</sub> (BBa_K823003), spoVG RBS (BBa_KK143021), the coding sequence of the RFP (E1010 from BBa_K606013) and a double terminator (BBa_KB0015) </p>
<p class="title4">Type</p>
<p class="title4">Type</p>
<p class="texte">Reporter</p>
<p class="texte">Reporter</p>
<p class="title4">Tests</p>
<p class="title4">Tests</p>
-
<p class="texte">This part was not tested yet</p>
+
<p class="texte">This part was tested in both <i>E. coli</i> and <i>B. subtilis</i>. The sequences was verified by sequencing. </p>
-
<p class="title4">References</p>
+
 
-
<p class="texte">Coming soon!</p>
+
-
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology', 10); return false">Collapse</a></p>
+
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology2', 10); return false">Collapse</a></p>
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</div></td></table>
-
<div class="technology"><a href="http://parts.igem.org/Part:BBa_K1364016">BBa_K1364016</a>: P<sub>lepA</sub> + RFP</div>
+
<table>
-
<div class="thelanguage">
+
<td valign="top"; align="center";>
 +
<p class="title2";>
 +
<a href="http://parts.igem.org/Part:BBa_K1364016">BBa_K1364016</a></p></td>
 +
<td valign="top"; align="center";>
 +
<div class="technology2"> P<sub>lepA</sub> - SpoVG RBS - RFP - Double terminator </div>
 +
<div class="thelanguage2">
<p class="texte"><!--Compléter-->
<p class="texte"><!--Compléter-->
 +
This part is designed to enable the expression of a Red Fluorescent Protein in <i>Bacillus subtilis</i> under the control of a constitutive promoter P<sub>lepA</sub>. This construction has been checked by sequencing and has shown to work also in <i>Escherichia coli</i>
</p>
</p>
 +
<img src="https://static.igem.org/mediawiki/parts/1/12/PlepA%2BRFP.jpg">
 +
<p class="title4">Design</p>
<p class="title4">Design</p>
-
<p class="texte">Coming soon! </p>
+
<p class="texte">This part is composed of a constitutive promoter P<sub>lepA</sub> (BBa_K823002), spoVG RBS (BBa_K143021), the coding sequence of the RFP (E1010 from BBa_K606013) and a double terminator (BBa_B0015) </p>
<p class="title4">Type</p>
<p class="title4">Type</p>
<p class="texte">Reporter</p>
<p class="texte">Reporter</p>
<p class="title4">Tests</p>
<p class="title4">Tests</p>
-
<p class="texte">This part was not tested yet</p>
+
<p class="texte">This part was tested in both <i>E. coli</i> and <i>B. subtilis</i>. The sequences was verified by sequencing.</p>
-
<p class="title4">References</p>
+
-
<p class="texte">Coming soon!</p>
+
-
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology', 11); return false">Collapse</a></p>
 
-
</div>
 
-
<div class="technology"><a href="http://parts.igem.org/Part:BBa_K1364017">BBa_K1364017</a>: P<sub>lepA</sub> + RBS SpoVG</div>
+
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology2', 11); return false">Collapse</a></p>
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<div class="thelanguage">
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</div></td></table>
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<p class="texte"><!--Compléter-->
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<table>
-
</p>
+
<td valign="top"; align="center";>
-
<p class="title4">Design</p>
+
<p class="title2";>
-
<p class="texte">Coming soon! </p>
+
<a href="http://parts.igem.org/Part:BBa_K1364017">BBa_K1364017</a></p></td>
-
<p class="title4">Type</p>
+
<td valign="top"; align="center";>
-
<p class="texte">Composite</p>
+
<div class="technology2">P<sub>lepA</sub> - SpoVG RBS</div>
-
<p class="title4">Tests</p>
+
<div class="thelanguage2">
-
<p class="texte">This part was not tested yet</p>
+
-
<p class="title4">References</p>
+
-
<p class="texte">Coming soon!</p>
+
-
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology', 12); return false">Collapse</a></p>
 
-
</div>
 
-
 
-
 
-
<div class="technology"><a href="http://parts.igem.org/Part:BBa_K1364019">BBa_K1364019</a>: P<sub>veg</sub> + RBS + Antifungal EcAMP + Double terminator</div>
 
-
<div class="thelanguage">
 
-
 
-
<p class="title3" id="select15">
 
-
- </p>
 
<p class="texte"><!--Compléter-->
<p class="texte"><!--Compléter-->
 +
P<sub>lepA</sub> is a constitutive promoter in <i>Bacillus subtilis</i> (BBa_K823002) coupled with a RBS spoVG (BBa_K143021). To get the highest level of translation from this Promoter-RBS combination it must be connected to a coding region preceded by a coding region prefix. A standard prefix will increase the distance between the RBS and the start codon, reducing translational efficiency.
 +
This construction is also working with <i>Escherichia coli</i> and has been verified by sequencing.
</p>
</p>
-
<p class="title4">Design</p>
+
<img src="https://static.igem.org/mediawiki/parts/d/da/PlepA%2BSpoVG.jpg">
-
<p class="texte">Coming soon! </p>
+
<p class="title4">Type</p>
<p class="title4">Type</p>
<p class="texte">Composite</p>
<p class="texte">Composite</p>
<p class="title4">Tests</p>
<p class="title4">Tests</p>
-
<p class="texte">This part was not tested yet</p>
+
<p class="texte">This part was checked by sequencing</p>
-
<p class="title4">References</p>
+
-
<p class="texte">Coming soon!</p>
+
-
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology', 13); return false">Collapse</a></p>
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<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology2', 12); return false">Collapse</a></p>
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</div>
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</div></td></table>
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<table>
 +
<td valign="top"; align="center";>
 +
<p class="title2";>
 +
<a href="http://parts.igem.org/Part:BBa_K1364021">BBa_K1364021</a></p></td>
 +
<td valign="top"; align="center";>
 +
<div class="technology2">Integrative plasmid for <i>Bacillus subtilis</i> (pSB<sub>bs</sub>4E)</div>
 +
<div class="thelanguage2">
-
<div class="technology"><a href="http://parts.igem.org/Part:BBa_K1364021">BBa_K1364021</a>: Integrative plasmid for <i>Bacillus subtilis</i></div>
+
<p class="texte">This part is an empty backbone vector for the usage in <i>Bacillus subtilis</i>. It is on biobrick version of pKL190 which integrates in the thrC locus and can be selected with Erythromycin . It has an Ampicillin resistance for cloning in <i>Escherichia coli</i>. The backbone contains an RFP in the BioBrick site (BBa_J04450) to facilitate the cloning in <i>E.coli</i>. <br>
-
<div class="thelanguage">
+
The handling of this type of vector is described <a href="https://2014.igem.org/Team:Toulouse/Notebook/Protocols#select6">here</a>.
-
 
+
-
<p class="texte"><!--Compléter-->
+
</p>
</p>
<p class="title4">Design</p>
<p class="title4">Design</p>
-
<p class="texte">Coming soon! </p>
+
<p class="texte">We digested pKL190 plasmid and PCR products of BBa_J04450 with BamHI and EcoRI. We proceded to ligation.</p>
 +
<img src="https://static.igem.org/mediawiki/2014/archive/6/6d/20141017182537!PKL190_map.png">
<p class="title4">Type</p>
<p class="title4">Type</p>
-
<p class="texte">Composite</p>
+
<p class="texte">Backbone</p>
<p class="title4">Tests</p>
<p class="title4">Tests</p>
-
<p class="texte">This part was not tested yet</p>
+
<p class="texte">This part was tested by transforming <i>B. subtilis</i>. Clones obtained were Threonine-dependant and resistant to Erythromycin (10µg/ml).</p>
<p class="title4">References</p>
<p class="title4">References</p>
-
<p class="texte">Coming soon!</p>
+
<p class="texte">
-
 
+
R. Bernard, K.A. Marquis, and D.Z. Rudner. <b>Nucleoid occlusion prevents cell division during replication fork arrest in <i>Bacillus subtilis</i></b>Mol Microbiol. Nov 2010; 78(4): 866–882.</p>
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Latest revision as of 03:56, 18 October 2014

           
        logo-igem            

Parts

What did we send to the Registry?

Results   >   Parts   >   Submitted parts

We deposited 16 new BioBrick parts in the Registry. Most of them were cloned into the standard plasmid pSB1C3, tested and sequenced.
All our Biobrick are resumed in Parts Sandbox.

Chemotaxis

BBa_K1364000
Strong RBS - N-acetylglucosamine based chemotaxis for Bacillus subtilis - Double terminator

This part is designed to enable a N-acetylglucosamine based chemotaxis in B. subtilis.

Design

The encoded protein is a chimera of two proteins:
- the methyl accepting Chemotaxis protein (McpA from B. subtilis which is required for taxis towards glucose.
- the N-acetylglucosamine regulated methyl-accepting chemotaxis protein from Vibrio cholerae (VCD).

The chimeric protein contains the intracellular domains of McpA from Bacillus subtilis to enable the transduction of the signal: these domains correspond to the amino acids 1-37 and 282-610. The extracellular domain of VCD is inserted between the intracellular regions of McpA to sense N-acetylglucosamine and corresponds to the amino acids 31-310.

Type

Translation unit

Tests

This part is not tested yet.

References

Uniprot:
- McpA
- N-acetylglucosamine regulated methyl-accepting chemotaxis protein

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BBa_K1364004
Pveg - Strong RBS - N-acetylglucosamine based chemotaxis for Bacillus subtilis - Double terminator

This part is designed to enable a N-acetylglucosamine based chemotaxis in Bacillus subtilis.

Design

This expression cassette is designed for the expression of an antifungal peptide, D4E1 and for its secretion in B. subtilis. It is composed of the strong, constitutive promoter of B. subtilis Pveg (BBa_K823003), strong RBS for B. subtilis (BBa_K780002), the open reading frame of D4E1 and a double terminator (BBa_B0015)

Type

Generator

Tests

This part was not tested yet.

References

Uniprot:
- McpA
- N-acetylglucosamine regulated methyl-accepting chemotaxis protein

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Binding

BBa_K1364005
Pveg - RBS consensus - Chitin Binding protein - Double terminator

This part is designed to enable the binding of Bacillus subtilis to the fungi wall made of chitin.

Design

This part is composed of a Cell Wall Binding (CWB) sequence and a Chitin Binding Domain (CBD) linked with a 6 amino acids linker.

The CWB domain has been extracted from LytC (BBa_K316030) of the iGEM 2010 Imperial College team.
The CBD is composed of the Domain 4 of the GbpA protein of Vibrio cholerae, a protein reported to mediate bacterial attachment to chitin. It has been shown that the Domain 4 was essential to bind chitin.

Type

Generator

Tests

This part was tested with chitin beads. (See Binding module)

References

- Wong E, Vaaje-Kolstad G, Ghosh A, Hurtado-Guerrero R, Konarev PV, et al. (2012)
- The Vibrio cholerae Colonization Factor GbpA Possesses a Modular Structure that Governs Binding to Different Host Surfaces. PLoS Pathog 8(1): e1002373. doi:10.1371/journal.ppat.1002373

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Fungicides

GAFP-1


BBa_K1364002
Strong RBS - Antifungal GAFP-1

The Gastrodia anti-fungal protein(GAFP-1), also known as gastrodianin, is a mannose and chitin binding lectin originating from the Asiatic orchid Gastrodia elata, a traditional Chinese medicinal herb cultured for thousands of years. GAFP-1 is composed of 15 amino acids LDSLSFSYNNFEEDD and is able to inhibit the growth of multiples species of plant pathogenic fungi.

Design

This part is composed of a Strong RBS (BBa_K780002) and the open reading frame of the Gastrodia anti-fungal protein 1 (GAFP-1) optimized for its expression and its secretion in Bacillus subtilis. The codon optimization was made thanks to the DNA 2.0 software program.

Type

Translational unit

Tests

This part was tested on the fungi Trichoderma reesei (See Fungicides module)

References

- Wong E, Vaaje-Kolstad G, Ghosh A, Hurtado-Guerrero R, Konarev PV, et al. (2012)
- The Vibrio cholerae Colonization Factor GbpA Possesses a Modular Structure that Governs Binding to Different Host Surfaces. PLoS Pathog 8(1): e1002373. doi:10.1371/journal.ppat.1002373

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BBa_K1364007
Strong RBS - Antifungal GAFP-1 - Double terminator

The Gastrodia anti-fungal protein(GAFP-1), also known as gastrodianin, is a mannose and chitin binding lectin originating from the Asiatic orchid Gastrodia elata, a traditional Chinese medicinal herb cultured for thousands of years. GAFP-1 is composed of 15 amino acids LDSLSFSYNNFEEDD and is able to inhibit the growth of multiples species of plant pathogenic fungi.

Design

This part is composed of a Strong RBS (BBa_K780002), the open reading frame of the Gastrodia anti-fungal protein 1 (GAFP-1) and a double terminator BBa_B0015. optimized for its expression and its secretion in Bacillus subtilis. The codon optimization was made thanks to the DNA 2.0 software program.

Type

Composite part

Tests

This part was tested on the fungi Trichoderma reesei (See Fungicides module)

References

- Wong E, Vaaje-Kolstad G, Ghosh A, Hurtado-Guerrero R, Konarev PV, et al. (2012)
- The Vibrio cholerae Colonization Factor GbpA Possesses a Modular Structure that Governs Binding to Different Host Surfaces. PLoS Pathog 8(1): e1002373. doi:10.1371/journal.ppat.1002373

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BBa_K1364008
Pveg - Strong RBS - Antifungal GAFP-1 - Double terminator

This expression cassette is designed for the expression and secretion of the Gastrodia anti-fungal protein(GAFP-1), also known as gastrodianin. GAFP-1 is a mannose and chitin binding lectin originating from the Asiatic orchid Gastrodia elata, a traditional Chinese medicinal herb cultured for thousands of years. GAFP-1 is composed of 15 amino acids LDSLSFSYNNFEEDD and is able to inhibit the growth of multiples species of plant pathogenic fungi.

Design

This part is composed of the strong, constitutive promoter of Bacillus subtilis Pveg (BBa_K823003), strong RBS (BBa_K780002), the open reading frame of the Gastrodia anti-fungal protein 1 (GAFP-1) and a double terminator (B0015). optimized for its expression and its secretion in B. subtilis. The codon optimization was made thanks to the DNA 2.0 software program.

Type

Generator

Tests

This part was tested on the fungi Trichoderma reesei (See Fungicides module)

References

- Wong E, Vaaje-Kolstad G, Ghosh A, Hurtado-Guerrero R, Konarev PV, et al. (2012)
- The Vibrio cholerae Colonization Factor GbpA Possesses a Modular Structure that Governs Binding to Different Host Surfaces. PLoS Pathog 8(1): e1002373. doi:10.1371/journal.ppat.1002373

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D4E1


BBa_K1364003
Strong RBS - Antifungal D4E1 - Double terminator

D4E1 is a linear synthetic peptide of 17 amino acids which has shown to have antifungal activities by complexing with a sterol present in conodial wall of a varety of fungi.

Design

This part is composed of a Strong RBS (BBa_K780002), the open reading frame of D4E1 and a Double terminator (BBa_B0015) optimized for its expression and its secretion in Bacillus subtilis. This part was optimized for the expression and its secretion in B. subtilis thanks to the DNA 2.0 software program.

Type

Translational unit

Tests

This part was tested on the fungi Trichoderma reesei (See Fungicides module)

References

- De Lucca AJ, Bland JM, Grimm C, Jacks TJ, Cary JW, Jaynes JM, Cleveland TE, Walsh TJ. Fungicidal properties, sterol binding, and proteolytic resistance of the synthetic peptide D4E1.
- Can J Microbiol. 1998 Jun;44(6):514-20.

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BBa_K1364009
Pveg - Strong RBS - Antifungal D4E1 - Double Terminator

D4E1 is a linear synthetic peptide of 17 amino acids which has shown to have antifungal activities by complexing with a sterol present in conodial wall of a varety of fungi.

Design

This part is composed of the strong, constitutive promoter of Bacillus subtilis Pveg (BBa_K823003), a strong RBS (BBa_K780002), the open reading frame of D4E1 and a double terminator (BBa_B0015). This part was optimized for the expression and its secretion in B.subtilis thanks to the DNA 2.0 software program.

Type

Translational unit

Tests

This part was tested on the fungi Trichoderma reesei (See Fungicides module)

References

- De Lucca AJ, Bland JM, Grimm C, Jacks TJ, Cary JW, Jaynes JM, Cleveland TE, Walsh TJ. Fungicidal properties, sterol binding, and proteolytic resistance of the synthetic peptide D4E1.
- Can J Microbiol. 1998 Jun;44(6):514-20.

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EcAMP-1

BBa_K1364010
Pveg - RBS SpoVG - Antifungal EcAMP-1

EcAMP-1 is an antimicrobial peptide of 37 amino acids originated from the specie Echinochloa crus-galli, a type of wild grass. This peptide has a particular structure : it is helical because of two disulfide bonds.
EcAMP-1 has shown to have antifungal activities. Its mode of action may be the prevention of hyphae elongation.
This part was added to the Registry by the iGEM Utah State team in 2013.

Design

This part is composed of the constitutive promoter Pveg and strong RBS for Bacillus subtilis (BBa_K733013) and the open reading frame of EcAMP-1.
The EcAMP-1 part was codon optimized for E. coli by the iGEM Utah State team and thanks to the Life Technologies GeneArt software program.

Type

Generator

Tests

This part is not tested yet.

References

Svetlana B. Nolde, Alexander A. Vassilevski, Eugene A. Rogozhin, Nikolay A. Barinov, Tamara A. Balashova, Olga V. Samsonova, Yuri V. Baranov, Alexey S. Arseniev and Eugene V. Grishin. Disulfide-stabilized Helical Hairpin Structure and Activity of a Novel Antifungal Peptide EcAMP1 from Seeds of Barnyard Grass (Echinochloa crus-galli). The journal of Biological Chemistry. 2011, Vol. 286, 25145–25153

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BBa_K1364011
Pveg - RBS SpoVG - Antifungal EcAMP-1 - Double terminator

EcAMP-1 is an antimicrobial peptide of 37 amino acids originated from the specie Echinochloa crus-galli, a type of wild grass. This peptide has a particular structure : it is helical because of two disulfide bonds.
EcAMP-1 has shown to have antifungal activities. Its mode of action may be the prevention of hyphae elongation.
This part was added to the Registry by the iGEM Utah State team in 2013.

Design

This part is composed of the constitutive promoter Pveg and strong RBS for Bacillus subtilis (BBa_K733013), the open reading frame of EcAMP-1 and a double terminator (BBa_B0015).
The EcAMP-1 part was codon optimized for Escherichia coli by the iGEM Utah State team and thanks to the Life Technologies GeneArt software program.

Type

Generator

Tests

This part is not tested yet.

References

Svetlana B. Nolde, Alexander A. Vassilevski, Eugene A. Rogozhin, Nikolay A. Barinov, Tamara A. Balashova, Olga V. Samsonova, Yuri V. Baranov, Alexey S. Arseniev and Eugene V. Grishin. Disulfide-stabilized Helical Hairpin Structure and Activity of a Novel Antifungal Peptide EcAMP1 from Seeds of Barnyard Grass (Echinochloa crus-galli). The journal of Biological Chemistry. 2011, Vol. 286, 25145–25153

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BBa_K1364019
Pveg - RBS - Antifungal EcAMP-1 (revised with a stop codon) - Double terminator

EcAMP-1 is an antimicrobial peptide of 37 amino acids originated from the specie Echinochloa crus-galli, a type of wild grass. This peptide has a particular structure : it is helical because of two disulfide bonds.
EcAMP-1 has shown to have antifungal activities. Its mode of action may be the prevention of hyphae elongation.
This part was added to the Registry by the iGEM Utah State team in 2013.
We observed the presence of the stop codon in the suffix. When we have digested this Biobrick, it disappeared. So we added this codon in upstream of the suffix and now, we can reuse this Biobrick.

Design

This part is composed of the constitutive promoter Pveg and strong RBS for Bacillus subtilis (BBa_K733013), the revised open reading frame of EcAMP-1 (with a stop codon) and a double terminator (BBa_B0015).
The EcAMP-1 part was codon optimized for Escherichia coli by the iGEM Utah State team and thanks to the Life Technologies GeneArt software program.

Type

Composite

Tests

This part was not tested yet

References

Svetlana B. Nolde, Alexander A. Vassilevski, Eugene A. Rogozhin, Nikolay A. Barinov, Tamara A. Balashova, Olga V. Samsonova, Yuri V. Baranov, Alexey S. Arseniev and Eugene V. Grishin. Disulfide-stabilized Helical Hairpin Structure and Activity of a Novel Antifungal Peptide EcAMP1 from Seeds of Barnyard Grass (Echinochloa crus-galli). The journal of Biological Chemistry. 2011, Vol. 286, 25145–25153

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Fungicide operons

BBa_K1364013
Pveg - Strong RBS - Antifungal GAFP-1 - Strong RBS - Antifungal D4E1 - Double terminator

Design

This part is designed for the co-expression of two different peptides with anti-fungal activities : D4E1 and GAFP-1. It is composed of the strong, constitutive promoter of Bacillus subtilis Pveg (BBa_K823003) and the translation unit with GAFP-1 and D4E1 (BBa_K1364012).

Type

Generator

Tests

This part was tested on the fungi Trichoderma reesei (See Fungicides module)

References

See BBa_K1364002 and BBa_K1364003.

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Basic tools

BBa_K1364015
Pveg - SpoVG RBS - RFP - Double terminator

This part is designed to enable the expression of a Red Fluorescent Protein in Bacillus subtilis under the control of a constitutive promoter Pveg. This construction has been checked by sequencing and has shown to work also in Escherichia coli

Design

This part is composed of a constitutive promoter Pveg (BBa_K823003), spoVG RBS (BBa_KK143021), the coding sequence of the RFP (E1010 from BBa_K606013) and a double terminator (BBa_KB0015)

Type

Reporter

Tests

This part was tested in both E. coli and B. subtilis. The sequences was verified by sequencing.

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BBa_K1364016
PlepA - SpoVG RBS - RFP - Double terminator

This part is designed to enable the expression of a Red Fluorescent Protein in Bacillus subtilis under the control of a constitutive promoter PlepA. This construction has been checked by sequencing and has shown to work also in Escherichia coli

Design

This part is composed of a constitutive promoter PlepA (BBa_K823002), spoVG RBS (BBa_K143021), the coding sequence of the RFP (E1010 from BBa_K606013) and a double terminator (BBa_B0015)

Type

Reporter

Tests

This part was tested in both E. coli and B. subtilis. The sequences was verified by sequencing.

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BBa_K1364017
PlepA - SpoVG RBS

PlepA is a constitutive promoter in Bacillus subtilis (BBa_K823002) coupled with a RBS spoVG (BBa_K143021). To get the highest level of translation from this Promoter-RBS combination it must be connected to a coding region preceded by a coding region prefix. A standard prefix will increase the distance between the RBS and the start codon, reducing translational efficiency. This construction is also working with Escherichia coli and has been verified by sequencing.

Type

Composite

Tests

This part was checked by sequencing

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BBa_K1364021
Integrative plasmid for Bacillus subtilis (pSBbs4E)

This part is an empty backbone vector for the usage in Bacillus subtilis. It is on biobrick version of pKL190 which integrates in the thrC locus and can be selected with Erythromycin . It has an Ampicillin resistance for cloning in Escherichia coli. The backbone contains an RFP in the BioBrick site (BBa_J04450) to facilitate the cloning in E.coli.
The handling of this type of vector is described here.

Design

We digested pKL190 plasmid and PCR products of BBa_J04450 with BamHI and EcoRI. We proceded to ligation.

Type

Backbone

Tests

This part was tested by transforming B. subtilis. Clones obtained were Threonine-dependant and resistant to Erythromycin (10µg/ml).

References

R. Bernard, K.A. Marquis, and D.Z. Rudner. Nucleoid occlusion prevents cell division during replication fork arrest in Bacillus subtilisMol Microbiol. Nov 2010; 78(4): 866–882.

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Modeling
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Achievements

iGEM Toulouse 2014

Retrieved from "http://2014.igem.org/Team:Toulouse/Result/parts/Submitted_parts"