Team:Toulouse/Result/parts/Submitted parts

From 2014.igem.org

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table {  
table {  
-
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+
border:5;  
-
border-collapse:collapse;
+
   table-layout: inherit;  
   table-layout: inherit;  
}
}
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padding: 5px;
padding: 5px;
}
}
-
table thead tr th{ border:0; }
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table thead tr th{ border:5; }
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table tbody tr td{ border:5; }
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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&nbsp;&nbsp;&nbsp;>&nbsp;&nbsp;&nbsp;Submitted 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>
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We deposited 16 new BioBrick parts in the Registry.  
We deposited 16 new BioBrick parts in the Registry.  
Most 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>
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<table>
<table>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<p class="title2"; "line-height:6px"; "padding:10px";>
+
<p class="title2";>
<a href="http://parts.igem.org/Part:BBa_K1364000">BBa_K1364000</a></p></td>
<a href="http://parts.igem.org/Part:BBa_K1364000">BBa_K1364000</a></p></td>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<div class="technology2">N-acetylglucosamine based chemotaxis for <i>Bacillus subtilis</i></div>
+
<div class="technology2">Strong RBS - N-acetylglucosamine based chemotaxis for <i>Bacillus subtilis</i> - Double terminator</div>
<div class="thelanguage2">
<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  
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<table>
<table>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<p class="title2"; "line-height:6px"; "padding:10px";>
+
<p class="title2";>
<a href="http://parts.igem.org/Part:BBa_K1364004">BBa_K1364004</a></p></td>
<a href="http://parts.igem.org/Part:BBa_K1364004">BBa_K1364004</a></p></td>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<div class="technology2">P<sub>veg</sub> + N-acetylglucosamine based chemotaxis for <i>Bacillus subtilis</i></div>
+
<div class="technology2">P<sub>veg</sub> - Strong RBS - N-acetylglucosamine based chemotaxis for <i>Bacillus subtilis</i> - Double terminator</div>
<div class="thelanguage2">
<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>
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D4E1 and for its secretion in <i>B. subtilis</i>.
D4E1 and for its secretion in <i>B. subtilis</i>.
It is composed of the strong, constitutive promoter 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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<table>
<table>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<p class="title2"; "line-height:6px"; "padding:10px";>
+
<p class="title2";>
<a href="http://parts.igem.org/Part:BBa_K1364005">BBa_K1364005</a></p></td>
<a href="http://parts.igem.org/Part:BBa_K1364005">BBa_K1364005</a></p></td>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<div class="technology2"></a>P<sub>veg</sub> + Chitin Binding Cell Wall protein</div>
+
<div class="technology2"></a>P<sub>veg</sub> - RBS consensus - Chitin Binding protein - Double terminator</div>
<div class="thelanguage2">
<div class="thelanguage2">
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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
+
- 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>
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology2', 2); return false">Collapse</a></p>
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<table>
<table>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<p class="title2"; "line-height:6px"; "padding:10px";>
+
<p class="title2";>
<a href="http://parts.igem.org/Part:BBa_K1364002">BBa_K1364002</a></p></td>
<a href="http://parts.igem.org/Part:BBa_K1364002">BBa_K1364002</a></p></td>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<div class="technology2"> RBS - Antifungal GAFP-1</div>
+
<div class="technology2"> Strong RBS - Antifungal GAFP-1</div>
<div class="thelanguage2">
<div class="thelanguage2">
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  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>.
Line 278: Line 278:
<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</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>
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology2', 3); return false">Collapse</a></p>
<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>
</div></td></table>
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<table>
<table>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<p class="title2"; "line-height:6px"; "padding:10px";>
+
<p class="title2";>
<a href="http://parts.igem.org/Part:BBa_K1364007">BBa_K1364007</a></p></td>
<a href="http://parts.igem.org/Part:BBa_K1364007">BBa_K1364007</a></p></td>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<div class="technology2">RBS + Antifungal GAFP-1 + Double terminator</div>
+
<div class="technology2">Strong RBS - Antifungal GAFP-1 - Double terminator</div>
<div class="thelanguage2">
<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
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  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 305: 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</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>
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology2', 4); return false">Collapse</a></p>
<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>
</div></td></table>
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<table>
<table>
<td valign="top";align="center";>
<td valign="top";align="center";>
-
<p class="title2"; "line-height:6px"; "padding:10px";>
+
<p class="title2";>
<a href="http://parts.igem.org/Part:BBa_K1364008">BBa_K1364008</a></p></td>
<a href="http://parts.igem.org/Part:BBa_K1364008">BBa_K1364008</a></p></td>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<div class="technology2"> P<sub>veg</sub> - strong RBS - Antifungal GAFP-1 - Double terminator</div>
+
<div class="technology2"> P<sub>veg</sub> - Strong RBS - Antifungal GAFP-1 - Double terminator</div>
<div class="thelanguage2">
<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
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  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>B. 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>
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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
+
- 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('technology2', 5); return false">Collapse</a></p>
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<table>
<table>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<p class="title2"; "line-height:6px"; "padding:10px";>
+
<p class="title2";>
<a href="http://parts.igem.org/Part:BBa_K1364003">BBa_K1364003</a></p></td>
<a href="http://parts.igem.org/Part:BBa_K1364003">BBa_K1364003</a></p></td>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<div class="technology2">RBS - Antifungal D4E1 - Double terminator</div>
+
<div class="technology2">Strong RBS - Antifungal D4E1 - Double terminator</div>
<div class="thelanguage2">
<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  
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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>B. subtilis </i>
This part was optimized for the expression and its secretion in <i>B. subtilis </i>
Line 373: Line 373:
<table>
<table>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<p class="title2"; "line-height:6px"; "padding:10px";>
+
<p class="title2";>
<a href="http://parts.igem.org/Part:BBa_K1364009">BBa_K1364009</a></p></td>
<a href="http://parts.igem.org/Part:BBa_K1364009">BBa_K1364009</a></p></td>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<div class="technology2">P<sub>veg</sub> - RBS - Antifungal D4E1 - Double Terminator</div>
+
<div class="technology2">P<sub>veg</sub> - Strong RBS - Antifungal D4E1 - Double Terminator</div>
<div class="thelanguage2">
<div class="thelanguage2">
<p class="texte">
<p class="texte">
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<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 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>B.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>
Line 408: Line 408:
<table>
<table>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<p class="title2"; "line-height:6px"; "padding:10px";>
+
<p class="title2";>
<a href="http://parts.igem.org/Part:BBa_K1364010">BBa_K1364010</a></p></td>
<a href="http://parts.igem.org/Part:BBa_K1364010">BBa_K1364010</a></p></td>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<div class="technology2">P<sub>veg</sub> - SpoVG - Antifungal EcAMP-1</div>
+
<div class="technology2">P<sub>veg</sub> - RBS SpoVG - Antifungal EcAMP-1</div>
<div class="thelanguage2">
<div class="thelanguage2">
<p class="texte">
<p class="texte">
Line 423: Line 423:
<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>Bacillus 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 433: 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">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 (Echinochloa crus-galli)</b>. The journal of Biological Chemistry. 2011, Vol. 286, 25145–25153</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', 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>
Line 440: Line 440:
<table>
<table>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<p class="title2"; "line-height:6px"; "padding:10px";>
+
<p class="title2";>
<a href="http://parts.igem.org/Part:BBa_K1364011">BBa_K1364011</a></p></td>
<a href="http://parts.igem.org/Part:BBa_K1364011">BBa_K1364011</a></p></td>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<div class="technology2"> P<sub>veg</sub> - SpoVG - Antifungal EcAMP-1 - Double terminator</div>
+
<div class="technology2"> P<sub>veg</sub> - RBS SpoVG - Antifungal EcAMP-1 - Double terminator</div>
<div class="thelanguage2">
<div class="thelanguage2">
Line 456: Line 456:
<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>Bacillus 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>Escherichia 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>
Line 467: 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">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 (Echinochloa crus-galli)</b>. The journal of Biological Chemistry. 2011, Vol. 286, 25145–25153</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', 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>
Line 474: Line 474:
<table>
<table>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<p class="title2"; "line-height:6px"; "padding:10px";>
+
<p class="title2";>
<a href="http://parts.igem.org/Part:BBa_K1364019">BBa_K1364019</a></p></td>
<a href="http://parts.igem.org/Part:BBa_K1364019">BBa_K1364019</a></p></td>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
Line 491: Line 491:
<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>Bacillus 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>),
<b>the revised open reading frame of EcAMP-1 (with a stop codon) </b> and  
<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">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>Escherichia 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>
Line 502: Line 502:
<p class="texte">This part was not tested yet</p>
<p class="texte">This part was not tested yet</p>
<p class="title4">References</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 (Echinochloa crus-galli)</b>. The journal of Biological Chemistry. 2011, Vol. 286, 25145–25153</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>
<p style="text-align:right;font-size:1.3em;"><a href="#" class="collapseLink" onClick="ddaccordion.collapseone('technology2', 13); return false">Collapse</a></p>
Line 513: Line 513:
  <table>
  <table>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<p class="title2"; "line-height:6px"; "padding:10px";>
+
<p class="title2";>
<a href="http://parts.igem.org/Part:BBa_K1364013">BBa_K1364013</a></p></td>
<a href="http://parts.igem.org/Part:BBa_K1364013">BBa_K1364013</a></p></td>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<div class="technology2">P<sub>veg</sub> - SpoVG - Antifungals GAFP-1 and D4E1 - Double terminator</div>
+
<div class="technology2">P<sub>veg</sub> - Strong RBS - Antifungal GAFP-1 - Strong RBS - Antifungal  D4E1 - Double terminator</div>
<div class="thelanguage2">
<div class="thelanguage2">
<p class="texte">
<p class="texte">
Line 538: Line 538:
<br></br>
<br></br>
-
<p class="title2">Basic tools</p>
+
<p class="title1">Basic tools</p>
<table>
<table>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<p class="title2"; "line-height:6px"; "padding:10px";>
+
<p class="title2";>
<a href="http://parts.igem.org/Part:BBa_K1364015">BBa_K1364015</a></p></td>
<a href="http://parts.igem.org/Part:BBa_K1364015">BBa_K1364015</a></p></td>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<div class="technology2">P<sub>veg</sub> + RFP</div>
+
<div class="technology2">P<sub>veg</sub> - SpoVG RBS -  RFP - Double terminator </div>
<div class="thelanguage2">
<div class="thelanguage2">
Line 557: Line 557:
<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 tested in both <i>E.coli</i> and <i>B. subtilis</i>. The sequences was verified by sequencing. </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>
Line 565: Line 565:
<table>
<table>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<p class="title2"; "line-height:6px"; "padding:10px";>
+
<p class="title2";>
<a href="http://parts.igem.org/Part:BBa_K1364016">BBa_K1364016</a></p></td>
<a href="http://parts.igem.org/Part:BBa_K1364016">BBa_K1364016</a></p></td>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<div class="technology2"> P<sub>lepA</sub> + RFP</div>
+
<div class="technology2"> P<sub>lepA</sub> - SpoVG RBS - RFP - Double terminator </div>
<div class="thelanguage2">
<div class="thelanguage2">
Line 581: Line 581:
<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 tested in both <i>E.coli</i> and <i>B. subtilis</i>. The sequences was verified by sequencing.</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>
Line 589: Line 589:
<table>
<table>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<p class="title2"; "line-height:6px"; "padding:10px";>
+
<p class="title2";>
<a href="http://parts.igem.org/Part:BBa_K1364017">BBa_K1364017</a></p></td>
<a href="http://parts.igem.org/Part:BBa_K1364017">BBa_K1364017</a></p></td>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<div class="technology2">P<sub>lepA</sub> + RBS SpoVG</div>
+
<div class="technology2">P<sub>lepA</sub> - SpoVG RBS</div>
<div class="thelanguage2">
<div class="thelanguage2">
Line 610: Line 610:
<table>
<table>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
-
<p class="title2"; "line-height:6px"; "padding:10px";>
+
<p class="title2";>
<a href="http://parts.igem.org/Part:BBa_K1364021">BBa_K1364021</a></p></td>
<a href="http://parts.igem.org/Part:BBa_K1364021">BBa_K1364021</a></p></td>
<td valign="top"; align="center";>
<td valign="top"; align="center";>
Line 616: Line 616:
<div class="thelanguage2">
<div class="thelanguage2">
-
<p class="texte">This part is an empty backbone vector for the usage in <i>Bacillus subtilis</i>. It integrates in the thrC locus and can be selected with Erythromycin . It has an Ampicillin resistance for cloning in <i>Escherichia coli</i>. The backbones contains an RFP in the BioBrick site (BBa_KJ04450) to facilitate the cloning in <i>E.coli</i>. <br>
+
<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>
The handling of this type of vector is described <a href="https://2014.igem.org/Team:Toulouse/Notebook/Protocols#select6">here</a>.
The handling of this type of vector is described <a href="https://2014.igem.org/Team:Toulouse/Notebook/Protocols#select6">here</a>.
   
   
Line 622: Line 622:
<p class="title4">Design</p>
<p class="title4">Design</p>
<p class="texte">We digested pKL190 plasmid and PCR products of BBa_J04450 with BamHI and EcoRI. We proceded to ligation.</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">Backbone</p>
<p class="texte">Backbone</p>
Line 641: Line 642:
   <div class="page-nav" style="border-top:1px solid #cccccc; padding-top:40px; margin-top:40px;">
   <div class="page-nav" style="border-top:1px solid #cccccc; padding-top:40px; margin-top:40px;">
-
     <a href="https://2014.igem.org/Team:Toulouse/Result/experimental-results" class="page-nav-right" style="width:447px; float:left; display:block;text-decoration:none; color:#666; font-size:18px;">Experimental results
+
     <a href="https://2014.igem.org/Team:Toulouse/Modelling" class="page-nav-right" style="width:447px; float:left; display:block;text-decoration:none; color:#666; font-size:18px;">Modeling
       <img src="https://static.igem.org/mediawiki/2014/2/26/Template-igem2014-img-arrowleft.png" style="display:block; padding-top:10px;"/>
       <img src="https://static.igem.org/mediawiki/2014/2/26/Template-igem2014-img-arrowleft.png" style="display:block; padding-top:10px;"/>
     </a>  
     </a>  
Line 650: Line 651:
     <a href="https://2014.igem.org/Team:Toulouse/Result/achievement" class="page-nav-left" style="width:447px; float:right; display:block; text-align:right; text-decoration:none;
     <a href="https://2014.igem.org/Team:Toulouse/Result/achievement" class="page-nav-left" style="width:447px; float:right; display:block; text-align:right; text-decoration:none;
-
color:#666; font-size:18px;">Achievement</br>
+
color:#666; font-size:18px;">Achievements</br>
       <img src="https://static.igem.org/mediawiki/2014/e/ea/Template-igem2014-img-arrowright.png" style="display:block; float:right; padding-top:10px; " />
       <img src="https://static.igem.org/mediawiki/2014/e/ea/Template-igem2014-img-arrowright.png" style="display:block; float:right; padding-top:10px; " />
     </a>
     </a>

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"