Team:Groningen/Template/MODULE/Notebook/secretion/week9

From 2014.igem.org

(Difference between revisions)
 
(6 intermediate revisions not shown)
Line 9: Line 9:
<div class="title">
<div class="title">
-
September 22 - September 28
+
September 29 - October 5
</div>
</div>
Line 18: Line 18:
<div class="text">
<div class="text">
-
<b>goal:</b> obtain the anti <i>Pseudomonas aeruginosa/i> system
+
Obtaining the anti-<i>Pseudomonas aeruginosa</i> system with Three-A assembly
</div>
</div>
Line 27: Line 27:
<div class="text">
<div class="text">
-
This week tried everything to assembly this system with the help of Gibson assembly. Every try failed miserably and at the end of the week it was decided to assemble this system with 3-A assembly
+
Extra amounts of <i>dspB</i>, ssUSP45DspB with His-tag, <i>aiiA</i>, ssUSP45aiiA with His-tag, <i>pLAS</i>, the RBS, the double terminator, pSB2k3 vector, pSB1C3 vector and pSB1A3 vector were miniprepped to be used for the assembly
</div>
</div>
Line 33: Line 33:
<!-- PARAGRAPH SNIPPET END-->
<!-- PARAGRAPH SNIPPET END-->
 +
<!-- PARAGRAPH SNIPPET START-->
 +
<div class="text">
 +
 +
<i>aiiA</i>, <i>dspB</i>, ssUSP45DspB with His-tag and ssUSP45aiiA with His-tag were digested with XbaI and PstI, and the RBS was cut with EcoRI and SpeI
 +
 +
</div>
 +
<div class="hspacer">&nbsp;</div>
 +
<!-- PARAGRAPH SNIPPET END-->
 +
 +
<!-- PARAGRAPH SNIPPET START-->
 +
<div class="text">
 +
 +
These were eventually ligated for 3 hours into pSB2K3 and transformed into <i>E. coli</i> NEB cells
 +
</div>
 +
<div class="hspacer">&nbsp;</div>
 +
<!-- PARAGRAPH SNIPPET END-->
 +
 +
<!-- TABLE SNIPPET OPTIONAL START-->
 +
<table class="table">
 +
<tr>
 +
<th>Name assembly</th><th>Upstream part</th><th>Downstream part</th><th>Backbone</th>
 +
</tr>
 +
<tr>
 +
<td>A1’</td><td>RBS</td><td><i>aiiA</i></td><td>pSB2K3</td>
 +
</tr>
 +
<tr>
 +
<td>A2’</td><td>RBS</td><td><i>dspB</i></td><td>pSB2K3</td>
 +
</tr>
 +
<tr>
 +
<td>A3’</td><td>RBS</td><td><i>dspB+HIS</i></td><td>pSB2K3</td>
 +
</tr>
 +
<tr>
 +
<td>A4’</td><td>RBS</td><td><i>aiiA+HIS</i></td><td>pSB2K3</td>
 +
</tr>
 +
 +
</table>
 +
<div class="hspacer">&nbsp;</div>
 +
<!-- TABLE SNIPPET OPTIONAL END-->
 +
 +
<!-- PARAGRAPH SNIPPET START-->
 +
<div class="text">
 +
 +
After growing them for 1 day, colony PCR was done on the correct clones, these were inoculated for plasmid extraction
 +
 +
</div>
 +
<div class="hspacer">&nbsp;</div>
 +
<!-- PARAGRAPH SNIPPET END-->
 +
 +
<!-- PARAGRAPH SNIPPET START-->
 +
<div class="text">
 +
 +
Then A1’, A4’ was digested with XbaI and PstI. A2’ and A3’ was cut with EcoRI and SpeI. Then ligated
 +
 +
</div>
 +
<div class="hspacer">&nbsp;</div>
 +
<!-- PARAGRAPH SNIPPET END-->
 +
 +
<!-- TABLE SNIPPET OPTIONAL START-->
 +
<table class="table">
 +
<tr>
 +
<th>Name assembly</th><th>Upstream part</th><th>Downstream part</th><th>Backbone</th>
 +
</tr>
 +
<tr>
 +
<td>A1”</td><td>RBS + <i>aiiA</i></td><td>Double terminator</td><td>pSB1A3</td>
 +
</tr>
 +
<tr>
 +
<td>A2”</td><td><i>pLAS</i></td><td>RBS + <i>dspB</i></td><td>pSB1A3</td>
 +
</tr>
 +
<tr>
 +
<td>A3”</td><td><i>pLAS</i></td><td>RBS + <i>dspB+HIS</i></td><td>pSB1A3</td>
 +
</tr>
 +
<tr>
 +
<td>A4”</td><td>RBS + <i>aiiA+HIS</i></td><td>Double terminator</td><td>pSB1A3</td>
 +
</tr>
 +
 +
</table>
 +
<div class="hspacer">&nbsp;</div>
 +
<!-- TABLE SNIPPET OPTIONAL END-->
 +
 +
<!-- PARAGRAPH SNIPPET START-->
 +
<div class="text">
 +
 +
After doing growing analyzing and miniprepping the correct clones, A1” and A3”was cut with EcoRI and SpeI. A2” and A4” was cut with XbaI and PstI and ligated afterwards
 +
 +
</div>
 +
<div class="hspacer">&nbsp;</div>
 +
<!-- PARAGRAPH SNIPPET END-->
 +
 +
<!-- TABLE SNIPPET OPTIONAL START-->
 +
<table class="table">
 +
<tr>
 +
<th>Name assembly</th><th>Upstream part</th><th>Downstream part</th><th>Backbone</th>
 +
</tr>
 +
<tr>
 +
<td>A1”’</td><td><i>pLAS</i>+RBS+<i>dspB</i></td><td>RBS+<i>aiiA</i>+Dterm</td><td>pSB1C3</td>
 +
</tr>
 +
<tr>
 +
<td>A2”’</td><td><i>pLAS</i>+RBS+<i>dspB+HIS</i>></td><td>RBS+<i>aiiA+HIS</i>+Dterm</td><td>pSB1C3</td>
 +
</tr>
 +
 +
 +
</table>
 +
<div class="hspacer">&nbsp;</div>
 +
<!-- TABLE SNIPPET OPTIONAL END-->
 +
 +
<!-- PARAGRAPH SNIPPET START-->
 +
<div class="text">
 +
 +
After transformation, the plasmids were isolated, and confirmed by sequencing
 +
 +
</div>
 +
<div class="hspacer">&nbsp;</div>
 +
<!-- PARAGRAPH SNIPPET END-->
<div class="hspacer">&nbsp;</div>
<div class="hspacer">&nbsp;</div>

Latest revision as of 00:46, 18 October 2014

September 29 - October 5
 
Obtaining the anti-Pseudomonas aeruginosa system with Three-A assembly
 
Extra amounts of dspB, ssUSP45DspB with His-tag, aiiA, ssUSP45aiiA with His-tag, pLAS, the RBS, the double terminator, pSB2k3 vector, pSB1C3 vector and pSB1A3 vector were miniprepped to be used for the assembly
 
aiiA, dspB, ssUSP45DspB with His-tag and ssUSP45aiiA with His-tag were digested with XbaI and PstI, and the RBS was cut with EcoRI and SpeI
 
These were eventually ligated for 3 hours into pSB2K3 and transformed into E. coli NEB cells
 
Name assemblyUpstream partDownstream partBackbone
A1’RBSaiiApSB2K3
A2’RBSdspBpSB2K3
A3’RBSdspB+HISpSB2K3
A4’RBSaiiA+HISpSB2K3
 
After growing them for 1 day, colony PCR was done on the correct clones, these were inoculated for plasmid extraction
 
Then A1’, A4’ was digested with XbaI and PstI. A2’ and A3’ was cut with EcoRI and SpeI. Then ligated
 
Name assemblyUpstream partDownstream partBackbone
A1”RBS + aiiADouble terminatorpSB1A3
A2”pLASRBS + dspBpSB1A3
A3”pLASRBS + dspB+HISpSB1A3
A4”RBS + aiiA+HISDouble terminatorpSB1A3
 
After doing growing analyzing and miniprepping the correct clones, A1” and A3”was cut with EcoRI and SpeI. A2” and A4” was cut with XbaI and PstI and ligated afterwards
 
Name assemblyUpstream partDownstream partBackbone
A1”’pLAS+RBS+dspBRBS+aiiA+DtermpSB1C3
A2”’pLAS+RBS+dspB+HIS>RBS+aiiA+HIS+DtermpSB1C3
 
After transformation, the plasmids were isolated, and confirmed by sequencing
 
 
 
 

Retrieved from "http://2014.igem.org/Team:Groningen/Template/MODULE/Notebook/secretion/week9"