Team:ArtScienceBangalore/Experiments

From 2009.igem.org

(Difference between revisions)
(New page: Experiments)
Line 1: Line 1:
-
Experiments
+
<html>
 +
<link rel="stylesheet" href="http://hackteria.org/as.css" type="text/css" />
 +
  <div id="asMain">
 +
    <div id="asTitle">
 +
      <h1>Approach</h1>
 +
    </div>
 +
   
 +
    <div id="asMenu">
 +
      <ul>
 +
        <li><a href="https://2009.igem.org/Team:ArtScienceBangalore">Home</a></li>
 +
        <li><a href="https://2009.igem.org/Team:ArtScienceBangalore/Team">The Team</a></li>
 +
        <li><a href="https://2009.igem.org/Team:ArtScienceBangalore/Aproach">Aproach</a></li>
 +
        <li><a href="https://2009.igem.org/Team:ArtScienceBangalore/Project">The Project</a></li>
 +
        <li><a href="https://2009.igem.org/Team:ArtScienceBangalore/Notebook">Notebook</a></li>
 +
        <li><a href="https://2009.igem.org/Team:ArtScienceBangalore/Outreach">Outreach</a></li>
 +
        <li><a href="https://2009.igem.org/Team:ArtScienceBangalore/Links">Links</a></li>
 +
        <li><a href="https://2009.igem.org/Team:ArtScienceBangalore/Gallery">Gallery</a></li>
 +
      </ul>
 +
    </div>
 +
   
 +
    <div id="asContent">
 +
<h3> Experimental protocol:</h3>
 +
<p>
 +
<ol>
 +
<li>E. coli k12z1 bearing BBa_”---“and k12z1 was grown overnight at 37oC and 250rpm in Luria Bertani (LB) medium containing 100uM ampicillin and spectinomycin respectively.</li>
 +
<li>BBa_”---“culture was inoculated in fresh 1X glucose-M9 medium, containing 0, 50, 500 and 1000uM of IPTG. AS a negative control K12z1 was inoculated in fresh 1X glucose-M9 medium.</li>
 +
<li>The culture was grown for 12h at 37oC and 250rpm.</li>
 +
<li>Geosmin analysis was done through smell, and it appeared that k12z1 cells bearing BBa_”--“, are geosmin positive.</li>
 +
</ol>
 +
 
 +
 
 +
<p>
 +
We have managed to obtain a mutated strain pSF27 (ispA+, cm R,pSC 101 Ori ts) from Dr. XX at Toho University, which is temperature- sensitive and using this, a controlled ispA strain is being constructed by transforming SF7N with pSF27 wherein on reducing the temperatures, synthesis of Geosmin takes place and the smell of rain is produced.
 +
</p>
 +
<h3>What did and did not work</h3>
 +
<p>
 +
While working with the full length synthase plasmid SF5, and testing it with the knockout strain SF7N, no difference could be observed in the two resultant smells. From this we inferred that geosmin was not being synthesized as per our theoretical analysis.
 +
</p>
 +
<ul>
 +
<li>One reason for this could be the fact that the concentrations of farnesyl diphosphate may not be accurate and require further trial and error through experimentation.</li>
 +
<li>It was also discovered that the C- terminal of the synthase contained a restriction enzyme which could well be the reason for the failure of our experiment. We also discovered that the expression of the N-terminal domain of the plasmid pTRC99a gave a fully functional germacradienol synthase with steady-state catalytic parameters similar to those of the full-length protein but the expressed C-terminal domain had no detectable FPP cyclase activity. Hence, it was only the N- terminal that was needed for the synthesis of geosmin and the C- terminal was the half that contained the restriction enzyme and as it played no part in the synthesis process, it could be deleted from the gene.</li>
 +
</ul>
 +
    </div>
 +
 
 +
  </div>
 +
</html>

Revision as of 09:34, 21 October 2009

Approach

Experimental protocol:

  1. E. coli k12z1 bearing BBa_”---“and k12z1 was grown overnight at 37oC and 250rpm in Luria Bertani (LB) medium containing 100uM ampicillin and spectinomycin respectively.
  2. BBa_”---“culture was inoculated in fresh 1X glucose-M9 medium, containing 0, 50, 500 and 1000uM of IPTG. AS a negative control K12z1 was inoculated in fresh 1X glucose-M9 medium.
  3. The culture was grown for 12h at 37oC and 250rpm.
  4. Geosmin analysis was done through smell, and it appeared that k12z1 cells bearing BBa_”--“, are geosmin positive.

We have managed to obtain a mutated strain pSF27 (ispA+, cm R,pSC 101 Ori ts) from Dr. XX at Toho University, which is temperature- sensitive and using this, a controlled ispA strain is being constructed by transforming SF7N with pSF27 wherein on reducing the temperatures, synthesis of Geosmin takes place and the smell of rain is produced.

What did and did not work

While working with the full length synthase plasmid SF5, and testing it with the knockout strain SF7N, no difference could be observed in the two resultant smells. From this we inferred that geosmin was not being synthesized as per our theoretical analysis.

  • One reason for this could be the fact that the concentrations of farnesyl diphosphate may not be accurate and require further trial and error through experimentation.
  • It was also discovered that the C- terminal of the synthase contained a restriction enzyme which could well be the reason for the failure of our experiment. We also discovered that the expression of the N-terminal domain of the plasmid pTRC99a gave a fully functional germacradienol synthase with steady-state catalytic parameters similar to those of the full-length protein but the expressed C-terminal domain had no detectable FPP cyclase activity. Hence, it was only the N- terminal that was needed for the synthesis of geosmin and the C- terminal was the half that contained the restriction enzyme and as it played no part in the synthesis process, it could be deleted from the gene.

Retrieved from "http://2009.igem.org/Team:ArtScienceBangalore/Experiments"