Difference between revisions of "Team:Paris Bettencourt/Notebook/Microbiology"

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<h1 class="red">Week 11th - 17th July</h1>
 
<h1 class="red">Week 11th - 17th July</h1>
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<h3>Church paper </h3>
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 +
This paper is the source of inspiration as he describe the isolation of antibiotic degrading bacteria from soil samples. We decided to try to reproduce it. To isolate the bacteria the researcher used medium with antibiotics as the only carbon source. The main concern was carbon contamination from the soil. </br>
 +
<br>
 +
To avoid this contamination the they inoculated the samples in a SCS (single carbon source) liquid medium. They let it grow seven days at 22°C then use the broth to inoculate a new SCS liquid medium. This step is repeted two more time. Then the culture broth is plated on SCS plate and the degrading bacteria isolated. This permit the consumption of all the carbon during the successive liquid cultivation steps and the death of the bacteria that do not degrade the antibiotic. <br>
 +
<br>
 +
This protocol have some issues.
 +
-It take 21 days before plating to isolate the microorganisms, this is very long.
 +
-If an organism can degrade anthocyanins but cannot use it as a carbon source this organism is not isolated.<br>
 +
<br>
 +
The regular technique to isolate microorganisms from the soil is to dilute and directly inocuate the samplese on plate. So we decided to test if all these steps are necessary. We decided to reproduce this experiment but to plate 4 times instead of one. Plating the inital samples and after each period of growth in liquid medium.<br>
 +
<br>
 +
<h3>Filtration of the soil sample </h3>
 +
A member from the protein group told us that he used a different protocol to isolate a toluene degrading bacteria. To remove the carbon contamination from the soil he filtered the sample with a 0.22μL filter. Then he cultivated the filter in a liquid medium before plating. We decided to test this protocol. <br>
 +
<br>
 +
<h3>Screening assay design </h3>
 +
<br>
 +
It seemed less and less probable that we would obtain anthocyanins without carbon contamination and we needed to prepare SCS medium. S we decided to use the colorant quercitin instead of anthocyanin and we ordered it. <br>
 +
<br>
  
 
<h1 class="red">Week 18th -24th July</h1>
 
<h1 class="red">Week 18th -24th July</h1>
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 +
  
 
<h1 class="red">Week 25th -31th July</h1>
 
<h1 class="red">Week 25th -31th July</h1>

Revision as of 06:27, 17 August 2016


Week 27th June - 3rd July

Week 4th - 10th July

Week 11th - 17th July

Church paper

This paper is the source of inspiration as he describe the isolation of antibiotic degrading bacteria from soil samples. We decided to try to reproduce it. To isolate the bacteria the researcher used medium with antibiotics as the only carbon source. The main concern was carbon contamination from the soil.

To avoid this contamination the they inoculated the samples in a SCS (single carbon source) liquid medium. They let it grow seven days at 22°C then use the broth to inoculate a new SCS liquid medium. This step is repeted two more time. Then the culture broth is plated on SCS plate and the degrading bacteria isolated. This permit the consumption of all the carbon during the successive liquid cultivation steps and the death of the bacteria that do not degrade the antibiotic.

This protocol have some issues. -It take 21 days before plating to isolate the microorganisms, this is very long. -If an organism can degrade anthocyanins but cannot use it as a carbon source this organism is not isolated.

The regular technique to isolate microorganisms from the soil is to dilute and directly inocuate the samplese on plate. So we decided to test if all these steps are necessary. We decided to reproduce this experiment but to plate 4 times instead of one. Plating the inital samples and after each period of growth in liquid medium.

Filtration of the soil sample

A member from the protein group told us that he used a different protocol to isolate a toluene degrading bacteria. To remove the carbon contamination from the soil he filtered the sample with a 0.22μL filter. Then he cultivated the filter in a liquid medium before plating. We decided to test this protocol.

Screening assay design


It seemed less and less probable that we would obtain anthocyanins without carbon contamination and we needed to prepare SCS medium. S we decided to use the colorant quercitin instead of anthocyanin and we ordered it.

Week 18th -24th July

Week 25th -31th July


Centre for Research and Interdisciplinarity (CRI)
Faculty of Medicine Cochin Port-Royal, South wing, 2nd floor
Paris Descartes University
24, rue du Faubourg Saint Jacques
75014 Paris, France
+33 1 44 41 25 22/25
igem2016parisbettencourt@gmail.com
2016.igem.org