Difference between revisions of "Team:Wageningen UR/Model"

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<figcaption>Figure 1: Schematic of the quorum sensing attached to toxin/anti-toxin system.  
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<p><figcaption>Figure 1: Schematic of the quorum sensing attached to toxin/anti-toxin system.  
 
The quorum sensing system consist out of two parts, LuxR is constitutively produces a transcriptional factor that binds to AHL and LuxI that produces an AHL autoinducer. LuxR together with AHL form a complex that inhibits the toxin/anti-toxin system, where 434-cl-LVA and lambda-cl are under the same promoter. This leads to either Toxin 1 production or Toxin 2 production depending on the quorum sensing. </figcaption>
 
The quorum sensing system consist out of two parts, LuxR is constitutively produces a transcriptional factor that binds to AHL and LuxI that produces an AHL autoinducer. LuxR together with AHL form a complex that inhibits the toxin/anti-toxin system, where 434-cl-LVA and lambda-cl are under the same promoter. This leads to either Toxin 1 production or Toxin 2 production depending on the quorum sensing. </figcaption>
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<p><b> What is quorum sensing</b><br>
 
<p><b> What is quorum sensing</b><br>
 
Quorum sensing is a cell-cell communication system. The detection of chemical molecules allows the bacteria to distinguish between low and high cell densities, in this way control gene expression in response to changes in cell number <sup> <a href="#fn1" id="ref1">1</a></sup>.   
 
Quorum sensing is a cell-cell communication system. The detection of chemical molecules allows the bacteria to distinguish between low and high cell densities, in this way control gene expression in response to changes in cell number <sup> <a href="#fn1" id="ref1">1</a></sup>.   
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<p><figcaption>Figure 3: Schematic of toxin/anti-toxin system. In this system AraC inhibits the promoter activity of the toxin/anti-toxin part. The AraC is inhibited by Arabinose, when glucose is added to the system Arabinose is inhibited by glucose. AraC inhibits the constitutive promoter of 434-cl-LVA and lambda-cl where 434-cl-LVA inhibits the promotion of lambda-cl. The production of lambda-cl leads to production of RFP as the reporter protein.</figcaption>
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Revision as of 12:45, 6 October 2016

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Wageningen UR iGEM 2016

 

Overview

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Quorum Sensing

Introduction
For the iGEM project a toxin producing system has been made. We wanted to create a system where bacteria can produce toxin in waves and hereby create different cell populations. With the use of quorum sensing and a toxin/anti-toxin system, as shown in Figure 1, we expect to find different cell populations.

Figure 1: Schematic of the quorum sensing attached to toxin/anti-toxin system. The quorum sensing system consist out of two parts, LuxR is constitutively produces a transcriptional factor that binds to AHL and LuxI that produces an AHL autoinducer. LuxR together with AHL form a complex that inhibits the toxin/anti-toxin system, where 434-cl-LVA and lambda-cl are under the same promoter. This leads to either Toxin 1 production or Toxin 2 production depending on the quorum sensing.


What is quorum sensing
Quorum sensing is a cell-cell communication system. The detection of chemical molecules allows the bacteria to distinguish between low and high cell densities, in this way control gene expression in response to changes in cell number 1.

Methods
During the research Matlab version R2016a has been used.
Because there was no data from the wet lab we assumed that all the parameters in the system were random. The parameters are all obtained by latin hypercube Latin hypercube is a statistical method to get random numbers from a box of n by n numbers. For example x = 4 with x is divisions and n = 2 with n is number of samples. You will obtain a box with 4 square times 2 square, give you 24 random numbers. For each parameter one number out of this box is randomly chosen. samples.

How could quorum sensing develop spatial inhomogeneities in toxin/anti-toxin systems?
When quorum sensing ensures that the toxin is only produced when the density of bacteria is high enough to produce significant amounts of toxin, this ‘standardizes’ the amount of toxin produced by the bacteria. The toxin/anti-toxin system will be coupled to the quorum sensing system. Together, quorum sensing and forming of non-producing subpopulations by the toxin/anti-toxin system, allow bacteria to produce ‘waves’ of toxin.

Results

Figure 3: Schematic of toxin/anti-toxin system. In this system AraC inhibits the promoter activity of the toxin/anti-toxin part. The AraC is inhibited by Arabinose, when glucose is added to the system Arabinose is inhibited by glucose. AraC inhibits the constitutive promoter of 434-cl-LVA and lambda-cl where 434-cl-LVA inhibits the promotion of lambda-cl. The production of lambda-cl leads to production of RFP as the reporter protein.


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Quorum sensing system

References

    1. Eri Nasuno, Nobutada Kimura, Masaki J. Fujita, Cindy H. Nakatsu, Yoichi Kamagata, and Satoshi Hanada (2012). Phylogenetically Novel LuxI/LuxR-Type Quorum Sensing Systems Isolated Using a Metagenomic Approach Vol, 78, number 22. ↩

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