Team:Oxford/biosensor

From 2014.igem.org

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<h1>Introduction</h1>
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To develop a cheap and user friendly way of detecting chlorinated solvents (focusing specifically on DCM) the engineering design team worked very closely with the biochemistry team to characterise a previously unknown genetic circuit and then adapt it to respond to DCM in our DCMation kit. We modelled and optimised the parameters that we could control to get the fastest visible response.Our biosensor, based on the DM4 DCM degradation pathway, is designed to give a detectable fluorescent output that when integrated into an electronic circuit signals when there is very little to no DCM left in our DCMation kit. </h1>
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To develop a cheap and user friendly way of detecting chlorinated solvents (focusing specifically on DCM) the engineering design team worked very closely with the biochemistry team to  
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<a href="https://2014.igem.org/Team:Oxford/biosensor_characterisation">characterise</a>
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a previously unknown genetic circuit and then adapt it to respond to DCM in our DCMation kit. We modelled and  
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<a href="https://2014.igem.org/Team:Oxford/biosensor_optimisation">optimised</a>
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the parameters that we could control to get the fastest visible response.Our biosensor, based on the DM4 DCM degradation pathway, is designed to give a detectable fluorescent output that when integrated into an  
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 +
 
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<a href="https://2014.igem.org/Team:Oxford/biosensor_realisation">electronic circuit</a>
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signals when there is very little to no DCM left in our DCMation kit.
See below for links to the wet lab work, modelling and physical realisation of our product!
See below for links to the wet lab work, modelling and physical realisation of our product!
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The promoter of dcmA (DCM dehalogenase gene) is placed upstream of sfGFP; therefore we will get a fluorescent output instead of dcmA expression as in the native bacterium. Repression or activation of the dcmA promoter relies on the regulatory protein DcmR which responds to the [DCM]; in our genetic circuit, the dcmR gene is constitutively expressed.<br><br>
The promoter of dcmA (DCM dehalogenase gene) is placed upstream of sfGFP; therefore we will get a fluorescent output instead of dcmA expression as in the native bacterium. Repression or activation of the dcmA promoter relies on the regulatory protein DcmR which responds to the [DCM]; in our genetic circuit, the dcmR gene is constitutively expressed.<br><br>
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Click on the Characterisation link below to find out more about the genetic regulatory network we are characterising and engineering to produce our biosensor!<br><br>
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Click on the  
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By having an electronic circuit we can quickly adapt our DCMation kit to give the same user-friendly output (a green LED comes on on top of the bench-top kit to indicate the contents can be poured away) depending on the result of our characterisation of the action of DcmR. This meant that we could develop both the genetic circuit and the physical realisation of our product at the same time rather than sequentially -saving us time!<br><br>
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<a href="https://2014.igem.org/Team:Oxford/biosensor_characterisation">characterisation link</a>
 +
 
 +
  below to find out more about the genetic regulatory network we are characterising and engineering to produce our biosensor!<br><br>
 +
 
 +
By having an electronic circuit we can quickly adapt our DCMation kit to give the same user-friendly output (a green LED comes on on top of the bench-top kit to indicate the contents can be poured away) depending on the result of our characterisation of the action of DcmR. This meant that we could develop both the genetic circuit and the physical realisation of our product at the same time rather than sequentially - saving us time!<br><br>
   
   
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Click in the Realisation link below to see more about our fluorescence detecting circuit!<br><br>
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Click on the  
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 +
<a href="https://2014.igem.org/Team:Oxford/biosensor_realisation">realisation link</a>
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below to see more about our fluorescence detecting circuit!<br><br>

Revision as of 17:10, 6 October 2014

#list li { list-style-image: url("https://static.igem.org/mediawiki/2014/6/6f/OxigemTick.png"); } }


Biosensor


Introduction

To develop a cheap and user friendly way of detecting chlorinated solvents (focusing specifically on DCM) the engineering design team worked very closely with the biochemistry team to characterise a previously unknown genetic circuit and then adapt it to respond to DCM in our DCMation kit. We modelled and optimised the parameters that we could control to get the fastest visible response.Our biosensor, based on the DM4 DCM degradation pathway, is designed to give a detectable fluorescent output that when integrated into an electronic circuit signals when there is very little to no DCM left in our DCMation kit. See below for links to the wet lab work, modelling and physical realisation of our product!

What is a biosensor?

Biological systems are very good at sensing the huge range of chemical and physical inputs in the world around them, often at very low levels. They need to in order to survive the constant changes in their environment. In many cases this sensing results in a change at the transcriptional level in the organism. For example Methylobacterium extorquens DM4 increases expression of DCM dehalogenase in the presence of DCM in order to exploit this carbon source. This means we can use these natural sensing systems to engineer novel genetic circuits that will respond to specific inputs with detectable outputs; in other words, to create a biosensor.

Developing our biosensor

The promoter of dcmA (DCM dehalogenase gene) is placed upstream of sfGFP; therefore we will get a fluorescent output instead of dcmA expression as in the native bacterium. Repression or activation of the dcmA promoter relies on the regulatory protein DcmR which responds to the [DCM]; in our genetic circuit, the dcmR gene is constitutively expressed.

Click on the characterisation link below to find out more about the genetic regulatory network we are characterising and engineering to produce our biosensor!

By having an electronic circuit we can quickly adapt our DCMation kit to give the same user-friendly output (a green LED comes on on top of the bench-top kit to indicate the contents can be poured away) depending on the result of our characterisation of the action of DcmR. This meant that we could develop both the genetic circuit and the physical realisation of our product at the same time rather than sequentially - saving us time!

Click on the realisation link below to see more about our fluorescence detecting circuit!