Team:University College London/Module 4/Design

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(Design)
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== Design==
== Design==
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<html><div align="center"><img src="http://2012.igem.org/wiki/images/5/5c/UclbouyGFP.png" /></div></html>
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The following circuit is the one on which studies were carried out:
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<html><img src="http://2012.igem.org/wiki/images/7/7b/UCL2012BOUYANCYGFP.png"></html>
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<html><div align="center"><img src="http://2012.igem.org/wiki/images/0/0d/Ucl2012BOUY.png" /></div></html>
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The following circuit will be implemented in the future:
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<html><img src="http://2012.igem.org/wiki/images/4/46/Ucl2012BOUYANCY.png"></html>
The following 3 requirements were identified for the Buoyancy module:
The following 3 requirements were identified for the Buoyancy module:
 +
'''Requirement 1: The sinking of the cell should trigger the expression of the buoyancy gene.'''
'''Requirement 1: The sinking of the cell should trigger the expression of the buoyancy gene.'''
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For the purpose our project we are using our designed device that (cstA promoter, T7 RNA polymerase and T7 promoter) induces the production of GFP. Our future goal is to replace the GFP gene with gas vesicle protein(BBa_I750016). This will optimise the position of the cell in the water column. As the  cell sinks there will be a significant continuous reduction of nutrients this change in environmental conditions will induce the promoter and subsequently the gas vesicle formation.</p>
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 +
For the purpose our project we are using our designed device that (cstA promoter, T7 RNA polymerase and T7 promoter) induces the production of GFP. Our future goal is to replace the GFP gene with gas vesicle protein(BBa_I750016). This will optimise the position of the cell in the water column. As the  cell sinks there will be a significant continuous reduction of nutrients this change in environmental conditions will induce the promoter and subsequently the gas vesicle formation.
   
   
 +
'''Requirement 2: The amount of gas vesicles must be high.'''
'''Requirement 2: The amount of gas vesicles must be high.'''
-
Large amounts of gas vesicles are necessary to keep the cells afloat as well, so using a starvation sensitive promoter to control the production of gas vesicles requires a mechanism to amplify the expression of the buoyancy vesicles cluster. Therefore T7 RNA polymerase and a the promoter T7 are included in this module, as very large amounts of mRNA are generated from small amounts of T7 RNA polymerase (Studier and Moffatt, 1986) when genes are placed under the control of the T7 promoter, since T7 RNA polymerize is very selective for T7-like promoters (Studier et al., 1990), hence we believe that this will produce larger amounts of gas vesicle gene cluster.</p>
+
 
 +
Large amounts of gas vesicles are necessary to keep the cells afloat as well, so using a starvation sensitive promoter to control the production of gas vesicles requires a mechanism to amplify the expression of the buoyancy vesicles cluster. Therefore T7 RNA polymerase and a the promoter T7 are included in this module, as very large amounts of mRNA are generated from small amounts of T7 RNA polymerase (1) when genes are placed under the control of the T7 promoter, since T7 RNA polymerize is very selective for T7-like promoters (2), hence we believe that this will produce larger amounts of gas vesicle gene cluster.
 +
 
'''Requirement 3: The size and the strength of the gas vesicle must be enough to keep the cell afloat.'''
'''Requirement 3: The size and the strength of the gas vesicle must be enough to keep the cell afloat.'''
-
The size and strength of the vesicle are predetermined genetically and varies from species to species. Also it is very important to say that there is a trade-off between the size of the vesicle and its strength. The smaller the  vesicle the less it is prone to collapsing and vice-a-versa.</p>
+
 
 +
The size and strength of the vesicle are predetermined genetically and varies from species to species. Also it is very important to say that there is a trade-off between the size of the vesicle and its strength. The smaller the  vesicle the less it is prone to collapsing and vice-a-versa.
==References==
==References==
-
-Studier FW, Moffatt BA. (1986) Use of bacteriophage T7 RNA polymerase to direct selective high-level expression of cloned genes. J Mol Biol. 189(1):113-30
+
1. Studier FW, Moffatt BA. (1986) Use of bacteriophage T7 RNA polymerase to direct selective high-level expression of cloned genes. J Mol Biol. 189(1):113-30
-
-Studier FW, Rosenberg AH, Dunn JJ, Dubendorff JW. (1990) Use of T7 RNA polymerase to direct expression of cloned genes. Methods Enzymol.185:60-89
+
2. Studier FW, Rosenberg AH, Dunn JJ, Dubendorff JW. (1990) Use of T7 RNA polymerase to direct expression of cloned genes. Methods Enzymol.185:60-89
{{:Team:University_College_London/templates/foot}}
{{:Team:University_College_London/templates/foot}}

Latest revision as of 02:43, 27 September 2012

Module 4: Buoyancy

Description | Design | Construction | Characterisation | Modelling | Results | Conclusions

Design

The following circuit is the one on which studies were carried out:



The following circuit will be implemented in the future:



The following 3 requirements were identified for the Buoyancy module:


Requirement 1: The sinking of the cell should trigger the expression of the buoyancy gene.

For the purpose our project we are using our designed device that (cstA promoter, T7 RNA polymerase and T7 promoter) induces the production of GFP. Our future goal is to replace the GFP gene with gas vesicle protein(BBa_I750016). This will optimise the position of the cell in the water column. As the cell sinks there will be a significant continuous reduction of nutrients this change in environmental conditions will induce the promoter and subsequently the gas vesicle formation.


Requirement 2: The amount of gas vesicles must be high.

Large amounts of gas vesicles are necessary to keep the cells afloat as well, so using a starvation sensitive promoter to control the production of gas vesicles requires a mechanism to amplify the expression of the buoyancy vesicles cluster. Therefore T7 RNA polymerase and a the promoter T7 are included in this module, as very large amounts of mRNA are generated from small amounts of T7 RNA polymerase (1) when genes are placed under the control of the T7 promoter, since T7 RNA polymerize is very selective for T7-like promoters (2), hence we believe that this will produce larger amounts of gas vesicle gene cluster.


Requirement 3: The size and the strength of the gas vesicle must be enough to keep the cell afloat.

The size and strength of the vesicle are predetermined genetically and varies from species to species. Also it is very important to say that there is a trade-off between the size of the vesicle and its strength. The smaller the vesicle the less it is prone to collapsing and vice-a-versa.

References

1. Studier FW, Moffatt BA. (1986) Use of bacteriophage T7 RNA polymerase to direct selective high-level expression of cloned genes. J Mol Biol. 189(1):113-30

2. Studier FW, Rosenberg AH, Dunn JJ, Dubendorff JW. (1990) Use of T7 RNA polymerase to direct expression of cloned genes. Methods Enzymol.185:60-89