Team:Imperial College London/Drylab

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=Drylab Hub=
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The goal of the Drylab has been to support the Wetlab by answering questions of interest.  
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Welcome to the Dry Lab!
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The conclusions from the models will provide the team with functional understanding of the system, and provide design constraints and considerations that should be taken into account in the genetic constructs.  
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<br>
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==Summary of Models==
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The goal of the Dry Lab has been to support the Wet Lab by answering questions of interest. The primary function of the models is to instruct the data analysis once results are gathered from the lab.
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In the Drylab, we have implemented several functional models, explaining the behaviour of different parts of the system.This section will provide a summary of the models, with the conclusions drawn from them.
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Conclusions from the models aim to provide the team with a functional understanding of the system as well as design considerations that should be addressed in the genetic constructs. We have implemented several models, explaining the behaviour of different parts of the system. Below is a summary:<br>
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===Automatic induction of protein production and encapsulation===
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Large scale automation of production of protein of interest relies on being able to control when the manufacturing process begins. To do this, the initial design consisted of genetic constructs ([timers]). After implementing the simulations and obtaining design constraints, we realized that they were too complicated for the system. Instead, we chose to focus on autoinduction media, where we relied on primary and secondary consumption of sugars to control both the production of protein of interest and the encapsulation process.
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===Production of protein of interest===
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--[[User:Mabult|Mabult]] 17:05, 17 October 2009 (UTC) Do not forget that your models instruct the data analysis- it is actually their primary function-->
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Induction of production of the protein of interest has been achieved using a LacI-IPTG induction system.<br>
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[[Image:II09_M1_model1.jpg]]<br>
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Several factors must be taken into account in the system, and the goals of this model have been the following:
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*Characterizing the LacI-IPTG system that is responsible for the production of the drug of interest.
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*Modeling and accounting for several factors that may reduce/hinder the production of our output protein of interest such as:
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**Lac promoter leakiness
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**IPTG toxicity
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**Stability of output protein
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The protein production module is an integral part of our design, as large-scale commercialization of the product of interest depends on finding the optimal conditions for protein production and being able to tune and regulate the output.
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*[https://2009.igem.org/Team:Imperial_College_London/M1/Modelling Overview]<br>
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*[https://2009.igem.org/Team:Imperial_College_London/Drylab/M1/Protein_production/Analysis The Model]<br>
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*[https://2009.igem.org/Team:Imperial_College_London/Drylab/M1/Protein_production/Simulations Simulations]<br>
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===Kinetics of protein of interest===
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[[Image:II09_drylabhub2.png|720px]]
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===Encapsulation===
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===Genomic deletion induced by thermoinduction===
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*<b>Autoinduction:</b>
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**This section is responsible for switching on the encapsulation process when glucose in the medium is used up by the cell culture.
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** The goal of the model is to quantify this switch point from a primary to a secondary carbon source and provide an understanding of the diauxie phenomenon.
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*<b>Protein Production:</b>
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** Production of the drug of interest is controlled by the input amount of IPTG in the system. Prior IPTG induction, production of the drug of interest is repressed by LacI.
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** The goal of the model is to account for factors that may enhance/reduce the output yield of our drug of interest.
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*<b>Drug Kinetics:</b>
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** The drugs we are producing (PAH, cellulase, opiorphin) are enzymes. In order to detect how much drug has been produced, an understanding of their enzymatic activity is required.
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** The goal of the model is to better understand the drugs of interest produced using the relationships derived by Michaelis-Menten.
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*<b>Genome Deletion:</b>
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** Genome deletion is induced by an increase in temperature. Different temperatures relate to different restriction enzyme concentrations, so here we explore the possible effects of temperature on cell death.
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** The goal of the model is to explore a possible relationship between live cells and dead cells over time at different culture temperatures.
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Modelling in this project has been important in defining the "Engineering constraints" of the project, and in particular, we have focused on quantifiying the [https://2009.igem.org/Team:Imperial_College_London/Temporal_Control temporal control].
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<!--  --[[User:Mabult|Mabult]] 17:10, 17 October 2009 (UTC) repeating yourself here !!!-->
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<html><center><a href="https://2009.igem.org/Team:Imperial_College_London/Genetic_Circuit"><img width=150px src="https://static.igem.org/mediawiki/2009/d/d9/II09_Temp_ArrowLeft.png"></a>
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<a href="https://2009.igem.org/Team:Imperial_College_London/Ethics"><img width=150px src="https://static.igem.org/mediawiki/2009/c/ce/II09_Temp_ArrowRight.png"></a>
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Click on the links to find out more!
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<html><center><a href="https://2009.igem.org/Team:Imperial_College_London/Drylab/Autoinduction"><img style="vertical-align:bottom;" width="20%" src="http://i691.photobucket.com/albums/vv271/dk806/II09_Drylabmainimage1.png"></a><a href="https://2009.igem.org/Team:Imperial_College_London/Drylab/Protein_Production"><img style="vertical-align:bottom;" width="20%" src="http://i691.photobucket.com/albums/vv271/dk806/II09_Drylabmainimage2.png"></a><a href="https://2009.igem.org/Team:Imperial_College_London/Drylab/Enzyme"><img style="vertical-align:bottom;" width="20%" src="http://i691.photobucket.com/albums/vv271/dk806/II09_Drylabmainimage3.png"></a>
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<a href="https://2009.igem.org/Team:Imperial_College_London/Drylab/Genome_deletion"><img style="vertical-align:bottom;" width="20%" src="http://i691.photobucket.com/albums/vv271/dk806/II09_Drylabmainimage5.png"></a></center></html>
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<html><table border="0" style="background-color:transparent;" width="100%">
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<tr><td width="0%">&nbsp;</td>
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<td width="22%"><center><a href="https://2009.igem.org/Team:Imperial_College_London/Drylab/Autoinduction"><b>Autoinduction</b></a></center></td>
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<td width="24%"><center><a href="https://2009.igem.org/Team:Imperial_College_London/Drylab/Protein_Production"><b>Protein Production</b></a></center></td>
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<td width="22%"><left><a href="https://2009.igem.org/Team:Imperial_College_London/Drylab/Enzyme"><b>Drug Kinetics</b></a></left></td>
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<td width="22%"><left><a href="https://2009.igem.org/Team:Imperial_College_London/Drylab/Genome_deletion"><b>Genome Deletion</b></a></left></td>
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<td width="1%"></td>
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</tr></table></html>
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[https://2009.igem.org/Team:Imperial_College_London/Drylab/Autoinduction <b>Autoinduction</b><br>[[Image:II09_diauxi_illust.jpg|100px|left]]]
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[https://2009.igem.org/Team:Imperial_College_London/Drylab/Protein_Production <b>Protein production</b><br>[[Image:II09_NoIPTG_yesIPTG.jpg|100px|left]]]
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[https://2009.igem.org/Team:Imperial_College_London/Drylab/Enzyme <b>Kinetics of protein drug</b><br>[[Image:II09_drylab3.jpg|100px|left]]]
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[https://2009.igem.org/Team:Imperial_College_London/Drylab/Genome_deletion <b>Genome deletion</b><br>[[Image:II09_hitemp_lotemp.jpg|100px|left]]]
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Latest revision as of 02:58, 22 October 2009

II09 DryLabThumb.pngDry Lab Hub

Welcome to the Dry Lab!
The goal of the Dry Lab has been to support the Wet Lab by answering questions of interest. The primary function of the models is to instruct the data analysis once results are gathered from the lab. Conclusions from the models aim to provide the team with a functional understanding of the system as well as design considerations that should be addressed in the genetic constructs. We have implemented several models, explaining the behaviour of different parts of the system. Below is a summary:

II09 drylabhub2.png


Modelling in this project has been important in defining the "Engineering constraints" of the project, and in particular, we have focused on quantifiying the temporal control.



Click on the links to find out more!

 
Autoinduction
Protein Production
 Drug Kinetics Genome Deletion



Mr. Gene   Geneart   Clontech   Giant Microbes

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