Difference between revisions of "Team:Birkbeck/Modeling"

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<h2> Modelling</h2>
 
<h2> Modelling</h2>
  
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<h3>Under Construction</h3>
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<h3>Modelling the directed evolution of bacteriophage lambda</h3>
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<h2> Modeling</h2>
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<img src="https://static.igem.org/mediawiki/2015/7/70/Birkbeck_directed_evolution.png">  
  
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<p>To accomplish the goal of altering the host specificity of bacteriophage lambda, we took a step-by-step directed evolution approach, working according to the 'design - build - model - test - repeat' principle. This started with the design of several mutations both to alter the phage phenotype and to make segments of its genotype BioBrick-compatible. We then proceeded to 'build' individual genes through synthesis and cloning. The next steps are to recombine these genes into a recombinant bacteriophage genome, before carrying out testing and selection, and repeating this process.</p>
  
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<h4>Note</h4>
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<li>1. <div class="row"><img src="https://static.igem.org/mediawiki/2015/d/d4/Birkbeck_phage.png">  
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<p>In order to be considered for the <a href="https://2015.igem.org/Judging/Awards#SpecialPrizes">Best Model award</a>, you must fill out this page.</p>
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      <p>Short tail fibre (stf) and reporter genes are cloned into a GT11 bacteriophage lambda vector, while regulatory circuits are created to control both the transfer between lytic/lysogenic cycle and the production of the tail fibre assembly (tfa) protein, in order to prevent toxicity to the host cell. The circularised GT11 vector and plasmids containing the regulatory circuits are transformed into E.coli host cells.</p></div>
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<p>Mathematical models and computer simulations provide a great way to describe the function and operation of BioBrick Parts and Devices. Synthetic Biology is an engineering discipline, and part of engineering is simulation and modeling to determine the behavior of your design before you build it. Designing and simulating can be iterated many times in a computer before moving to the lab. This award is for teams who build a model of their system and use it to inform system design or simulate expected behavior in conjunction with experiments in the wetlab.</p>
 
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Here are a few examples from previous teams:
 
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<li><a href="https://2014.igem.org/Team:ETH_Zurich/modeling/overview">ETH Zurich 2014</a></li>
 
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<li><a href="https://2014.igem.org/Team:Waterloo/Math_Book">Waterloo 2014</a></li>
 
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Revision as of 10:32, 18 September 2015

Modelling

Modelling the directed evolution of bacteriophage lambda

To accomplish the goal of altering the host specificity of bacteriophage lambda, we took a step-by-step directed evolution approach, working according to the 'design - build - model - test - repeat' principle. This started with the design of several mutations both to alter the phage phenotype and to make segments of its genotype BioBrick-compatible. We then proceeded to 'build' individual genes through synthesis and cloning. The next steps are to recombine these genes into a recombinant bacteriophage genome, before carrying out testing and selection, and repeating this process.

  • 1.

    Short tail fibre (stf) and reporter genes are cloned into a GT11 bacteriophage lambda vector, while regulatory circuits are created to control both the transfer between lytic/lysogenic cycle and the production of the tail fibre assembly (tfa) protein, in order to prevent toxicity to the host cell. The circularised GT11 vector and plasmids containing the regulatory circuits are transformed into E.coli host cells.