Difference between revisions of "Team:ECUST/Model"

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<h3>★  ALERT! </h3>
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<p>This page is used by the judges to evaluate your team for the <a href="https://2017.igem.org/Judging/Medals">medal criterion</a> or <a href="https://2017.igem.org/Judging/Awards"> award listed above</a>. </p>
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<p> Delete this box in order to be evaluated for this medal criterion and/or award. See more information at <a href="https://2017.igem.org/Judging/Pages_for_Awards"> Instructions for Pages for awards</a>.</p>
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      <h1 id="tables">Overview</h1>
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  <p>The purpose of this modeling is to predict the improvement of hydrogen production of <i>Rhodobacter sphaeroids 2.4.1</i> after modifications of photobioreactor and <i>Rhodobacter sphaeroids 2.4.1</i>.</p><br>
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  <p>Our modelling is divided into three parts: <b>Model of Reactor</b>, <b>Föster theory</b>, <b>Hydrogen production</b>. it includes the whole process from photon absorption in photobioreactor to hydrogen production from <i>Rhodobacter spaeroids 2.4.1</i>.</p><br><br>
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      <h1 id="tables">Part One: Model of Reactor</h1>
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        <p>In this part we will predict how much photons fluorescent proteins in the photobioreactor can absorb .<br><br>
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<p><font size="5"><i> To learn more about this，<a href="https://2017.igem.org/Team:ECUST/Part/Reactor">please click here.</font></a></i></p><br><br>
 
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<h1> Modeling</h1>
 
  
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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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      <h1 id="tables">Part Two: Föster theory</h1>
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        <p>This section proves that energy of photons absorbed by fluorescent proteins can be transmitted to RC complex by Föster resonance energy transfer. By building a fusion protein model of H subunit in RC complex and fluorescent protein, we can predict the distance between the donor and the receptor and calculate the energy transfer efficiency by Föster theory.<br><br>
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<p><font size="5"><i> To learn more about this，<a href="https://2017.igem.org/Team:ECUST/Part/Theory">please click here.</font></a></i></p><br><br>
 
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<h3> Gold Medal Criterion #3</h3>
 
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To complete for the gold medal criterion #3, please describe your work on this page and fill out the description on your <a href="https://2017.igem.org/Judging/Judging_Form">judging form</a>. To achieve this medal criterion, you must convince the judges that your team has gained insight into your project from modeling. You may not convince the judges if your model does not have an effect on your project design or implementation.
 
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Please see the <a href="https://2017.igem.org/Judging/Medals"> 2017 Medals Page</a> for more information.
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      <h1 id="tables">Part Three: Hydrogen production</h1>
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        <p>This part mainly introduces the pathway of hydrogen production and calculates how much hydrogen will be produced. <br><br>
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<p><font size="5"><i> To learn more about this，<a href="https://2017.igem.org/Team:ECUST/Part/Hydrogen">please click here.</font></a></i></p><br><br>
 
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<h3>Best Model Special Prize</h3>
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      <h1 id="tables">Discussion</h1>
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    <p>We solved the following questions through modeling:</p>
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      1.We simulated increase of the photons absorbed by internal cells with light-emitting agitator. <br>
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      2.We proved the feasibility of FRET by homology modeling as well as calculating its efficiency.<br>
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      3.We calculated the theoretical increase in the amount of hydrogen production, give us greater confidence to complete the experiment.<br>
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    <p> Firstly, in <a href="https://2017.igem.org/Team:ECUST/Part/Reactor">model of reactor</a> , based on the simulated light intensity distribution, we figured out that the number of photons absorbed by fluorescent protein per second was 5.2×10 <sup>19</sup> and the energy of these photons was 20.1 joule. What’s more, in <a href="https://2017.igem.org/Team:ECUST/Part/Theory">Förster theory</a> , after predicting the distance(67.9 &Aring;) between energy donor(fluorescent protein) and energy acceptor(bacteriochlorophyll dimer in reaction center), we figured out that the efficiency of energy transfer from the fluorescent protein to reaction was 28.3%. Finally, in <a href="https://2017.igem.org/Team:ECUST/Part/Hydrogen">hydrogen production</a> , we further studied the charge separation, the electron transport chains and ATP synthesis of <i>Rhodobacter sphaeroides</i>  as well as their relationship with hydrogen production. The theoretical increase in the amount of hydrogen production can be calculated as 0.12ml/s at last. </p>
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To compete for the <a href="https://2017.igem.org/Judging/Awards">Best Model prize</a>, please describe your work on this page  and also fill out the description on the <a href="https://2017.igem.org/Judging/Judging_Form">judging form</a>. Please note you can compete for both the gold medal criterion #3 and the best model prize with this page.
 
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You must also delete the message box on the top of this page to be eligible for the Best Model Prize.
 
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<h5> Inspiration </h5>
 
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Here are a few examples from previous teams:
 
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<li><a href="https://2016.igem.org/Team:Manchester/Model">Manchester 2016</a></li>
 
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<li><a href="https://2016.igem.org/Team:TU_Delft/Model">TU Delft 2016  </li>
 
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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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Latest revision as of 03:59, 2 November 2017


Overview

The purpose of this modeling is to predict the improvement of hydrogen production of Rhodobacter sphaeroids 2.4.1 after modifications of photobioreactor and Rhodobacter sphaeroids 2.4.1.


Our modelling is divided into three parts: Model of Reactor, Föster theory, Hydrogen production. it includes the whole process from photon absorption in photobioreactor to hydrogen production from Rhodobacter spaeroids 2.4.1.



Part One: Model of Reactor

In this part we will predict how much photons fluorescent proteins in the photobioreactor can absorb .

To learn more about this，please click here.



Part Two: Föster theory

This section proves that energy of photons absorbed by fluorescent proteins can be transmitted to RC complex by Föster resonance energy transfer. By building a fusion protein model of H subunit in RC complex and fluorescent protein, we can predict the distance between the donor and the receptor and calculate the energy transfer efficiency by Föster theory.

To learn more about this，please click here.



Part Three: Hydrogen production

This part mainly introduces the pathway of hydrogen production and calculates how much hydrogen will be produced.

To learn more about this，please click here.



Discussion

We solved the following questions through modeling:

1.We simulated increase of the photons absorbed by internal cells with light-emitting agitator.
2.We proved the feasibility of FRET by homology modeling as well as calculating its efficiency.
3.We calculated the theoretical increase in the amount of hydrogen production, give us greater confidence to complete the experiment.



Firstly, in model of reactor , based on the simulated light intensity distribution, we figured out that the number of photons absorbed by fluorescent protein per second was 5.2×10 19 and the energy of these photons was 20.1 joule. What’s more, in Förster theory , after predicting the distance(67.9 Å) between energy donor(fluorescent protein) and energy acceptor(bacteriochlorophyll dimer in reaction center), we figured out that the efficiency of energy transfer from the fluorescent protein to reaction was 28.3%. Finally, in hydrogen production , we further studied the charge separation, the electron transport chains and ATP synthesis of Rhodobacter sphaeroides as well as their relationship with hydrogen production. The theoretical increase in the amount of hydrogen production can be calculated as 0.12ml/s at last.