Difference between revisions of "Team:UMaryland/Model"

 
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<div class="titleText">Modeling</div>
 
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<div class="subtitleText">Why Degrade to PCA?</div>
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<div class="subtitleText">Predicting Outcomes To Direct Our Projects</div>
 
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Our PET degradation system is entirely cell free, created from lysed cells that have had the pathway enzymes inserted into their genomes as plasmids. PET degradation starts with the cleavage of the monomers of PET into their constituents, MHET and TPA, by the enzyme PETase.<br><br>
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One of the primary goals of our project, PETNET, was to be informed and deliberate in our approach.
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We created cells that can act as a sensor for PET degradation. When the cells import PCA (a molecule produced from degraded TPA, which is produced from degraded PET), PCAU binds to PCA, creating activated PCAU. Using activated PCAU as the promoter for GFP translation, the cells will fluoresce green in the presence of PCA, showing that PET degradation has occurred.<br><br>
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All of the parameters of our model have been taken from experimentally verified results, and we have verified the validity of our model by successfully detecting PCA using our modified  cells.<br><br>
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We attempted to go further down the degradation pathway with the same cells metabolising PCA into 3-carboxy-cis,cis-muconate, but were unsuccessful. We leave this part of the pathway to future IGEM teams and researchers.<br>
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We employed Matlab Simbiology to make a <a href="https://2018.igem.org/Team:UMaryland/TPAvPCA"><u>critical decision</u></a> on which of two biosensors to select in order to detect PET degradation.
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We also used modeling to justify the <a href="https://2018.igem.org/Team:UMaryland/BCmodel"><u>use of a bacterial cellulose domain</u></a> for increased biodegradation before pursuing further work.
  
 
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Explaination of our Parameters
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It's really long. Just download this <a href="https://static.igem.org/mediawiki/2018/e/e7/T--UMaryland--simbioparameters.xlsx"><u>Excel file</u></a> instead.
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Results of Simulation
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<img src="https://static.igem.org/mediawiki/2018/a/a9/T--UMaryland--modelresults.png" style="max-width: 100%" alt="Waluigi Time!">
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<div class="imageBoxDescription">Figure 1 - Results of the model</div>
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Comparison to Experimental Results
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Latest revision as of 01:54, 18 October 2018

Template Title Template Title

Modeling
Predicting Outcomes To Direct Our Projects
One of the primary goals of our project, PETNET, was to be informed and deliberate in our approach.
We employed Matlab Simbiology to make a critical decision on which of two biosensors to select in order to detect PET degradation.
We also used modeling to justify the use of a bacterial cellulose domain for increased biodegradation before pursuing further work.

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