Team:METU Turkey modeling

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<a href="https://2014.igem.org/Team:METU_Turkey_InterLabStudy" style="text-decoration:none;color:#1C140D">INTERLAB STUDY </a></td>
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<a href="https://2014.igem.org/Team:METU_Turkey_interlabstudy" style="text-decoration:none;color:#1C140D">INTERLAB STUDY </a></td>
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<a href="https://2014.igem.org/Team:METU_Turkey_PolicyPractice" style="text-decoration:none;color:#1C140D">POLICY&PRACTICE </a></td>
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<a href="https://2014.igem.org/Team:METU_Turkey_Characterization" style="text-decoration:none;color:#1C140D">CHARACTERIZATION </a></td>
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<a href="https://2014.igem.org/Team:METU_Turkey_characterization" style="text-decoration:none;color:#1C140D">CHARACTERIZATION </a></td>
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<a href="https://2014.igem.org/Team:METU_Turkey_safety" style="text-decoration:none;color:#1C140D">SAFETY </a></td>
<a href="https://2014.igem.org/Team:METU_Turkey_safety" style="text-decoration:none;color:#1C140D">SAFETY </a></td>
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<a href="https://2014.igem.org/Team:METU_Turkey_Attributions" style="text-decoration:none;color:#1C140D">ATTRIBUTIONS </a></td>
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<a href="https://2014.igem.org/Team:METU_Turkey_attributions" style="text-decoration:none;color:#1C140D">ATTRIBUTIONS </a></td>
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<a href="https://2014.igem.org/Team:METU_Turkey_gallery" style="text-decoration:none;color:#1C140D">GALLERY </a></td>
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<a href="https://2014.igem.org/Team:METU_Turkey_protocols" style="text-decoration:none;color:#1C140D">PROTOCOLS </a></td>
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<td align="center" width="162px"><a href="http://www.metu.edu.tr"color:#FFFFFF"><img src="https://static.igem.org/mediawiki/2014/9/91/Metulogo.jpg" width="250px"></a></td>
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<h3> Our Project's Model </h3>
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<p> This graph shows us that E.coli during adding catechol to media, diffuses quickly because of the high diffusion rate. Therefore you can see catechol concentration inintiates with a high value. Then our bacteria degrade catechol to 2-hydoxymuconate semialdehyde then it degrades to 2-oxopent 4-enoate then continues to 4-hydroxy 2-oxopentoonate, finally we get our last degraded product of pyruvate. Our paramaeters of this cycle shows us that. While our bacteria diffuses catechol in its cytosol, its enzymes starts to degrade catechol fast to obtain pyruvate.    </p>
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<h3>SimBiology Results of our Kill-Switch Model:</h3>
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<a href="https://2014.igem.org/Team:METU_Turkey_project_degredation" style="text-decoration:none;color:#000000"> Degredation </a> </td>
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<a href="https://2014.igem.org/Team:METU_Turkey_project_references" style="text-decoration:none;color:#000000">References </a> </td>
 
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<h3>Project Introduction</h3>
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<p>Lorem ipsum ad his scripta blandit partiendo, eum fastidii accumsan euripidis in, eum liber hendrerit an. Qui ut wisi vocibus suscipiantur, quo dicit ridens inciderint id. Quo mundi lobortis reformidans eu, legimus senserit definiebas an eos. Eu sit tincidunt incorrupte definitionem, vis mutat affert percipit cu, eirmod consectetuer signiferumque eu per. In usu latine equidem dolores. Quo no falli viris intellegam, ut fugit veritus placerat per.</p>
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<h3>Interpretation of Kill-Switch:</h3>
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<h4>Results</h4>
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<p>Arabinose Promoter: (K808000) is activated when arabinose is present.</p>
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<p>Antiholin: (K515004) is specific negative regulator of holin function.</p>
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<li>Result 1 - Lorem ipsum ad his scripta blandit partiendo, eum fastidii accumsan euripidis in, eum liber hendrerit an.</li>
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<p>TetR+LVA: (C0040) tetracycline repressor modified with LVA tail for rapid degradation of the protein and faster fall time for the emission.</p>
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<li>Result 2 - Lorem ipsum ad his scripta blandit partiendo, eum fastidii accumsan euripidis in, eum liber hendrerit an.</li>  
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<p>TetR Promoter: (R0040) TetR repressible promoter.</p>
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<li>Result 3 - Lorem ipsum ad his scripta blandit partiendo, eum fastidii accumsan euripidis in, eum liber hendrerit an.</li>
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<p>T4 Endolysin: (K112806) degrades peptiodoglycan layer.</p>
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<p>Holin: (K124014) protein causes pores in the inner membrane, which allows lysozyme to access and brakedown the peptidoglycan of the cell wall, causing lysis and death.</p>
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<h3>First Graph:</h3>
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<p>When arabinose is present TetR+LVA and Anti-Holin are produced, TetR+LVA suppress the production of Holin and Endolysin by binding with TetR Promoter.</p>
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<img src="https://static.igem.org/mediawiki/2014/e/ea/Grafik2.jpg">
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<h3>Second Graph:</h3>
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<p>When arabinose is absent, TetR+LVA is not produced so TetR Promoter does not suppress producing of Holin and T4 Endolysin. Therefore, Holin protein causes pores and T4 endolysin degrades peptidoglycan layer and cell dies. If the promoter and RBS are strengthened the kill-switch circuit will be more effective. </p>
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<td align="center"><a href="http://www.geneious.com/"> <img src="https://static.igem.org/mediawiki/2014/8/89/Geneious_Logo.gif" width="175px"></a></td>
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<p> Our Supporter: </p>
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Latest revision as of 01:02, 18 October 2014

Team:METU Turkey/Templates/Navigationbar

HOME TEAM PROJECT PARTS MODELING INTERLAB STUDY
POLICY&PRACTICE CHARACTERIZATION SAFETY ATTRIBUTIONS GALLERY PROTOCOLS

Our Project's Model

This graph shows us that E.coli during adding catechol to media, diffuses quickly because of the high diffusion rate. Therefore you can see catechol concentration inintiates with a high value. Then our bacteria degrade catechol to 2-hydoxymuconate semialdehyde then it degrades to 2-oxopent 4-enoate then continues to 4-hydroxy 2-oxopentoonate, finally we get our last degraded product of pyruvate. Our paramaeters of this cycle shows us that. While our bacteria diffuses catechol in its cytosol, its enzymes starts to degrade catechol fast to obtain pyruvate.

SimBiology Results of our Kill-Switch Model:

Interpretation of Kill-Switch:

Arabinose Promoter: (K808000) is activated when arabinose is present.

Antiholin: (K515004) is specific negative regulator of holin function.

TetR+LVA: (C0040) tetracycline repressor modified with LVA tail for rapid degradation of the protein and faster fall time for the emission.

TetR Promoter: (R0040) TetR repressible promoter.

T4 Endolysin: (K112806) degrades peptiodoglycan layer.

Holin: (K124014) protein causes pores in the inner membrane, which allows lysozyme to access and brakedown the peptidoglycan of the cell wall, causing lysis and death.

First Graph:

When arabinose is present TetR+LVA and Anti-Holin are produced, TetR+LVA suppress the production of Holin and Endolysin by binding with TetR Promoter.

Second Graph:

When arabinose is absent, TetR+LVA is not produced so TetR Promoter does not suppress producing of Holin and T4 Endolysin. Therefore, Holin protein causes pores and T4 endolysin degrades peptidoglycan layer and cell dies. If the promoter and RBS are strengthened the kill-switch circuit will be more effective.

Our Supporter:

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