Team:UESTC-China/Modeling2

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<a href="https://2014.igem.org/Team:UESTC-China/Futurework">
<a href="https://2014.igem.org/Team:UESTC-China/Futurework">
<li>Future work</li></a>
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<a href="https://2014.igem.org/Team:UESTC-China/Judingform"><li>Judging Criteria</li></a>
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  <h1 style="color:#1b1b1b; position:relative; left:0px; padding:15 5px; font-size:35px; font-family: calibri, arial, helvetica, sans-serif; font-weight: bold;font-style: Italic; text-align:center; width:1140px;">Folate-independent pathway</h1>
  <h1 style="color:#1b1b1b; position:relative; left:0px; padding:15 5px; font-size:35px; font-family: calibri, arial, helvetica, sans-serif; font-weight: bold;font-style: Italic; text-align:center; width:1140px;">Folate-independent pathway</h1>
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  <h1 class="SectionTitles" style="text-align:left; width:500px;">Mathematical Principles</h1>
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  <h1 class="SectionTitles" style=" width:1100px;">Mathematical principles</h1>
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  <p style="color:#1b1b1b;">View previous presentation in the modeling of photosynthetic HCHO assimilation pathway:</p>  
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  <p style="color:#1b1b1b;">View previous presentation in the modeling of photosynthetic formaldehyde assimilation pathway:</p>  
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  <a href="https://2014.igem.org/Team:UESTC-China/Modeling1" class="button">Photosynthetic HCHO assimilation pathway (HPS/PHI)</a>
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  <a href="https://2014.igem.org/Team:UESTC-China/Modeling1" class="button">Photosynthetic formaldehyde assimilation pathway</a>
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  <h1 class="SectionTitles" style="width:500px;"> Folate-independent pathway</h1>
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  <h1 class="SectionTitles" style="width:1100px;"> Folate-independent pathway</h1>
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<p style="color:#1b1b1b;">The metabolism of folate-independent pathway was shown on Fig.1.</p>
<p style="color:#1b1b1b;">The metabolism of folate-independent pathway was shown on Fig.1.</p>
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<p><img style="width:50%; margin-left:15px;" src="https://static.igem.org/mediawiki/2014/5/5c/MFig-4.jpg"></p>
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<div><img style="width:55% ;" src="https://static.igem.org/mediawiki/2014/e/e9/Regu2.png"></div>
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<div><p style="position:relative; left:0px; padding:15 5px; font-size:20px; font-family: calibri, arial, helvetica, sans-serif; font-style: calibri; text-align:justify; width:900px; color:#1b1b1b;">
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<strong>Fig.1</strong> Schematic diagram offormaldehyde metabolic pathways in plant. SMM cycle, S-methylmethionine cycle
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<p style="position:relative; left:0px; padding:15 5px; font-size:20px; font-family: calibri, arial, helvetica, sans-serif; font-style: Italic; text-align:left; width:680px; color:#1b1b1b;"><strong>Fig.1</strong> Schematic diagram offormaldehyde metabolic pathways in plant. SMM cycle, S-methylmethionine cycle</p>
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<p style="color:#1b1b1b;">Simplify the system (Fig.2), consist of the input of formaldehyde and the recycle of HCOOH:</p>
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<p style="color:#1b1b1b;">Simplify the system (Fig.2), consist of the input of HCHO and the recycle of HCOOH:</p>
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<div><img style="width:55% ;" src="https://static.igem.org/mediawiki/2014/c/ce/MFig-5.jpg"></div>
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<p><img style="width:50%; margin-left:15px;" src="https://static.igem.org/mediawiki/2014/c/ce/MFig-5.jpg"></p>
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<div><p style="position:relative; left:70px; padding:15 5px; font-size:20px; font-family: calibri, arial, helvetica, sans-serif; font-style: calibri; text-align:justify; width:900px; color:#1b1b1b;">
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<p style="position:relative; left:0px; padding:15 5px; font-size:20px; font-family: calibri, arial, helvetica, sans-serif; font-style: Italic; text-align:left; width:680px; color:#1b1b1b;"><strong>Fig.2</strong> A simplified version of folate-independent pathway. FTS, 10-Formyl-THF synthetase. </p>
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<strong>Fig.2</strong> A simplified version of folate-independent pathway. FTS, 10-Formyl-THF synthetase.
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<p style="color:#1b1b1b;">Some research indicated that the activity of FTS in tobacco was low and we ignored this pathway in our system. The chemical reactions of this formaldehyde metabolism are shown below.</p>
<p style="color:#1b1b1b;">Some research indicated that the activity of FTS in tobacco was low and we ignored this pathway in our system. The chemical reactions of this formaldehyde metabolism are shown below.</p>
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<p style="color:#1b1b1b;"><img style="width:50%; margin-left:15px;" src="https://static.igem.org/mediawiki/2014/4/43/M12.gif"><em style="position:absolute; right:150px; top: 55px;">(2)</em></p>
<p style="color:#1b1b1b;"><img style="width:50%; margin-left:15px;" src="https://static.igem.org/mediawiki/2014/4/43/M12.gif"><em style="position:absolute; right:150px; top: 55px;">(2)</em></p>
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<h1 class="SectionTitles" style="text-align:left; width:500px;">Results</h1>
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<h1 class="SectionTitles" style=" width:1100px;">Results</h1>
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<p style="color:#1b1b1b;">By changing the value of the parameters (<i>k0, k1</i> … ), we obtained the relationship (Fig.3) between the concentration of different components (HCOOH and HCHO) versus the time.</p>
<p style="color:#1b1b1b;">By changing the value of the parameters (<i>k0, k1</i> … ), we obtained the relationship (Fig.3) between the concentration of different components (HCOOH and HCHO) versus the time.</p>
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<p><img style="width:80%; position:relative; left:-30px;" src="https://static.igem.org/mediawiki/2014/6/6d/MFig-6.jpg"></p>
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<div><img style="width:80% ;" src="https://static.igem.org/mediawiki/2014/5/5f/Uestc_model2.jpg"></div>
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<p style="position:relative; left:30px; padding:15 5px; font-size:20px; font-family: calibri, arial, helvetica, sans-serif; font-style: Italic; text-align:left; width:680px; color:#1b1b1b;"><strong>Fig.3</strong> The diagram of concentration versus time.</p>
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<div><p style="position:relative; left:50px; padding:15 5px; font-size:20px; font-family: calibri, arial, helvetica, sans-serif; font-style: calibri; text-align:justify; width:500px; color:#1b1b1b;">
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<strong>Fig.3</strong> The diagram of concentration versus time.
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<p style="color:#1b1b1b;">We found that the components tend to be the steady state when time goes by. Means that when the formaldehyde into the plant cell, the original steady state was broken, but after a period of time, the cells will restore homeostasis.</p>
<p style="color:#1b1b1b;">We found that the components tend to be the steady state when time goes by. Means that when the formaldehyde into the plant cell, the original steady state was broken, but after a period of time, the cells will restore homeostasis.</p>
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<h1 class="SectionTitles" style="text-align:left; width:500px;">Link to other modeling</h1>
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<h1 class="SectionTitles" style=" width:1100px;">Link to other modeling</h1>
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<a href="https://2014.igem.org/Team:UESTC-China/Modeling1" class="button">Photosynthetic HCHO assimilation pathway (HPS/PHI)</a>
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<a href="https://2014.igem.org/Team:UESTC-China/Modeling1" class="button">Photosynthetic formaldehyde assimilation pathway</a>
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<br/>
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<a href="https://2014.igem.org/Team:UESTC-China/Modeling3" class="button">Modeling of stoma (AtAHA2)</a>
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<a href="https://2014.igem.org/Team:UESTC-China/Modeling3" class="button">Modeling of stoma</a>
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Latest revision as of 02:04, 18 October 2014

UESTC-China

Folate-independent pathway


Mathematical principles


View previous presentation in the modeling of photosynthetic formaldehyde assimilation pathway:


Photosynthetic formaldehyde assimilation pathway

Folate-independent pathway


The metabolism of folate-independent pathway was shown on Fig.1.


Fig.1 Schematic diagram offormaldehyde metabolic pathways in plant. SMM cycle, S-methylmethionine cycle


Simplify the system (Fig.2), consist of the input of formaldehyde and the recycle of HCOOH:


Fig.2 A simplified version of folate-independent pathway. FTS, 10-Formyl-THF synthetase.


Some research indicated that the activity of FTS in tobacco was low and we ignored this pathway in our system. The chemical reactions of this formaldehyde metabolism are shown below.


(1)


where parameter a is a constant which means the proportion of HCOOH into the calvin cycle. The dynamic equation group of the reaction system can be obtained:


(2)


Results


By changing the value of the parameters (k0, k1 … ), we obtained the relationship (Fig.3) between the concentration of different components (HCOOH and HCHO) versus the time.


Fig.3 The diagram of concentration versus time.


We found that the components tend to be the steady state when time goes by. Means that when the formaldehyde into the plant cell, the original steady state was broken, but after a period of time, the cells will restore homeostasis.



Link to other modeling

Photosynthetic formaldehyde assimilation pathway
Modeling of stoma
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