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Team:UESTC-China/Modeling2
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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> | ||
<br/> | <br/> | ||
| - | <h1 class="SectionTitles" style=" | + | <h1 class="SectionTitles" style=" width:1100px;">Mathematical principles</h1> |
<br/> | <br/> | ||
| - | <p style="color:#1b1b1b;">View previous presentation in the modeling of photosynthetic | + | <p style="color:#1b1b1b;">View previous presentation in the modeling of photosynthetic formaldehyde assimilation pathway:</p> |
<br/> | <br/> | ||
| - | <a href="https://2014.igem.org/Team:UESTC-China/Modeling1" class="button">Photosynthetic | + | <a href="https://2014.igem.org/Team:UESTC-China/Modeling1" class="button">Photosynthetic formaldehyde assimilation pathway</a> |
<br/><br/> | <br/><br/> | ||
| - | <h1 class="SectionTitles" style="width: | + | <h1 class="SectionTitles" style="width:1100px;"> Folate-independent pathway</h1> |
<br/> | <br/> | ||
<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> | ||
<br/> | <br/> | ||
| - | < | + | <div align="center"> |
| + | <div><img style="width:55% ;" src="https://static.igem.org/mediawiki/2014/e/e9/Regu2.png"></div> | ||
| + | <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;"> | ||
| + | |||
| + | <strong>Fig.1</strong> Schematic diagram offormaldehyde metabolic pathways in plant. SMM cycle, S-methylmethionine cycle | ||
| + | <br> | ||
| + | </p> | ||
| + | </div> | ||
| + | </div> | ||
<br/> | <br/> | ||
| - | <p style=" | + | <p style="color:#1b1b1b;">Simplify the system (Fig.2), consist of the input of formaldehyde and the recycle of HCOOH:</p> |
<br/> | <br/> | ||
| - | < | + | <div align="center"> |
| - | + | <div><img style="width:55% ;" src="https://static.igem.org/mediawiki/2014/c/ce/MFig-5.jpg"></div> | |
| - | + | <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;"> | |
| - | + | ||
| - | + | <strong>Fig.2</strong> A simplified version of folate-independent pathway. FTS, 10-Formyl-THF synthetase. | |
| + | <br> | ||
| + | </p> | ||
| + | </div> | ||
| + | </div> | ||
<br/> | <br/> | ||
<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> | ||
<br/> | <br/> | ||
| - | <h1 class="SectionTitles" style=" | + | <h1 class="SectionTitles" style=" width:1100px;">Results</h1> |
<br/> | <br/> | ||
<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> | ||
<br/> | <br/> | ||
| - | < | + | <div align="center"> |
| - | + | <div><img style="width:80% ;" src="https://static.igem.org/mediawiki/2014/5/5f/Uestc_model2.jpg"></div> | |
| - | + | <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;"> | |
| + | |||
| + | <strong>Fig.3</strong> The diagram of concentration versus time. | ||
| + | <br> | ||
| + | </p> | ||
| + | </div> | ||
| + | </div> | ||
<br/> | <br/> | ||
<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> | ||
<br/><br/> | <br/><br/> | ||
| - | <h1 class="SectionTitles" style=" | + | <h1 class="SectionTitles" style=" width:1100px;">Link to other modeling</h1> |
| - | <a href="https://2014.igem.org/Team:UESTC-China/ | + | <a href="https://2014.igem.org/Team:UESTC-China/Modeling1" class="button">Photosynthetic formaldehyde assimilation pathway</a> |
<br/> | <br/> | ||
| - | <a href="https://2014.igem.org/Team:UESTC-China/Modeling3" class="button">Modeling of stoma | + | <a href="https://2014.igem.org/Team:UESTC-China/Modeling3" class="button">Modeling of stoma</a> |
<br/> | <br/> | ||
| + | |||
Latest revision as of 02:04, 18 October 2014
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 pathwayModeling of stoma
