Line 25: | Line 25: | ||
<div id="achievement"> | <div id="achievement"> | ||
<h3>Achievement</h3> | <h3>Achievement</h3> | ||
− | <p></p> | + | <div class="achievementborder"> |
+ | <ol> | ||
+ | <br> | ||
+ | <li class="bigli">Figure out how much CO<sub>2</sub> uptake into the <i>E.coli</i> to make our project more effective.</li> | ||
+ | <br> | ||
+ | <li class="bigli">We will realize how much carbon we can fix in our project.</li> | ||
+ | <br> | ||
+ | </ol> | ||
+ | </div> | ||
+ | <br> | ||
+ | <p class="pcontent">In order to achieve these two goals, we try to figure out three main questions:</p> | ||
+ | <ol> | ||
+ | <li><a class="link" href="#CO2_uptake">Amount of CO<sub>2</sub> uptake by <i>E. coli</i></a></li> | ||
+ | <li><a class="link" href="https://2018.igem.org/Team:NCKU_Tainan/Kinetic_Law">CO<sub>2</sub> flux in <i>E. coli</i> metabolism</a></li> | ||
+ | <li><a class="link" href="https://2018.igem.org/Team:NCKU_Tainan/Analyse">Amount of Carbon fixed in biomass</a></li> | ||
+ | </ol> | ||
</div> | </div> | ||
<div id="purpose"> | <div id="purpose"> | ||
<h3>Purpose</h3> | <h3>Purpose</h3> | ||
− | <p></p> | + | <p>We aim to develop the biological model to make our experimental data more useful, |
+ | even more effective to achieve the optimization parameters in the model. | ||
+ | Therefore, we can save time to try and error on doing experiment. | ||
+ | After that, we can analyze the rate of production and consumption. | ||
+ | In this way, we can calculate the amount of carbon dioxide uptake into the Escherichia coli (<i>E.coli</i>) and | ||
+ | calculate how many CO<sub>2</sub> can be used in our system. | ||
+ | In addition, we also want to realize how much carbon we can fix. | ||
+ | We have to understand what’s going on in <i>E. coli</i> after uptaking CO<sub>2</sub>. | ||
+ | Since we integrated non-native carbon fixation pathway into <i>E. coli</i> to let <i>E. coli</i> utilize CO<sub>2</sub>, | ||
+ | we can simplify the CO<sub>2</sub> utilization pathway in engineered <i>E. coli</i> into two parts, | ||
+ | <a class="link" href="#CO2_uptake">CO<sub>2</sub> uptake</a> and <a class="link" href="#CO2_metabolism">CO<sub>2</sub> metabolism</a>. | ||
+ | </p> | ||
</div> | </div> | ||
<div id="CO2_uptake"> | <div id="CO2_uptake"> | ||
<h3>CO<sub>2</sub> uptake</h3> | <h3>CO<sub>2</sub> uptake</h3> | ||
− | <p></p> | + | <p>CO<sub>2</sub> exists in the phase of gas. |
+ | Therefore, <i>E. coli</i> uptake CO<sub>2</sub> by diffusion. | ||
+ | However, the native diffusion rate is really low, not to mention the dissolved rate. | ||
+ | We clone CA (carbonic anhydrase) gene to speed up the diffusion rate. | ||
+ | The higher diffusion rate, the higher CO<sub>2</sub> concentration maintained in engineered <i>E. coli</i>. | ||
+ | Higher CO<sub>2</sub> concentration in engineered <i>E. coli</i> provides more steady CO<sub>2</sub> condition for downstream pathway.</p> | ||
<div class="row"> | <div class="row"> | ||
<img class="col-md-12 smallimg" src="https://static.igem.org/mediawiki/2018/0/06/T--NCKU_Tainan--model_uptake.png"> | <img class="col-md-12 smallimg" src="https://static.igem.org/mediawiki/2018/0/06/T--NCKU_Tainan--model_uptake.png"> | ||
− | </div> | + | </div> |
<div> | <div> | ||
<div class="row"> | <div class="row"> | ||
<a class="btn col-md-12" data-toggle="collapse" href="#co2_uptake" role="button" aria-expanded="false" aria-controls="multiCollapseExample1"> | <a class="btn col-md-12" data-toggle="collapse" href="#co2_uptake" role="button" aria-expanded="false" aria-controls="multiCollapseExample1"> | ||
− | CO<sub>2</sub> uptake | + | Table 1. parameters of CO<sub>2</sub> uptake pathway |
<i class="fa fa-arrow-down fa-10" aria-hidden="true"></i> | <i class="fa fa-arrow-down fa-10" aria-hidden="true"></i> | ||
</a> | </a> | ||
− | </div> | + | </div> |
− | + | <div class="collapse multi-collapse" id="co2_uptake"> | |
− | + | <div class="card card-body"> | |
− | + | <table width="100%"> | |
− | + | ||
<tr> | <tr> | ||
<th colspan="4">CO<sub>2</sub> uptake</th> | <th colspan="4">CO<sub>2</sub> uptake</th> | ||
Line 87: | Line 117: | ||
<td colspan="2">0.0062</td> | <td colspan="2">0.0062</td> | ||
</tr> | </tr> | ||
− | + | </table> | |
− | + | ||
</div> | </div> | ||
+ | </div> | ||
+ | <div class="row"> | ||
+ | <h4>Result</h4> | ||
+ | <div class="col-12" id="resultimg"> | ||
+ | <img class="twoimg" src="result1.png"> | ||
+ | <p>Fig. 2 CO<sub>2</sub> uptake amount change with time in engineered <i>E. coli</i> without CA gene.</p> | ||
+ | <img class="twoimg" src="result2.png"> | ||
+ | <p>Fig. 3 CO<sub>2</sub> uptake amount change with time in engineered <i>E. coli</i> with CA gene.</p> | ||
+ | </div> | ||
+ | </div> | ||
</div> | </div> | ||
</div> | </div> | ||
Line 95: | Line 134: | ||
<div id="CO2_metabolism"> | <div id="CO2_metabolism"> | ||
<h3>CO<sub>2</sub> Metabolism</h3> | <h3>CO<sub>2</sub> Metabolism</h3> | ||
− | <div> | + | <p class="pcontent">Xylose is the main source of our engineered <i>E. coli</i> to uptake CO<sub>2</sub>. |
+ | However, there is another pathway for xylose metabolism, | ||
+ | which means that there is only a part of xylose that <i>E. coli</i> consumed will react with CO<sub>2</sub>. | ||
+ | We build a model to predict the different carbon flux between original xylose metabolism, | ||
+ | <a class="link" href="#ppptable">PP pathway (Pentose Phosphate pathway)</a>, and our <a class="link" href="#bypasstable">CO<sub>2</sub> bypass pathway</a>. | ||
+ | </p> | ||
+ | <p class="pcontent">Both of two pathways will end up at pyruvate, | ||
+ | which is a key intersection in the network of metabolic pathways. | ||
+ | We built a model of <a class="link" href="#tcatable">TCA cycle</a> to explain how pyruvate play an energy precursor role and then | ||
+ | is converted into biomass of <i>E. coli</i>. | ||
+ | </p> | ||
+ | <div class="row"> | ||
+ | <h3>Pathway</h3> | ||
+ | <div class="col-12"> | ||
+ | <img class="col-md-6" id="easypathway" src="https://static.igem.org/mediawiki/2018/f/f8/T--NCKU_Tainan--model_easypathway.png"> | ||
+ | <img class="col-md-6 contentimg" src="https://static.igem.org/mediawiki/2018/3/3e/T--NCKU_Tainan--model_pathway.png"> | ||
+ | <p class="pcontent">Fig. 4 Metabolic pathway of CO<sub>2</sub>-utilization <i>E. coli</i>. | ||
+ | The introduced CO<sub>2</sub>-utilization bypass pathway composed of PRK and Rubisco is drawn in green line and noted by ” A” reaction, | ||
+ | while the central carbon metabolic pathway including PP pathway and TCA cycle is drawn in blue line and yellow line and noted by “B” reaction and “C” reaction, respectively. | ||
+ | See more detail in <a class="link" href="https://2018.igem.org/Team:NCKU_Tainan/Kinetic_Law">Kinetic law</a>. | ||
+ | </p> | ||
+ | </div> | ||
+ | </div> | ||
+ | <div class="row"> | ||
+ | <div class="table" id="bypasstable"> | ||
+ | <div class="row"> | ||
+ | <a class="btn col-md-12" data-toggle="collapse" href="#co2_bypass" role="button" aria-expanded="false" aria-controls="multiCollapseExample1"> | ||
+ | Table 2. Kinetic parameters of CO<sub>2</sub>-utilization bypass pathway | ||
+ | <i class="fa fa-arrow-down fa-10" aria-hidden="true"></i> | ||
+ | </a> | ||
+ | </div> | ||
+ | <div class="collapse multi-collapse" id="co2_bypass"> | ||
+ | <div class="card card-body"> | ||
+ | <table width="100%"> | ||
+ | <tr> | ||
+ | <th colspan="8">CO<sub>2</sub> bypass pathway</th> | ||
+ | <th colspan="3">Vmax (1/S)</th> | ||
+ | <th colspan="3">KM (mM)</th> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="2">A1</td> | ||
+ | <td colspan="6">$${Xylose \rightarrow Xylulose}$$ | ||
+ | $${Xylulose + ATP \rightarrow X5P}$$ | ||
+ | </td> | ||
+ | <td colspan="3">0.02456</td> | ||
+ | <td colspan="3">124.55879</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="2">A2</td> | ||
+ | <td colspan="6">$${X5P \rightarrow Ru5P}$$</td> | ||
+ | <td colspan="3">0.08</td> | ||
+ | <td colspan="3">12.5</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="2">A3</td> | ||
+ | <td colspan="6">$${Ru5P \xrightarrow{PRK} RuBP}$$</td> | ||
+ | <td colspan="3">225.81858</td> | ||
+ | <td colspan="3">0.27</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td rowspan="2" colspan="2">A4</td> | ||
+ | <td rowspan="2" colspan="6">$${RuBP + CO_2 \xrightarrow{RuBisCO} 3PG}$$</td> | ||
+ | <td colspan="2">Vmax</td> | ||
+ | <td colspan="2">Krubp</td> | ||
+ | <td colspan="2">KCO<sub>2</sub></td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="2">333.33</td> | ||
+ | <td colspan="2">53</td> | ||
+ | <td colspan="2">2.7</td> | ||
+ | </tr> | ||
+ | </table> | ||
+ | </div> | ||
+ | </div> | ||
+ | </div> | ||
+ | |||
+ | <div class="table" id="ppptable"> | ||
+ | <div class="row"> | ||
+ | <a class="btn col-md-12" data-toggle="collapse" href="#ppp" role="button" aria-expanded="false" aria-controls="multiCollapseExample1"> | ||
+ | Table 3. Kinetic parameters of PP pathway in <i>E. coli</i> | ||
+ | <i class="fa fa-arrow-down fa-10" aria-hidden="true"></i> | ||
+ | </a> | ||
+ | </div> | ||
+ | <div class="collapse multi-collapse" id="ppp"> | ||
+ | <div class="card card-body"> | ||
+ | <table width="100%"> | ||
+ | <tr> | ||
+ | <th colspan="13">Pentose Phosphate Pathway</th> | ||
+ | <th colspan="6">Vmax (1/S)</th> | ||
+ | <th colspan="6">KM (mM)</th> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="1">B1</td> | ||
+ | <td colspan="12">$${Ru5P \rightarrow R5P}$$</td> | ||
+ | <td colspan="6">0.13672</td> | ||
+ | <td colspan="6">12.5</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td rowspan="5" colspan="1">B2</td> | ||
+ | <td colspan="24">$${X5P + R5P \rightarrow S7P + GAP}$$</td> </tr> | ||
+ | <tr> | ||
+ | <td colspan="12">$${X5P \rightarrow S7P}$$</td> | ||
+ | <td colspan="6">58.27</td> | ||
+ | <td colspan="6">4.96E-09</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="12">$${X5P \rightarrow GAP}$$</td> | ||
+ | <td colspan="6">58.27</td> | ||
+ | <td colspan="6">48</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="12">$${R5P \rightarrow S7P}$$</td> | ||
+ | <td colspan="6">58.27</td> | ||
+ | <td colspan="6">0.008</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="12">$${R5P \rightarrow GAP}$$</td> | ||
+ | <td colspan="6">58.27</td> | ||
+ | <td colspan="6">3.05E-07</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td rowspan="5" colspan="1">B3</td> | ||
+ | <td colspan="24">$${S7P + GAP \rightarrow F6P + E4P}$$</td> </tr> | ||
+ | <tr> | ||
+ | <td colspan="12">$${S7P \rightarrow E4P}$$</td> | ||
+ | <td colspan="6">58.27</td> | ||
+ | <td colspan="6">2.524</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="12">$${S7P \rightarrow F6P}$$</td> | ||
+ | <td colspan="6">58.27</td> | ||
+ | <td colspan="6">6.10E-09</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="12">$${GAP \rightarrow E4P}$$</td> | ||
+ | <td colspan="6">58.27</td> | ||
+ | <td colspan="6">1.73E-07</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="12">$${GAP \rightarrow F6P}$$</td> | ||
+ | <td colspan="6">58.27</td> | ||
+ | <td colspan="6">8.23E-09</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td rowspan="5" colspan="1">B4</td> | ||
+ | <td colspan="24">$${E4P + X5P \rightarrow F6P + GAP}$$</td> </tr> | ||
+ | <tr> | ||
+ | <td colspan="12">$${E4P \rightarrow F6P}$$</td> | ||
+ | <td colspan="6">1</td> | ||
+ | <td colspan="6">1</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="12">$${E4P \rightarrow GAP}$$</td> | ||
+ | <td colspan="6">5.827E-4</td> | ||
+ | <td colspan="6">1.733E-7</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="12">$${X5P \rightarrow F6P}$$</td> | ||
+ | <td colspan="6">0.05827</td> | ||
+ | <td colspan="6">1.733E-7</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="12">$${X5P \rightarrow GAP}$$</td> | ||
+ | <td colspan="6">0.005827</td> | ||
+ | <td colspan="6">48.8</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="1">B5</td> | ||
+ | <td colspan="12">$${FBP \rightarrow GAP}$$</td> | ||
+ | <td colspan="6">135.425</td> | ||
+ | <td colspan="6">4</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td rowspan="2" colspan="1">B6</td> | ||
+ | <td rowspan="2" colspan="12">$${DHAP \longleftrightarrow GAP}$$</td> | ||
+ | <td colspan="3">Vmf</td> | ||
+ | <td colspan="3">Vmr</td> | ||
+ | <td colspan="3">Km<sub>DHAP</sub></td> | ||
+ | <td colspan="3">Km<sub>GAP</sub></td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="3">0.2394</td> | ||
+ | <td colspan="3">0.24</td> | ||
+ | <td colspan="3">0.812</td> | ||
+ | <td colspan="3">0.245</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="1">B7</td> | ||
+ | <td colspan="12">$${FBP \rightarrow DHAP}$$</td> | ||
+ | <td colspan="6">0.0001247</td> | ||
+ | <td colspan="6">0.04</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="1">B8</td> | ||
+ | <td colspan="12">$${F6P + ATP \rightarrow FBP + ADP}$$</td> | ||
+ | <td colspan="6">88.2533</td> | ||
+ | <td colspan="6">0.017</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="1">B9</td> | ||
+ | <td colspan="12">$${F6P \rightarrow G6P}$$</td> | ||
+ | <td colspan="6">88.2353</td> | ||
+ | <td colspan="6">0.017</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td rowspan="2" colspan="1">B10</td> | ||
+ | <td rowspan="2" colspan="12">$${G6P + NADP^+ \rightarrow 6PG + NADPH}$$</td> | ||
+ | <td colspan="4">Vmax</td> | ||
+ | <td colspan="4">Km<sub>G6P</sub></td> | ||
+ | <td colspan="4">Km<sub>NADP</sub></td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="4">11.736</td> | ||
+ | <td colspan="4">0.12</td> | ||
+ | <td colspan="4">0.0123</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="1">B11</td> | ||
+ | <td colspan="12">$${6PG + NADP^+ \rightarrow Ru5P + NADPH}$$</td> | ||
+ | <td colspan="6">1.0</td> | ||
+ | <td colspan="6">0.044</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="1">B12</td> | ||
+ | <td colspan="12">$${GAP + NADP^+ + ADP \rightarrow 3PGA + NADPH + ATP}$$</td> | ||
+ | <td colspan="6">0.4</td> | ||
+ | <td colspan="6">0.013</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="1">B13</td> | ||
+ | <td colspan="12">$${3PGA \rightarrow PEP}$$</td> | ||
+ | <td colspan="6">0.43478</td> | ||
+ | <td colspan="6">0.23</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="1">B14</td> | ||
+ | <td colspan="12">$${PEP \rightarrow PYR}$$</td> | ||
+ | <td colspan="6">0.23148</td> | ||
+ | <td colspan="6">0.45</td> | ||
+ | </tr> | ||
+ | </table> | ||
+ | </div> | ||
+ | </div> | ||
+ | </div> | ||
+ | |||
+ | <div class="table" id="tcatable"> | ||
+ | <div class="row"> | ||
+ | <a class="btn col-md-12" data-toggle="collapse" href="#tca" role="button" aria-expanded="false" aria-controls="multiCollapseExample1"> | ||
+ | Table 4. Kinetic parameters of TCA cycle in <i>E. coli</i> | ||
+ | <i class="fa fa-arrow-down fa-10" aria-hidden="true"></i> | ||
+ | </a> | ||
+ | </div> | ||
+ | <div class="collapse multi-collapse" id="tca"> | ||
+ | <div class="card card-body"> | ||
+ | <table width="100%"> | ||
+ | <tr> | ||
+ | <th colspan="13">TCA cycle</th> | ||
+ | <th colspan="3">Vmf (mM/min)</th> | ||
+ | <th colspan="3">Vmr (mM/min)</th> | ||
+ | <th colspan="3">Ks (mM)</th> | ||
+ | <th colspan="3">Kp (mM)</th> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="1">C1</td> | ||
+ | <td colspan="12">$${PEP + HCO_3^- + NAD^+ \rightarrow OAA + NADH}$$</td> | ||
+ | <td colspan="3">1</td> | ||
+ | <td colspan="3">1</td> | ||
+ | <td colspan="3">1</td> | ||
+ | <td colspan="3">1</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="1">C2</td> | ||
+ | <td colspan="12">$${AcCoA \rightarrow CIT}$$</td> | ||
+ | <td colspan="3">64.8</td> | ||
+ | <td colspan="3">0.648</td> | ||
+ | <td colspan="3">0.05</td> | ||
+ | <td colspan="3">0.12</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="1">C3</td> | ||
+ | <td colspan="12">$${CIT \rightarrow ICIT}$$</td> | ||
+ | <td colspan="3">31.2</td> | ||
+ | <td colspan="3">0.312</td> | ||
+ | <td colspan="3">1.7</td> | ||
+ | <td colspan="3">0.7</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="1">C4</td> | ||
+ | <td colspan="12">$${ICIT + NADP^+ \rightarrow AKG + NADPH + CO_2}$$</td> | ||
+ | <td colspan="3">10.2</td> | ||
+ | <td colspan="3">0.102</td> | ||
+ | <td colspan="3">0.03</td> | ||
+ | <td colspan="3">0.3</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="1">C5</td> | ||
+ | <td colspan="12">$${AKG + NAD^+ \rightarrow AKG + NADPH + CO_2}$$</td> | ||
+ | <td colspan="3">57.344</td> | ||
+ | <td colspan="3">0.57344</td> | ||
+ | <td colspan="3">0.1</td> | ||
+ | <td colspan="3">1.0</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="1">C6</td> | ||
+ | <td colspan="12">$${SUCCoA + ADP \rightarrow SUCC + ATP}$$</td> | ||
+ | <td colspan="3">6.54</td> | ||
+ | <td colspan="3">0.0651</td> | ||
+ | <td colspan="3">0.015</td> | ||
+ | <td colspan="3">0.15</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="1">C7</td> | ||
+ | <td colspan="12">$${SUCC + FAD \rightarrow FUM + FADH_2}$$</td> | ||
+ | <td colspan="3">1.02</td> | ||
+ | <td colspan="3">1.02</td> | ||
+ | <td colspan="3">0.12</td> | ||
+ | <td colspan="3">0.15</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="1">C8</td> | ||
+ | <td colspan="12">$${FUM \rightarrow MAL}$$</td> | ||
+ | <td colspan="3">887.7</td> | ||
+ | <td colspan="3">87.7</td> | ||
+ | <td colspan="3">0.25</td> | ||
+ | <td colspan="3">2.38</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="1">C9</td> | ||
+ | <td colspan="12">$${MAL + NAD^+ \rightarrow OAA + NADH}$$</td> | ||
+ | <td colspan="3">184</td> | ||
+ | <td colspan="3">184</td> | ||
+ | <td colspan="3">0.833</td> | ||
+ | <td colspan="3">0.0443</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="1">C10</td> | ||
+ | <td colspan="12">$${OAA \rightarrow CIT}$$</td> | ||
+ | <td colspan="3">64.8</td> | ||
+ | <td colspan="3">0.648</td> | ||
+ | <td colspan="3">0.012</td> | ||
+ | <td colspan="3">0.12</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td rowspan="2" colspan="1">C11</td> | ||
+ | <td rowspan="2" colspan="12">$${PYR \rightarrow NADH + AcCoA + CO_2}$$</td> | ||
+ | <td colspan="6">Vmax (1/s)</td> | ||
+ | <td colspan="6">KM (mM)</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="6">0.00518</td> | ||
+ | <td colspan="6">1.5</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="1">C12</td> | ||
+ | <td colspan="12">$${ICIT \rightarrow GOX}$$</td> | ||
+ | <td colspan="3">1.172</td> | ||
+ | <td colspan="3">0.01172</td> | ||
+ | <td colspan="3">0.145</td> | ||
+ | <td colspan="3">0.13</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="1">C13</td> | ||
+ | <td colspan="12">$${GOX \rightarrow MAL}$$</td> | ||
+ | <td colspan="3">20</td> | ||
+ | <td colspan="3">0.2</td> | ||
+ | <td colspan="3">0.057</td> | ||
+ | <td colspan="3">1.0</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td rowspan="2" colspan="1">C14</td> | ||
+ | <td rowspan="2" colspan="12">$${ICIT \rightarrow SUCC + GOX}$$</td> | ||
+ | <td colspan="3">Vmf (mM/min)</td> | ||
+ | <td colspan="3">Vmr (mM/min)</td> | ||
+ | <td colspan="2">Kicit (mM)</td> | ||
+ | <td colspan="2">Ksucc (mM)</td> | ||
+ | <td colspan="2">Kgox (mM)</td> | ||
+ | </tr> | ||
+ | <tr> | ||
+ | <td colspan="3">1.172</td> | ||
+ | <td colspan="3">0.012</td> | ||
+ | <td colspan="2">0.145</td> | ||
+ | <td colspan="2">0.59</td> | ||
+ | <td colspan="2">0.13</td> | ||
+ | </tr> | ||
+ | </table> | ||
+ | </div> | ||
+ | </div> | ||
+ | </div> | ||
+ | |||
<div class="table"> | <div class="table"> | ||
<div class="row"> | <div class="row"> | ||
<a class="btn col-md-12" data-toggle="collapse" href="#species" role="button" aria-expanded="false" aria-controls="multiCollapseExample1"> | <a class="btn col-md-12" data-toggle="collapse" href="#species" role="button" aria-expanded="false" aria-controls="multiCollapseExample1"> | ||
− | Species | + | Table 5. Species of Metabolic pathway of CO<sub>2</sub>-utilization <i>E. coli</i> |
<i class="fa fa-arrow-down fa-10" aria-hidden="true"></i> | <i class="fa fa-arrow-down fa-10" aria-hidden="true"></i> | ||
</a> | </a> | ||
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<div class="collapse multi-collapse" id="species"> | <div class="collapse multi-collapse" id="species"> | ||
<div class="card card-body"> | <div class="card card-body"> | ||
− | <table class="bbg"> | + | <table width="100%" class="bbg"> |
<tr> | <tr> | ||
<td>E4P</td> | <td>E4P</td> | ||
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− | </div> | + | </div> |
<div class="row"> | <div class="row"> | ||
− | + | <div class="col-12" id="CO2_vs_xylose"> | |
− | <div class="col-12 | + | <h3>Xylose v.s. CO<sub>2</sub> analysis in CO<sub>2</sub> utilization efficiency</h3> |
− | + | <p class="pcontent">Two main sources of CO<sub>2</sub> metabolism in engineered <i>E. coli</i> are xylose and CO<sub>2</sub>. | |
− | < | + | CO<sub>2</sub> utilization rate varies under different condition. |
− | + | We use 5% CO<sub>2</sub> (about 2.6 mM) and 0.4% (about 26 mM) xylose in experiment as an optimization CO<sub>2</sub> utilization rate. | |
− | + | Constant CO<sub>2</sub> condition and limited CO<sub>2</sub> condition also effects metabolism performance. | |
− | + | In other words, open system and close system showed different results. | |
− | + | Therefore, adjust initial concentration of CO<sub>2</sub> and Xylose and choose open or close system to see the change of pyruvate production. | |
− | + | </p> | |
− | < | + | <form> |
− | + | <div class="form-row"> | |
− | + | <div class="col"> | |
− | + | <label for="inputState" style="color: white">Concentration of xylose</label> | |
− | + | <select id="inputState" name="xylose" class="form-control" onclick="photos(this);"> | |
− | + | <option value="1">0.4 %</option> | |
− | + | <option value="2">1 %</option> | |
− | < | + | <option value="3">2 %</option> |
− | + | </select> | |
− | + | </div> | |
− | + | <div class="col"> | |
− | + | <label for="inputState" style="color: white">Concentration of CO<sub>2</sub></label> | |
− | + | <select id="inputState" name="co2" class="form-control" onclick="photos(this);"> | |
− | + | <option value="1">5 %</option> | |
− | + | <option value="2">10 %</option> | |
− | < | + | <option value="3">15 %</option> |
− | + | </select> | |
− | + | </div> | |
− | < | + | <div class="col"> |
− | + | <label for="inputState" style="color: white">Close system / Open system</label> | |
− | + | <select id="inputState" name="co2switch" class="form-control" onclick="photos(this);"> | |
− | + | <option value="1">Close</option> | |
− | + | <option value="2">Open</option> | |
− | < | + | </select> |
− | + | </div> | |
− | < | + | </div> |
− | + | </form> | |
− | + | <div class="row"> | |
− | < | + | <img class="col-6 contentimg smallimg" style="display: none" id="MyImage"/> |
− | + | <img class="col-6 contentimg smallimg" style="display: none" id="SwitchImage"/> | |
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</div> | </div> | ||
− | <div | + | <div id="reference"> |
− | + | <h3>Reference</h3> | |
− | + | <ol> | |
− | < | + | <li class="smallp">Jacqueline E. G, Christopher P. L, Maciek R. A. Comprehensive analysis of glucose and xylose metabolism in Escherichia coli under aerobic and anaerobic conditions by 13C metabolic flux analysis. Metab Eng. 2017 Jan; 39: 9–18.</p> |
− | + | <li class="smallp">Uwe Sauer, Bernhard J. E. The PEP—pyruvate—oxaloacetate node as the switch point for carbon flux distribution in bacteria. FEMS Microbiology Reviews, Volume 29, Issue 4, 1 September 2005, Pages 765–794.</li> | |
− | + | </ol> | |
− | + | <br> | |
− | + | ||
− | < | + | |
</div> | </div> | ||
</div> | </div> |
Revision as of 17:20, 21 September 2018