Team:Evry/ent prod

From 2013.igem.org

(Difference between revisions)
 
(11 intermediate revisions not shown)
Line 6: Line 6:
<h1>Enterobactin production model overview</h1>
<h1>Enterobactin production model overview</h1>
-
<img src="https://static.igem.org/mediawiki/2013/3/3b/EntBS.png" alt="Ent" width="20%" style="float:right;"/>
+
 
<h2>Introduction</h2>
<h2>Introduction</h2>
 +
<!--<img src="https://static.igem.org/mediawiki/2013/3/3b/EntBS.png" alt="Ent" width="50%" style="float:right;"/>-->
 +
<p>
<p>
-
 
+
In order to determine our <b><span style="color:#bb8900">Iron</span><span style="color:#7B0000"> Coli</span></b>'s enterobactin production rate, we modeled the different systems used in our project: the iron sensor, the inverter system and the chelator system.<br/>
-
 
+
The first part focuses on the synthetic <b>sensing system</b>, the second on our <b>inverter system</b> our team implemented in the bacteria. The last part intagrate those previous parts with the chemical reactions leading to the <b>enterobactin production</b>.
</p>
</p>
-
<h2>Observations</h2>
+
<h2>Sensor model</h2>
-
 
+
<p>
<p>
-
 
+
We first modeled the sensing system using ODEs, <b>with the help of experimental results</b> to tune one of our parameters.
</p>
</p>
-
 
-
<h2>Goals</h2>
 
<p>
<p>
-
We wanted to build a generic duodenal iron absorption model so that:
+
<a href="https://2013.igem.org/Team:Evry/Modelmeta1">Here is the link to the sensor model</a>.
-
<ul>
+
-
<li>We can have a realistic model of iron absorption: <em>"How iron is absorbed in an healthy person and in a sick patient ? </em></li>
+
-
<li>We can know how our first strategy of treatment would work: <em>"Is it possible to chelate a significant amount of iron with a flush strategy?"</em></li>
+
-
 
+
-
 
+
-
</ul>
+
</p>
</p>
-
<h2>Materials and Methods</h2>
+
<h2>Inverter model</h2>
-
 
+
<p>
-
 
+
We then used the sensor model as a base and build an inverter model downstream. This model allowed us to answer the following question:<br/>
-
 
+
<em>"Which plasmid's copy should we prioritize in our bacteria?"</em>
-
 
+
-
<h3>Assumptions</h3>
+
-
<p>With use the same assumptions as in the previous model apply:
+
-
<ul>
+
-
 
+
-
</ul>
+
-
 
+
-
 
+
-
<h3>Model</h3>
+
-
 
+
-
<p>We use Ordinary Differential Equation to modelize the duodenum and the potentiel impact of our flush strategy treatment:
+
-
 
+
-
 
+
</p>
</p>
-
 
-
 
-
 
-
 
-
<h2>Results</h2>
 
<p>
<p>
 +
<a href="https://2013.igem.org/Team:Evry/Modelmeta2">Here is the link to the inverter model</a>.
</p>
</p>
-
<ol>
 
-
<li></li>
 
-
<li></li>
 
-
</ol>
 
-
 
+
<h2>Enterobactin production model</h2>
-
 
+
-
 
+
-
<h2>Conclusion</h2>
+
-
<p></p>
+
-
 
+
-
<h2>Models and scripts</h2>
+
<p>
<p>
 +
As a final step, we combined the sensor model and the inverter model, and added an enzymatic reactions model to annswer this final question:<br/>
 +
<em> "How much time is needed for our bacteria to start producing enterobactins from the moment they sense the iron?"</em>
 +
</p>
 +
<p>
 +
<a href="https://2013.igem.org/Team:Evry/Modelmeta3">Here is the link to the enterobactin production model</a>.
</p>
</p>
-
 
</div>
</div>

Latest revision as of 03:30, 29 October 2013

Iron coli project

Enterobactin production model overview

Introduction

In order to determine our Iron Coli's enterobactin production rate, we modeled the different systems used in our project: the iron sensor, the inverter system and the chelator system.
The first part focuses on the synthetic sensing system, the second on our inverter system our team implemented in the bacteria. The last part intagrate those previous parts with the chemical reactions leading to the enterobactin production.

Sensor model

We first modeled the sensing system using ODEs, with the help of experimental results to tune one of our parameters.

Here is the link to the sensor model.

Inverter model

We then used the sensor model as a base and build an inverter model downstream. This model allowed us to answer the following question:
"Which plasmid's copy should we prioritize in our bacteria?"

Here is the link to the inverter model.

Enterobactin production model

As a final step, we combined the sensor model and the inverter model, and added an enzymatic reactions model to annswer this final question:
"How much time is needed for our bacteria to start producing enterobactins from the moment they sense the iron?"

Here is the link to the enterobactin production model.

Retrieved from "http://2013.igem.org/Team:Evry/ent_prod"