Difference between revisions of "Team:Technion HS Israel/Modelling"

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<body>
 
<body>
 
<img src="https://static.igem.org/mediawiki/2015/7/70/Technion_HS_2015_reactions.png" style="width:80%">
 
<img src="https://static.igem.org/mediawiki/2015/7/70/Technion_HS_2015_reactions.png" style="width:80%">
−
<ol style="list-style-type: lower-roman">
+
 
−
<li>AHL self-degradation</li>
+
<p class=MsoListParagraphCxSpFirst dir=LTR style='margin-top:0cm;margin-right:
−
<li>Diffusion of AHL</li>
+
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
−
<li>AHL degradation by aIIa</li>
+
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
−
<li>Pairing of AHL and LuxR into AHL-LuxR complex</li>
+
115%'>i.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
−
<li>Degradation of the AHL-LuxR complex into its components</li>
+
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
−
<li>Pairing of 2 AHL-LuxR complexes into (AHL-LuxR)2</li>
+
115%'>AHL self-degradation. </span></p>
−
<li>Degradation of (AHL-LuxR)2 into its components</li>
+
 
−
<li>(AHL-LuxR)2 binds to the pLuxR promoter</li>
+
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
−
<li>(AHL-LuxR)2 unbinds from the pLuxR promoter</li>
+
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
−
<li>Transcription of RNATRLV by pLuxR promoter without the complex</li>
+
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
−
<li>Transcription of RNATRLV by pLuxR promoter with the complex</li>
+
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
−
<li>Translation of TRLV from RNATRLV</li>
+
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
−
<li>TRLV self-degradation</li>
+
115%'>Law: Mass action</span></p>
−
<li>TRLV binds to the pTetR repressor</li>
+
 
−
<li>TRLV unbinds from the pLuxR repressor</li>
+
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
−
<li>Transcription of RNAccdB by ptetR promoter without the TRLV</li>
+
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
−
<li>Transcription of RNAccdB by ptetR promoter with the TRLV</li>
+
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
−
<li>Translation of ccdB from RNAccdB</li>
+
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
−
<li>ccdB self-degradation</li>
+
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
−
<li>producing of the wanted protein x by the pCONST promoter</li>
+
115%'>Explanation: Each molecule of AHL has a certain probability to degrade,
−
<li>producing of LuxR by the pCONST promoter</li>
+
hence the corresponding change rate in the amount of the AHL is proportional to
−
<li>producing of aIIa by the pCONST promoter</li>
+
the amount of AHL in all the cells. The coefficient is noted by C2 for cell
−
<li>plasmid loss</li>
+
internal AHL and C2' for cell external AHL. </span></p>
−
</ol>
+
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/1/1d/Technion_HS_2015_Reaction_1.png" class="term"><br/><img src="https://static.igem.org/mediawiki/2015/0/04/Technion_HS_2015_Reaction_2.png
 +
" class="term"></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%'>ii.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Diffusion of AHL</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Law: Simple passive diffusion</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Explanation: Will be explained in the processes section.</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
Change in external AHL concentration:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/1/16/Technion_HS_2015_Reaction_3.png" class="term"><br>
 +
Change in total amount inside of AHL inside all the cells:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/7/7d/Technion_HS_2015_Reaction_4.png" class="term"> </span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%'>iii.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>AHL degradation by AiiA</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Law: Michaelis Menten</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Explanation: AiiA is an enzyme, and simple Mass Action doesn't work well
 +
for enzymatic reactions. The reason for it is the fact that the enzyme and the
 +
substrate form a complex, which is then converted to a product and the original
 +
enzyme. Therefore, two mass actions are required to describe this process, but
 +
under quasi-steady-state assumption we can derive a single equation, which is
 +
the Michaelis Menten law. It has two parameters, the maximal reaction rate and
 +
the turnover number.</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/4/40/Technion_HS_2015_Reaction_5.png" class="term"></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%'>iv.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Pairing of AHL and LuxR into AHL-LuxR complex</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Law: Mass action</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Explanation: The chance of a molecule of AHL to meet a molecule of LuxR
 +
is proportional to both the concentration of AHL and LuxR (the more AHL you
 +
have, the higher the chance for reaction between AHL and LuxR). We get that the
 +
reaction rate is proportional to the product of the concentrations of AHL and
 +
LuxR.</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/d/d4/Technion_HS_2015_Reaction_6.png" class="term"></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%'>v.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Disassociation of the AHL-LuxR complex to its components</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Law: Mass action</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Explanation: Each AHL-LuxR complex has a certain probability to
 +
disassociate, hence the corresponding change rate in the amount of the AHL is
 +
proportional to the amount of AHL-LuxR. The coefficient is denoted by C4.</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/8/8a/Technion_HS_2015_Reaction_7.png" class="term"></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%'>vi.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Pairing of 2 AHL-LuxR complexes into the dimer (AHL-LuxR)<sub>2</sub></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Law: Mass action</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Explanation: The chance of a molecule of AHL-LuxR complex to meet another
 +
one is proportional, again, to the product of their concentrations, (which this
 +
time are equal and we get [AHL-LuxR]^2).</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/8/8e/Technion_HS_2015_Reaction_8.png" class="term"></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%'>vii.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Disassociation of (AHL-LuxR)<sub>2</sub> to its components</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Law: Mass action</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Explanation: Each (AHL-LuxR)<sub>2</sub> dimer has a certain probability
 +
to disassociate, hence the corresponding change rate in the amount of the AHL
 +
is proportional to the total amount of AHL-LuxR in the cells. The coefficient
 +
is denoted by C6.</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/0/0b/Technion_HS_2015_Reaction_9.png" class="term"></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%'>viii.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>(AHL-LuxR)<sub>2</sub> binds to the pLuxR promoter</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Law: Mass action</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Explanation: The activation rate is proportional to the product of the
 +
concentrations of the dimer and the number of plasmid plasmids with pLuxR
 +
promoters. It will be explained later in the processes section.</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/c/c3/Technion_HS_2015_Reaction_10.png" class="term"></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%'>ix.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>(AHL-LuxR)<sub>2 </sub>unbinds from the pLuxR promoter</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Law: Mass action</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Explanation: Each activated promoter has a certain probability to
 +
deactivate and to release its (AHL-LuxR)<sub>2</sub>, and therefore the rate of
 +
this process is proportional to the number of activated promoters. It will be
 +
explained later in the processes section.</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/0/01/Technion_HS_2015_Reaction_11.png" class="term"></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%'>x.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Transcription of RNA<sub>TRLV</sub> by pLuxR promoter without the complex</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Law: Mass action</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Explanation: Each inactivated promoter transcripts mRNA in a certain rate.
 +
This rate is called leakiness. We multiply it by the number of inactivated LuxR
 +
promoters to get the total rate. It will be explained further in the processes
 +
section.</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/a/a0/Technion_HS_2015_Reaction_13.png" class="term"></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%'>xi.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Transcription of RNA<sub>TRLV</sub> by pLuxR promoter with the complex</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Law: Mass action</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Explanation: Each activated promoter transcripts mRNA in a certain rate.
 +
We multiply it by the number of activated LuxR promoters to get the total rate.
 +
It will be explained further in the processes section.</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/f/f8/Technion_HS_2015_Reaction_14.png" class="term"></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%'>xii.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Translation of TRLV from RNA<sub>TRLV</sub></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Law: Mass action</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Explanation: mRNA of TetR translates to the protein TetR in a certain
 +
rate. We multiply it by the concentration of RNA to get the total rate. It will
 +
be explained further in the processes section.</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/b/b3/Technion_HS_2015_Reaction_15.png" class="term"></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%'>xiii.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>TRLV self-degradation</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Law: Mass action</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Explanation: Each molecule of TRLV has a certain probability to degrade,
 +
hence the corresponding change rate in the amount of the TRLV is proportional
 +
to the amount of TRLV all the cells.</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/d/d3/Technion_HS_2015_Reaction_16.png" class="term"></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%'>xiv.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>TRLV binds to the pTetR repressor </span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Law: Mass action</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Explanation: The activation rate is proportional to the product of the
 +
concentrations of the dimer and the number of plasmid plasmids with pTetR promoters.
 +
It will be explained later in the processes section.</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/6/67/Technion_HS_2015_Reaction_17.png" class="term"></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%'>xv.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>TRLV unbinds from the pLuxR repressor</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Law: Mass action</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Explanation: Each activated promoter has a certain probability to
 +
deactivate and to release its TRLV, and therefore the rate of this process is proportional
 +
to the number of activated promoters. It will be explained later in the
 +
processes section.</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/e/e0/Technion_HS_2015_Reaction_18.png" class="term"></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%'>xvi.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Transcription of RNA<sub>ccdB</sub> by ptetR promoter without the TRLV</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Law: Mass action</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Explanation: For each inactivated repressor there is transcription to mRNA
 +
in a certain rate. We multiply it by the number of inactivated ptetR promoters
 +
to get the total rate. It will be explained further in the processes section.</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/7/74/Technion_HS_2015_Reaction_19.png" class="term"></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%'>xvii.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Transcription of RNA<sub>ccdB</sub> by ptetR promoter with the TRLV</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Law: Mass action</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Explanation: For each activated repressor there is still transcription to
 +
mRNA in a certain rate. We multiply it by the number of activated ptetR promoters
 +
to get the total rate. It will be explained further in the processes section.</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/d/d6/Technion_HS_2015_Reaction_20.png" class="term"></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%'>xviii.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Translation of ccdB from RNA<sub>ccdB</sub></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Law: Mass action</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Explanation: mRNA of ccdb translates to the protein ccdb in a certain
 +
rate. We multiply it by the concentration of RNA to get the total rate. It will
 +
be explained further in the processes section.</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/d/d1/Technion_HS_2015_Reaction_21.png" class="term"></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%'>xix.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>ccdB self-degradation</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Law: Mass action</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Explanation: Each molecule of ccdB has a certain probability to degrade,
 +
hence the corresponding change rate in the amount of the ccdB is proportional
 +
to the amount of ccdB all the cells.</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/3/3e/Technion_HS_2015_Reaction_22.png" class="term"></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%'>xx.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>producing of the desired protein x by the pCONST promoter</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Law: Mass Action</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Explanation: Each plasmid with our circuit produces the desired enzyme, X,
 +
in a certain amount.</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/a/a8/Technion_HS_2015_Reaction_23.png" class="term"></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%'>xxi.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>producing of LuxR by the pCONST promoter</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Law: Mass Action</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Explanation: Each plasmid with our circuit produces LuxR in a certain amount.</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/3/35/Technion_HS_2015_Reaction_24.png" class="term"></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%'>xxii.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>producing of AiiA by the pCONST promoter</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Law: Mass Action</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Explanation: Each plasmid with our circuit produces AiiA in a certain amount.</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/2/20/Technion_HS_2015_Reaction_25.png" class="term"></span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:54.0pt;text-align:left;text-indent:-36.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%'>xxiii.<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>plasmid loss</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>We model the effect of plasmid loss on the system. It affects the
 +
equations by having both bacteria with plasmids (N+) and without plasmid (N-).</span></p>
 +
 
 +
<p class=MsoListParagraphCxSpLast dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Further explanation is <a
 +
href="https://2015.igem.org/Team:Technion_HS_Israel/PlasmidLoss">here</a>. </span>
 +
<span dir=LTR></span>
 +
<p class=MsoListParagraphCxSpMiddle dir=LTR style='margin-top:0cm;margin-right:
 +
0cm;margin-bottom:10.0pt;margin-left:72.0pt;text-align:left;text-indent:-18.0pt;
 +
direction:ltr;unicode-bidi:embed'><span style='font-size:16.0pt;line-height:
 +
115%;font-family:"Courier New"'>o<span style='font:7.0pt "Times New Roman"'>&nbsp;&nbsp;
 +
</span></span><span dir=LTR></span><span style='font-size:16.0pt;line-height:
 +
115%'>Results:<br>
 +
<img src="https://static.igem.org/mediawiki/2015/9/97/Technion_HS_2015_Reaction_26.png" class="term"></span></p>
 +
 
 +
</p>
 +
 
 +
</p>
 +
 
 
</body>
 
</body>
 
</html>
 
</html>

Revision as of 10:53, 18 September 2015

Technion 2015 HS Team's Wiki

We're working on it

i.                   AHL self-degradation.

o   Law: Mass action

o   Explanation: Each molecule of AHL has a certain probability to degrade, hence the corresponding change rate in the amount of the AHL is proportional to the amount of AHL in all the cells. The coefficient is noted by C2 for cell internal AHL and C2' for cell external AHL.

o   Results:

ii.                 Diffusion of AHL

o   Law: Simple passive diffusion

o   Explanation: Will be explained in the processes section.

o   Results:
Change in external AHL concentration:

Change in total amount inside of AHL inside all the cells:

iii.              AHL degradation by AiiA

o   Law: Michaelis Menten

o   Explanation: AiiA is an enzyme, and simple Mass Action doesn't work well for enzymatic reactions. The reason for it is the fact that the enzyme and the substrate form a complex, which is then converted to a product and the original enzyme. Therefore, two mass actions are required to describe this process, but under quasi-steady-state assumption we can derive a single equation, which is the Michaelis Menten law. It has two parameters, the maximal reaction rate and the turnover number.

o   Results:

iv.              Pairing of AHL and LuxR into AHL-LuxR complex

o   Law: Mass action

o   Explanation: The chance of a molecule of AHL to meet a molecule of LuxR is proportional to both the concentration of AHL and LuxR (the more AHL you have, the higher the chance for reaction between AHL and LuxR). We get that the reaction rate is proportional to the product of the concentrations of AHL and LuxR.

o   Results:

v.                 Disassociation of the AHL-LuxR complex to its components

o   Law: Mass action

o   Explanation: Each AHL-LuxR complex has a certain probability to disassociate, hence the corresponding change rate in the amount of the AHL is proportional to the amount of AHL-LuxR. The coefficient is denoted by C4.

o   Results:

vi.              Pairing of 2 AHL-LuxR complexes into the dimer (AHL-LuxR)2

o   Law: Mass action

o   Explanation: The chance of a molecule of AHL-LuxR complex to meet another one is proportional, again, to the product of their concentrations, (which this time are equal and we get [AHL-LuxR]^2).

o   Results:

vii.            Disassociation of (AHL-LuxR)2 to its components

o   Law: Mass action

o   Explanation: Each (AHL-LuxR)2 dimer has a certain probability to disassociate, hence the corresponding change rate in the amount of the AHL is proportional to the total amount of AHL-LuxR in the cells. The coefficient is denoted by C6.

o   Results:

viii.         (AHL-LuxR)2 binds to the pLuxR promoter

o   Law: Mass action

o   Explanation: The activation rate is proportional to the product of the concentrations of the dimer and the number of plasmid plasmids with pLuxR promoters. It will be explained later in the processes section.

o   Results:

ix.               (AHL-LuxR)2 unbinds from the pLuxR promoter

o   Law: Mass action

o   Explanation: Each activated promoter has a certain probability to deactivate and to release its (AHL-LuxR)2, and therefore the rate of this process is proportional to the number of activated promoters. It will be explained later in the processes section.

o   Results:

x.                 Transcription of RNATRLV by pLuxR promoter without the complex

o   Law: Mass action

o   Explanation: Each inactivated promoter transcripts mRNA in a certain rate. This rate is called leakiness. We multiply it by the number of inactivated LuxR promoters to get the total rate. It will be explained further in the processes section.

o   Results:

xi.               Transcription of RNATRLV by pLuxR promoter with the complex

o   Law: Mass action

o   Explanation: Each activated promoter transcripts mRNA in a certain rate. We multiply it by the number of activated LuxR promoters to get the total rate. It will be explained further in the processes section.

o   Results:

xii.            Translation of TRLV from RNATRLV

o   Law: Mass action

o   Explanation: mRNA of TetR translates to the protein TetR in a certain rate. We multiply it by the concentration of RNA to get the total rate. It will be explained further in the processes section.

o   Results:

xiii.          TRLV self-degradation

o   Law: Mass action

o   Explanation: Each molecule of TRLV has a certain probability to degrade, hence the corresponding change rate in the amount of the TRLV is proportional to the amount of TRLV all the cells.

o   Results:

xiv.          TRLV binds to the pTetR repressor

o   Law: Mass action

o   Explanation: The activation rate is proportional to the product of the concentrations of the dimer and the number of plasmid plasmids with pTetR promoters. It will be explained later in the processes section.

o   Results:

xv.            TRLV unbinds from the pLuxR repressor

o   Law: Mass action

o   Explanation: Each activated promoter has a certain probability to deactivate and to release its TRLV, and therefore the rate of this process is proportional to the number of activated promoters. It will be explained later in the processes section.

o   Results:

xvi.          Transcription of RNAccdB by ptetR promoter without the TRLV

o   Law: Mass action

o   Explanation: For each inactivated repressor there is transcription to mRNA in a certain rate. We multiply it by the number of inactivated ptetR promoters to get the total rate. It will be explained further in the processes section.

o   Results:

xvii.       Transcription of RNAccdB by ptetR promoter with the TRLV

o   Law: Mass action

o   Explanation: For each activated repressor there is still transcription to mRNA in a certain rate. We multiply it by the number of activated ptetR promoters to get the total rate. It will be explained further in the processes section.

o   Results:

xviii.     Translation of ccdB from RNAccdB

o   Law: Mass action

o   Explanation: mRNA of ccdb translates to the protein ccdb in a certain rate. We multiply it by the concentration of RNA to get the total rate. It will be explained further in the processes section.

o   Results:

xix.          ccdB self-degradation

o   Law: Mass action

o   Explanation: Each molecule of ccdB has a certain probability to degrade, hence the corresponding change rate in the amount of the ccdB is proportional to the amount of ccdB all the cells.

o   Results:

xx.             producing of the desired protein x by the pCONST promoter

o   Law: Mass Action

o   Explanation: Each plasmid with our circuit produces the desired enzyme, X, in a certain amount.

o   Results:

xxi.          producing of LuxR by the pCONST promoter

o   Law: Mass Action

o   Explanation: Each plasmid with our circuit produces LuxR in a certain amount.

o   Results:

xxii.        producing of AiiA by the pCONST promoter

o   Law: Mass Action

o   Explanation: Each plasmid with our circuit produces AiiA in a certain amount.

o   Results:

xxiii.     plasmid loss

o   We model the effect of plasmid loss on the system. It affects the equations by having both bacteria with plasmids (N+) and without plasmid (N-).

o   Further explanation is here.

o   Results: