Team:Paris/Analysis/Construction2

From 2008.igem.org

(Difference between revisions)
(→Description)
Line 6: Line 6:
<!--which model of chemostat we choose-->
<!--which model of chemostat we choose-->
 +
* We choose a logistic model
 +
 +
<!--Autoinducer -->
 +
To archieve synchronization we use QS.
 +
 +
 +
== Kinetics ==
* Hence a logistic model of the population, where c denotes the concentration of cells in the medium:
* Hence a logistic model of the population, where c denotes the concentration of cells in the medium:
<br>
<br>
Line 19: Line 26:
-
 
+
<!-- equations in code:
-
 
+
-
 
+
-
equations
+
-
<!-- in code:
+
d[c]/dt=alpha_cell*[c]*(c_max-[c])/c_max-(D_renewal+death)*[c]
d[c]/dt=alpha_cell*[c]*(c_max-[c])/c_max-(D_renewal+death)*[c]
d[LasI]/dt=beta_FlhDC*theta_FlhDC^n_FlhDC/(theta_FlhDC^n_FlhDC+[TetR]^n_FlhDC)-gamma*[LasI]
d[LasI]/dt=beta_FlhDC*theta_FlhDC^n_FlhDC/(theta_FlhDC^n_FlhDC+[TetR]^n_FlhDC)-gamma*[LasI]
Line 32: Line 35:
-
parameters
+
== Parameters Search==
manly from literature but also from  [[Team:Paris/Network_analysis_and_design/System_improvements/Description/QS_Module|S0 analysis]].
manly from literature but also from  [[Team:Paris/Network_analysis_and_design/System_improvements/Description/QS_Module|S0 analysis]].

Revision as of 21:05, 25 October 2008

Model Construction


Description

  • First of all, it seems important at this stage to present the way we interpret the evolution of the population in the chemostat. We want to impose to our model the fact that the rate of production has to be proportional to the existing population and to the amount of available resources.
  • We choose a logistic model

To archieve synchronization we use QS.


Kinetics

  • Hence a logistic model of the population, where c denotes the concentration of cells in the medium:


Population evolution 2.jpg


  • Then, we need to add the death term, and a dilution term cause by the renewal of the chemostat. Finally we get :


Population evolution full 2.jpg


where cmax is the carrying capacity for cell growth, and D renewal.jpg the dilution rate, d the death rate constant



Parameters Search

manly from literature but also from S0 analysis.

Parameters
 
Chemostat Parameter Meaning Original Value Normalized Value Unit Source
figure / equations of Chemostat αcell Growth rate 0.0198 1 min-1 wet-lab
cmax Carrying capacity for cell growth 0.1 0.1 µm3 [3]
Drenewal Dilution rate 0.00198 0.1 min-1 wet-lab ([3])
d Death rate 0.0099 0.5 min-1 wet-lab
 
Quorum Sensing Parameter Meaning Original Value Normalized Value Unit Source
figure / equations of Quorum Sensing γHSL Degradation rate 0.0053 0.2690 min-1 wet-lab
γHSLext

Degradation rate 0.0106 0.5380 min-1 [6]
βHSL Production rate 0.3168 16 min-1 ∅
η Diffusion rate 10 505 min-1 [2]
nHSL Hill coefficient   4   [3]
θHSL Hill characteristic concentration for the second operator   0.5 c.u [3]
Retrieved from "http://2008.igem.org/Team:Paris/Analysis/Construction2"