Team:Paris/DescriptionDetailsS4-S2Part1

From 2008.igem.org

(Difference between revisions)

Latest revision as of 18:52, 29 October 2008

Common Dynamics: Chemostat

The variation of cells' concentration in the chemostat over time can be expressed in terms of a production (positive) term and degradation (negative) terms:

For the production term, we use a logistic equation to model cell growth, according to standard assumptions. The behaviour obtained is the following one: at low population density, the concentration of cells in the chemostat (c) increase exponentially with a growth rate α_cell and at high population density, the population reaches a maximum concentration, c_max.

For the degradation term, we consider that c decrease proportionally to both a dilution phenomena cause by the renewal of the medium in the chemostat (D_renewal) and cell death (d).

Common Dynamics: Quorum Sensing

In order to model the quorum sensing dynamics, we consider that:

1) Inside a cell, the HSL concentration increases proportionally to the concentration of LasI and decreases according to both a degradation term (proportional to the internal HSL concentration) and a transport term (proportional to the difference between the internal and external concentration of HSL). Thus, the equation for the internal HSL concentration is:

2) Outside the cells, HSL is accumulated with the same transport term that we use in the previous equation. The degradation of HSL in the external medium and the dilution controlled via the chemostat accounts for HSL external decrease. So the external HSL concentration is given by:

that is equivalent to:

where

and

Common Network Dynamics: FlhDC and Flia

FlhDC and Flia are regulated in the same way in both systems. FlhDC is produced under the influence of EnvZ via an inhibition. Flia is regulated for its self and FlhDC.

@@ Line 7: / Line 7: @@
 |[[Image:final_chemostat.png|center|300px]]
 |-style="background: #ffffff; text-align: left;"
-|&nbsp;&nbsp;&nbsp;&nbsp;For the production term, we use a logistic equation to model cell growth, according to standard assumptions. The behaiviour obtained is the following one: at low population density, the concentration of cells in the chemostat (c) increase exponentialy with a growth rate α<sub>cell</sub> and at high population density, the population reaches a maximum concentration, c<sub>max</sub>.
+|&nbsp;&nbsp;&nbsp;&nbsp;For the production term, we use a logistic equation to model cell growth, according to standard assumptions. The behaviour obtained is the following one: at low population density, the concentration of cells in the chemostat (c) increase exponentially with a growth rate α<sub>cell</sub> and at high population density, the population reaches a maximum concentration, c<sub>max</sub>.
 |-style="background: #ffffff; text-align: left;"
-|&nbsp;&nbsp;&nbsp;&nbsp;For the degradation term, we consider that c decrease proportionaly to both a dilution phenomena cause by the renewal of the medium in the chemostat (D<sub>renewal</sub>) and cell death (d).
+|&nbsp;&nbsp;&nbsp;&nbsp;For the degradation term, we consider that c decrease proportionally to both a dilution phenomena cause by the renewal of the medium in the chemostat (D<sub>renewal</sub>) and cell death (d).
 |-style="background: #649CD7; text-align: center;"
 |Common Dynamics: Quorum Sensing
@@ Line 15: / Line 15: @@
 |In order to model the quorum sensing dynamics, we consider that:
 |-style="background: #ffffff; text-align: left;"
-|&nbsp;&nbsp;&nbsp;&nbsp; 1) Inside a cell, the HSL concentration increases proportionaly to the concentration of LasI and decreases according to both a degradation term  (proportional to the internal HSL concentration) and a transport term (proportional to the difference beetwen the internal and external concentration of HSL). Thus, the equation for the internal HSL concentration is:
+|&nbsp;&nbsp;&nbsp;&nbsp; 1) Inside a cell, the HSL concentration increases proportionally to the concentration of LasI and decreases according to both a degradation term  (proportional to the internal HSL concentration) and a transport term (proportional to the difference between the internal and external concentration of HSL). Thus, the equation for the internal HSL concentration is:
 |-style="background: #ffffff; text-align: center;"
 |[[Image:final_HSL.png|center|400px|]]
 |-style="background: #ffffff; text-align: left;"
-|&nbsp;&nbsp;&nbsp;&nbsp; 2) Outside the cells, HSL is cumulated with the same transport term tah we use in the previous equation. The degradation of HSL in the external medium and the dilution controled via the chemostat accounts for HSL external decrease. So the external HSL concentration is given by:
+|&nbsp;&nbsp;&nbsp;&nbsp; 2) Outside the cells, HSL is accumulated with the same transport term that we use in the previous equation. The degradation of HSL in the external medium and the dilution controlled via the chemostat accounts for HSL external decrease. So the external HSL concentration is given by:
 |-style="background: #ffffff; text-align: left;"
 |[[Image:HSLext.png|center|350px]]
@@ Line 33: / Line 33: @@
 |FlhDC and Flia are regulated in the same way in both systems. FlhDC is produced under the influence of EnvZ via an inhibition. Flia is regulated for its self and FlhDC.
 |-style="background: #ffffff; text-align: center;"
-|[[Image:FlhDC-FliaEq.png|350px]]
+|[[Image:FlhDC-FliaEq.png|650px]]
 |}