From 2008.igem.org
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| | + | *To model the quorum sensing dynamics, we consider the production of HSL as: |
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| - | *To model the quorum sensing dynamics, we use:
| + | eqHSL 1, |
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| | + | the transport of HSL is given by: |
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| - | Production of HSL:
| + | eqHSL 2, |
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| - | eqHSL 1
| + | and the activation of ''envZ'' depends of the concentration of HSL according to: |
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| - | Transport of HSL:
| + | eqHSL 3. |
| - | | + | |
| - | eqHSL 2
| + | |
| - | | + | |
| - | Activation of ''envZ'' depends of the concentration of HSL:
| + | |
| - | | + | |
| - | eqHSL 3 | + | |
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| | <!-- equations in code: | | <!-- equations in code: |
Revision as of 22:44, 25 October 2008
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Model Construction
Description
- We chose to use a 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 assume a logistic model for the population kinetics in the chemostat (reference).
- To archieve synchronization we use QS. Explain the principle?
Kinetics
- On the one hand, the concentration of cells (c) increase exponentialy with a velocity given by the growth rate (αcell). After a certain time, the population reaches a maximum concentration (cmax). As a consequence, the concentration of cells in the medium can be expressed in terms of a production (positive) term and degradation (negative) terms, as:
- To model the quorum sensing dynamics, we consider the production of HSL as:
eqHSL 1,
the transport of HSL is given by:
eqHSL 2,
and the activation of envZ depends of the concentration of HSL according to:
eqHSL 3.
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]
|
|
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