Team:ETH Zurich/modeling/diffmodel

From 2014.igem.org

(Difference between revisions)
(Geometry and boundary conditions)
(Initial conditions determined by bead preparation step)
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The cells of the first row are induced by 10 μ M AHL just before they are encapsulated in alginate. Then, bead formation takes half-an-hour before these cells are added in the first well. During this half-an-hour AHL can diffuse out. Therefore initial conditions in the first cell completely depend on these previous steps. We have also simulated this bead preparation in order to get these initial conditions.
The cells of the first row are induced by 10 μ M AHL just before they are encapsulated in alginate. Then, bead formation takes half-an-hour before these cells are added in the first well. During this half-an-hour AHL can diffuse out. Therefore initial conditions in the first cell completely depend on these previous steps. We have also simulated this bead preparation in order to get these initial conditions.
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[[File:ETHZ Beads in storage solution.jpg|center|300px|thumb|Beads stored in calcium chloride, 10mM]]
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[[File:ETHZ Beads in storage solution.jpg|center|300px|thumb|'''Figure 3''' Beads stored in calcium chloride, 10mM]]
The geometry is a simple bead in a bigger compartment filled with calcium chloride. We look at the concentrations at the middle of the bead. Initial concentration of LuxR before bead diffusion starts is a classical steady state a<sub>LuxR</sub>/d<sub>LuxR</sub>
The geometry is a simple bead in a bigger compartment filled with calcium chloride. We look at the concentrations at the middle of the bead. Initial concentration of LuxR before bead diffusion starts is a classical steady state a<sub>LuxR</sub>/d<sub>LuxR</sub>
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[[File:ETHZ Signaling molecules.png|600px|center]]
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[[File:ETHZ Signaling molecules.png|600px|center|thumb|'''Figure 4''' Signaling molecules]]
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[[File:ETHZ Regulators and GFP.png|600px|center]]
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[[File:ETHZ Regulators and GFP.png|600px|center|thumb|'''Figure 5''' Regulators and GFP]]
Extracellular AHL diffuses very fast through the membrane, which makes intracellular AHL increase, until both reach the same value and diffusion through the membrane reaches an equilibrium. From this point on AHL starts to bind to LuxR to form RLux, so AHL decreases, until RLux triggers enough production of LuxI which catalyses again AHL production, and makes AHL concentration become stable.
Extracellular AHL diffuses very fast through the membrane, which makes intracellular AHL increase, until both reach the same value and diffusion through the membrane reaches an equilibrium. From this point on AHL starts to bind to LuxR to form RLux, so AHL decreases, until RLux triggers enough production of LuxI which catalyses again AHL production, and makes AHL concentration become stable.

Revision as of 23:39, 17 October 2014

iGEM ETH Zurich 2014