Tokyo/Formulation/2.toggle model with hybrid promoter

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Revision as of 23:27, 26 October 2007

Works top　　0.Hybrid promoter　　1.Formulation　　2.Assay1　　3.Simulation　　4.Assay2　　5.Future works

Step1　　Step2　　Step3　　

Step.2 Single cell model with hybrid promoter

Figure 2.1

Assuming the system where E. coli does not produce AHL by themselves, we have observed the system's reaction to ab extra AHL. The ODEs were obtained as

Ex 2-1

where the factor surrounded in the orange box represents the activation of promoter B.
These equations were normalized as follows:

Ex2-2

Fig 2.2 represent the our thinking behavior of this system.
- with low concentration of AHL, the B state becomes unstable. so that the cells at the B state move to the A state which is stable.
- with hign concentration of AHL, both A and B states are stable.The cells at the A state keep the A state and that at the B state keep the B state.　

Figure 2.2

The phase plane and the bifurcation diagram are shown in Fig.2.3.A-C and Fig.2.4:

Figure 2.3.A [AHL]=1.0 (a.u.)

Figure 2.3.B [AHL]=1.7 (a.u.)

Figure 2.3.C [AHL]=15 (a.u.)

Figure 2.4

Figure 2.5.A

Figure 2.5.B

Figure 2.5.C

Figure 2.5.D

When the concentration of AHL was low, the stable equilibrium point existed only in A state as shown in Fig.2.3.A. So, the cell at B state moved to A state. Fig.2.3.B and C indicate that as the concentration of AHL increased, the position of the lower nullcline shifted upwards and the number of the stable equilibrium points increased from one to two, so that from monostability to bistability. The change of the number of the equilibrium points was also indicated from the bifurcation diagram in Fig.2.4.

Next,we examined the effect of the Hill coefficients. In case of the value of Hill coefficients were N1=3,N2=1,N3=1, the response of the system to the concentration of AHL changed as shown in Fig.2.5.B-D. When the concentration of AHL was low, the cell at B state moved to A state with similar to the case of N1=3,N2=1,N3=3 in Fig.2.5.A. However, bistable region was extremely narrow differing from the case of N1=3,N2=1,N3=3 (Fig.2.5.B-D).

As a result of phase plane analysis for the equations, the system was monostable in the case of lower AHL concentration; whereas it was bistable in the case of higher AHL concentration. The values of Hill coefficients were important for the system bistability even in this case.

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