Table 1 Variables and parameters used in ODE model and implicit calibration model.
Symbol | Description |
|---|---|
Model variables | |
N0 | Number of wild-type A. baylyi |
N1 | Number of transformant, A. baylyi with pWH1266 plasmid |
P | Number of free plasmid |
t | Time (h) |
Model parameters | |
r0 | Growth rate of N0, set as 0.2 |
r1 | Growth rate of N1, set as 0.2 |
d0 | Death rate of N0 |
d1 | Death rate of N1 |
K | Carrying capacity of the environment, set as 109 |
μ | Transformation frequency |
λ | Copy number of plasmid in transformant |
θ | Decay rate of free plasmid in environment |
α | Weight factor of the error between simulation and observation values of N0 |
β | Weight factor of the error between simulation and observation values of N1 |
Calibration parameters | |
μref | Reference value of transformation frequency, 10−8 |
dref | Reference value of death rate, 0.0125 |
Kμ | Scale factor of transformation frequency |
Kd | Scale factor of death rate |
Kμ* | Optimal scale factor of transformation frequency |
Kd* | Optimal scale factor of death rate |
LBμ | Lower bound of Kμ |
UBμ | Upper bound of Kμ |
LBd | Lower bound of Kd |
UBd | Upper bound of Kd |
