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 |