What is Chemostat Model?

Chemostat Model is a program to predict and understand the growth dynamics of Escherichia coli in long-term chemostat.

How to run

1. Copy the source file Chemostat_Model.m into your work directory.
2. Create a folder named "Data" in your work directory.
3. Run the function Chemostat_Model

Expected results

Upon completion (running time < 30 seconds), you will have the following results

Figures

1. Plot for different ratios of K_C / K_M
2. Plot the model with Hill function for the glycerol
3. Plot of the Herbert model
4. Plot of the extended model

Files in the 'Data' folder

1. 3 files for different values of K_C
2. 4 data files of the Hill function
3. 4 data files of the Herbert model
4. 4 data files of the extended model

Support

If you have any questions about Chemostat Model, please contact Linh Huynh (huynh@ucdavis.edu).

Citation

Rai, N, Huynh, L, Kim, M, Tagkopoulos, I. Population collapse and adaptive rescue during long‐term chemostat fermentation. Biotechnology and Bioengineering. 2019; 116: 693– 703. https://doi.org/10.1002/bit.26898

Licence

See the LICENSE file for license rights and limitations (Apache2.0).

Acknowledgement

This work was supported by ARO award W911NF1210231 and NSF awards 1254205 and 1516695 to Ilias Tagkopoulos (itagkopoulos@ucdavis.edu).