This repository entails the genome-scale metabolic model (GEM) SalbGEM for Streptomyces albidoflavus, previously and more commonly recognized under the name S. albus J1074.
S. albus J1074 is recognized as an effective host for heterologous production of natural products and secondary metabolites. Its fast growth and an efficient genetic system based on a naturally minimized genome have been attributed for the strain's advantage in expression of biosynthetic pathways for a variety of natural products including antibiotics and flavonoids (Zaburannyi et al., 2014, Marin et al., 2017).
| Taxonomy | Template Model | Reactions | Metabolites | Genes |
|---|---|---|---|---|
| Streptomyces albus J1074 | Sco-GEM | 2231 | 1872 | 1381 |
This repository is administered by Cheewin Kittikunapong, Division of Systems and Synthetic Biology, Department of Biology and Biological Engineering, Chalmers University of Technology.
- A functional Matlab installation (MATLAB 7.3 or higher).
- RAVEN Toolbox 2 for MATLAB (required for contributing to development).
- libSBML MATLAB API (version 5.16.0 is recommended).
- Gurobi Optimizer for MATLAB.
- Clone the master branch from SysBioChalmers GitHub.
- Add the directory to your Matlab path, instructions here.
- All model releases will be archived on Zenodo.
- The associated manuscript is in preparation and will be available for citations in the near future.