Genome scale-metabolic model of Methanoperedens nitroreducens, a methanotrophic archaeon capable of anaerobic oxidation of methane.
This model is version-controlled under
memote. A history report is
publicly visible at https://computer-aided-biotech.github.io/iMN22HE.
| Taxonomy | Reference sequence | Reactions | Metabolites | Genes |
|---|---|---|---|---|
| Candidatus Methanoperedens nitroreducens | NZ_JMIY01000000 | 813 | 684 | 452 |
The draft iMN22HE was generated using KBase and ModelSEED from the genome sequence of Candidatus Methanoperedens nitroreducens (NZ_JMIY01000000). This was followed by manual curation based on the literature and biochemical information about ANME-2d and relative organisms. The reversibility of the reactions was generally determined from ΔG calculation.
The jupyter notebooks at ./notebooks are mainly about the annotation across
different databases of the reactions, metabolites and genes in the model.
All memote commands have extensive help descriptions.
- For simple command line testing, check out
memote run -h. - To generate a pretty report of the current state of the model, check out
memote report snapshot -h.
The model in the publication corresponds to the release v1.0 at github.
A link and the citation will be added here once available.
This work is licensed under a Creative Commons Attribution 4.0 International License.
