Genome-scale metabolic model of the versatile bacterium Paracoccus denitrificans Pd1222.

ABSTRACT: A genome scale metabolic model of the bacterium Paracoccus denitrificans has been constructed. The model containing 972 metabolic genes, 1,371 reactions, and 1,388 unique metabolites has been reconstructed. The model was used to carry out quantitative predictions of biomass yields on 10 different carbon sources under aerobic conditions. Yields on C1 compounds suggest that formate is oxidized by a formate dehydrogenase O, which uses ubiquinone as redox co-factor. The model also predicted the threshold methanol/mannitol uptake ratio, above which ribulose biphosphate carboxylase has to be expressed in order to optimize biomass yields. Biomass yields on acetate, formate, and succinate, when NO₃^- is used as electron acceptor, were also predicted correctly. The model

SUBMITTER: Bordel S 

PROVIDER: S-EPMC10878069 | biostudies-literature | 2024 Feb

REPOSITORIES: biostudies-literature