COMMIT: Consideration of metabolite leakage and community composition improves microbial community reconstructions.

ABSTRACT: Composition and functions of microbial communities affect important traits in diverse hosts, from crops to humans. Yet, mechanistic understanding of how metabolism of individual microbes is affected by the community composition and metabolite leakage is lacking. Here, we first show that the consensus of automatically generated metabolic reconstructions improves the quality of the draft reconstructions, measured by comparison to reference models. We then devise an approach for gap filling, termed COMMIT, that considers metabolites for secretion based on their permeability and the composition of the community. By applying COMMIT with two soil communities from the Arabidopsis thaliana culture collection, we could significantly reduce the gap-filling solution in comparison to filling gaps in i

SUBMITTER: Wendering P 

PROVIDER: S-EPMC8942231 | biostudies-literature | 2022 Mar

REPOSITORIES: biostudies-literature