Longitudinal flux balance analyses of a patient with episodic colonic inflammation reveals microbiome metabolic dynamics.

ABSTRACT: We report the first use of constraint-based microbial community modeling on a single individual with episodic inflammation of the gastrointestinal tract, who has a well documented set of colonic inflammatory biomarkers, as well as metagenomically-sequenced fecal time series covering seven dates over 16 months. Between the first two time steps the individual was treated with both steroids and antibiotics. Our methodology enabled us to identify numerous time-correlated microbial species and metabolites. We found that the individual's dynamical microbial ecology in the disease state led to time-varying in silico overproduction, compared to healthy controls, of more than 24 biologically important metabolites, including methane, thiamine, formaldehyde, trimethylamine N-oxide, folic acid,

SUBMITTER: Basile A 

PROVIDER: S-EPMC10339767 | biostudies-literature | 2023 Jan-Dec

REPOSITORIES: biostudies-literature