A metabolic modeling platform for the computation of microbial ecosystems in time and space (COMETS).

ABSTRACT: Genome-scale stoichiometric modeling of metabolism has become a standard systems biology tool for modeling cellular physiology and growth. Extensions of this approach are emerging as a valuable avenue for predicting, understanding and designing microbial communities. Computation of microbial ecosystems in time and space (COMETS) extends dynamic flux balance analysis to generate simulations of multiple microbial species in molecularly complex and spatially structured environments. Here we describe how to best use and apply the most recent version of COMETS, which incorporates a more accurate biophysical model of microbial biomass expansion upon growth, evolutionary dynamics and extracellular enzyme activity modules. In addition to a command-line option, COMETS includes user-friendly Python

SUBMITTER: Dukovski I 

PROVIDER: S-EPMC10824140 | biostudies-literature | 2021 Nov

REPOSITORIES: biostudies-literature