A structured evaluation of genome-scale constraint-based modeling tools for microbial consortia.

ABSTRACT: Harnessing the power of microbial consortia is integral to a diverse range of sectors, from healthcare to biotechnology to environmental remediation. To fully realize this potential, it is critical to understand the mechanisms behind the interactions that structure microbial consortia and determine their functions. Constraint-based reconstruction and analysis (COBRA) approaches, employing genome-scale metabolic models (GEMs), have emerged as the state-of-the-art tool to simulate the behavior of microbial communities from their constituent genomes. In the last decade, many tools have been developed that use COBRA approaches to simulate multi-species consortia, under either steady-state, dynamic, or spatiotemporally varying scenarios. Yet, these tools have not been systematically evaluated r

SUBMITTER: Scott WT 

PROVIDER: S-EPMC10449394 | biostudies-literature | 2023 Aug

REPOSITORIES: biostudies-literature