Nutrition or nature: using elementary flux modes to disentangle the complex forces shaping prokaryote pan-genomes.

ABSTRACT:

Background

Microbial pan-genomes are shaped by a complex combination of stochastic and deterministic forces. Even closely related genomes exhibit extensive variation in their gene content. Understanding what drives this variation requires exploring the interactions of gene products with each other and with the organism's external environment. However, to date, conceptual models of pan-genome dynamics often represent genes as independent units and provide limited information about their mechanistic interactions.

Results

We simulated the stochastic process of gene-loss using the pooled genome-scale metabolic reaction networks of 46 taxonomically diverse bacterial and archaeal families as proxies for their pan-genomes. The frequency by which reactions are retained in functional

SUBMITTER: Garza DR 

PROVIDER: S-EPMC9382767 | biostudies-literature | 2022 Aug

REPOSITORIES: biostudies-literature