Estimating maximal microbial growth rates from cultures, metagenomes, and single cells via codon usage patterns.

ABSTRACT: Maximal growth rate is a basic parameter of microbial lifestyle that varies over several orders of magnitude, with doubling times ranging from a matter of minutes to multiple days. Growth rates are typically measured using laboratory culture experiments. Yet, we lack sufficient understanding of the physiology of most microbes to design appropriate culture conditions for them, severely limiting our ability to assess the global diversity of microbial growth rates. Genomic estimators of maximal growth rate provide a practical solution to survey the distribution of microbial growth potential, regardless of cultivation status. We developed an improved maximal growth rate estimator and predicted maximal growth rates from over 200,000 genomes, metagenome-assembled genomes, and single-cell amplifi

SUBMITTER: Weissman JL 

PROVIDER: S-EPMC8000110 | biostudies-literature | 2021 Mar

REPOSITORIES: biostudies-literature