Building a genome-based understanding of bacterial pH preferences.

ABSTRACT: The environmental preferences of many microbes remain undetermined. This is the case for bacterial pH preferences, which can be difficult to predict a priori despite the importance of pH as a factor structuring bacterial communities in many systems. We compiled data on bacterial distributions from five datasets spanning pH gradients in soil and freshwater systems (1470 samples), quantified the pH preferences of bacterial taxa across these datasets, and compiled genomic data from representative bacterial taxa. While taxonomic and phylogenetic information were generally poor predictors of bacterial pH preferences, we identified genes consistently associated with pH preference across environments. We then developed and validated a machine learning model to estimate bacterial pH preferences fr

SUBMITTER: Ramoneda J 

PROVIDER: S-EPMC10146879 | biostudies-literature | 2023 Apr

REPOSITORIES: biostudies-literature