Assembling bacterial puzzles: piecing together functions into microbial pathways.

ABSTRACT: Functional metagenomics enables the study of unexplored bacterial diversity, gene families, and pathways essential to microbial communities. However, discovering biological insights with these data is impeded by the scarcity of quality annotations. Here, we use a co-occurrence-based analysis of predicted microbial protein functions to uncover pathways in genomic and metagenomic biological systems. Our approach, based on phylogenetic profiles, improves the identification of functional relationships, or participation in the same biochemical pathway, between enzymes over a comparable homology-based approach. We optimized the design of our profiles to identify potential pathways using minimal data, clustered functionally related enzyme pairs into multi-enzymatic pathways, and evaluated our pre

SUBMITTER: Chung HC 

PROVIDER: S-EPMC11344244 | biostudies-literature | 2024 Sep

REPOSITORIES: biostudies-literature