Peptide abundance correlations in metaproteomics enhance taxonomic and functional analysis of the human gut microbiome.

ABSTRACT: Mass spectrometry (MS)-based proteomics is widely used for quantitative protein profiling and protein interaction studies. However, most current research focuses on single-species proteomics, while protein interactions within complex microbiomes, composed of hundreds of bacterial species, remain largely unexplored. In this study, we analyzed peptide abundance correlations within a metaproteomics dataset derived from in vitro cultured human gut microbiomes subjected to various drug treatments. Our analysis revealed that peptides from the same protein or taxon exhibited correlated abundance changes. By using t-SNE for visualization, we generated a peptide correlation map in which peptides from the same taxon formed distinct clusters. Furthermore, peptide abundance correlations enabled genome

SUBMITTER: Sun Z 

PROVIDER: S-EPMC12365196 | biostudies-literature | 2025 Aug

REPOSITORIES: biostudies-literature