Inferring microbial co-occurrence networks from amplicon data: a systematic evaluation.

ABSTRACT: Microbes commonly organize into communities consisting of hundreds of species involved in complex interactions with each other. 16S ribosomal RNA (16S rRNA) amplicon profiling provides snapshots that reveal the phylogenies and abundance profiles of these microbial communities. These snapshots, when collected from multiple samples, can reveal the co-occurrence of microbes, providing a glimpse into the network of associations in these communities. However, the inference of networks from 16S data involves numerous steps, each requiring specific tools and parameter choices. Moreover, the extent to which these steps affect the final network is still unclear. In this study, we perform a meticulous analysis of each step of a pipeline that can convert 16S sequencing data into a network of microbia

SUBMITTER: Kishore D 

PROVIDER: S-EPMC10469762 | biostudies-literature | 2023 Aug

REPOSITORIES: biostudies-literature