Extending and improving metagenomic taxonomic profiling with uncharacterized species using MetaPhlAn 4.

ABSTRACT: Metagenomic assembly enables new organism discovery from microbial communities, but it can only capture few abundant organisms from most metagenomes. Here we present MetaPhlAn 4, which integrates information from metagenome assemblies and microbial isolate genomes for more comprehensive metagenomic taxonomic profiling. From a curated collection of 1.01 M prokaryotic reference and metagenome-assembled genomes, we define unique marker genes for 26,970 species-level genome bins, 4,992 of them taxonomically unidentified at the species level. MetaPhlAn 4 explains ~20% more reads in most international human gut microbiomes and >40% in less-characterized environments such as the rumen microbiome and proves more accurate than available alternatives on synthetic evaluations while also reliably quan

SUBMITTER: Blanco-Miguez A 

PROVIDER: S-EPMC10635831 | biostudies-literature | 2023 Nov

REPOSITORIES: biostudies-literature