Emu: species-level microbial community profiling of full-length 16S rRNA Oxford Nanopore sequencing data.

ABSTRACT: 16S ribosomal RNA-based analysis is the established standard for elucidating the composition of microbial communities. While short-read 16S rRNA analyses are largely confined to genus-level resolution at best, given that only a portion of the gene is sequenced, full-length 16S rRNA gene amplicon sequences have the potential to provide species-level accuracy. However, existing taxonomic identification algorithms are not optimized for the increased read length and error rate often observed in long-read data. Here we present Emu, an approach that uses an expectation-maximization algorithm to generate taxonomic abundance profiles from full-length 16S rRNA reads. Results produced from simulated datasets and mock communities show that Emu is capable of accurate microbial community profiling whil

SUBMITTER: Curry KD 

PROVIDER: S-EPMC9939874 | biostudies-literature | 2022 Jul

REPOSITORIES: biostudies-literature