Recovery of strain-resolved genomes from human microbiome through an integration framework of single-cell genomics and metagenomics.

ABSTRACT:

Background

Obtaining high-quality (HQ) reference genomes from microbial communities is crucial for understanding the phylogeny and function of uncultured microbes in complex microbial ecosystems. Despite improvements in bioinformatic approaches to generate curated metagenome-assembled genomes (MAGs), existing metagenome binners obtain population consensus genomes but they are nowhere comparable to genomes sequenced from isolates in terms of strain level resolution. Here, we present a framework for the integration of single-cell genomics and metagenomics, referred to as single-cell (sc) metagenomics, to reconstruct strain-resolved genomes from microbial communities at once.

Results

Our sc-metagenomics integration framework, termed SMAGLinker, uses single-cell amplified genome

SUBMITTER: Arikawa K 

PROVIDER: S-EPMC8507239 | biostudies-literature | 2021 Oct

REPOSITORIES: biostudies-literature