Strain-level characterization of bacterial pathogens using metagenomic sequencing for patients with pneumonia.

ABSTRACT:

Background

Metagenomic next-generation sequencing (mNGS) has emerged as an indispensable diagnostic tool for infectious diseases. The disparity in virulence and antimicrobial resistance among strains of the same species requires mNGS to reach strain-level resolution.

Methods

To compare the subtyping performance between mNGS and culture, thirty bronchoalveolar lavage fluid (BALF) or blood specimens positive by culture were sequenced using the Illumina NextSeq platform, while whole genome sequencing (WGS) was conducted on the corresponding cultured colonies. Additionally, thirty BALF specimens underwent both mNGS and Oxford nanopore technology (ONT)-based metagenomic third-generation sequencing (mTGS) to compare the subtyping efficacy of the two platforms. To characterize the

SUBMITTER: Zhou H 

PROVIDER: S-EPMC12542171 | biostudies-literature | 2025 Oct

REPOSITORIES: biostudies-literature