Multicenter assessment of shotgun metagenomics for pathogen detection.

ABSTRACT:

Background

Shotgun metagenomics has been used clinically for diagnosing infectious diseases. However, most technical assessments have been limited to individual sets of reference standards, experimental workflows, and laboratories.

Methods

A reference panel and performance metrics were designed and used to examine the performance of shotgun metagenomics at 17 laboratories in a coordinated collaborative study. We comprehensively assessed the reliability, key performance determinants, reproducibility, and quantitative potential.

Findings

Assay performance varied significantly across sites and microbial classes, with a read depth of 20 millions as a generally cost-efficient assay setting. Results of mapped reads by shotgun metagenomics could indicate relative and intra-s

SUBMITTER: Liu D 

PROVIDER: S-EPMC8608867 | biostudies-literature | 2021 Dec

REPOSITORIES: biostudies-literature