Metatranscriptomics to characterize respiratory virome, microbiome, and host response directly from clinical samples.

ABSTRACT: We developed a metatranscriptomics method that can simultaneously capture the respiratory virome, microbiome, and host response directly from low biomass samples. Using nasal swab samples, we capture RNA virome with sufficient sequencing depth required to assemble complete genomes. We find a surprisingly high frequency of respiratory syncytial virus (RSV) and coronavirus (CoV) in healthy children, and a high frequency of RSV-A and RSV-B co-detections in children with symptomatic RSV. In addition, we have identified commensal and pathogenic bacteria and fungi at the species level. Functional analysis revealed that H. influenzae was highly active in symptomatic RSV subjects. The host nasal transcriptome reveled upregulation of the innate immune system, anti-viral response and inflamma

SUBMITTER: Rajagopala SV 

PROVIDER: S-EPMC8594859 | biostudies-literature | 2021 Oct

REPOSITORIES: biostudies-literature