Whole-genome nanopore sequencing and automatic downstream analysis of respiratory syncytial virus using RSVTyper.

ABSTRACT: Respiratory syncytial virus (RSV) is a globally circulating virus, causing severe respiratory infections in infants and the elderly. Two RSV vaccines were recently approved, and passive immunization is now recommended in several countries for all newborns, therefore careful surveillance of RSV variants will be important in the future. We therefore develop an integrated whole genome RSV amplification, sequencing and bioinformatics analysis method ("RSVTyper"; https://anaconda.org/bioconda/rsv-typer ) that is suitable for patient samples as well as wastewater. 243 RSV isolates from 2008 to 2025 and wastewater samples from 2023/2024 were amplified in a multiplex tiling PCR with specific primers, generating 39 amplicons ~ 550 bp in length, and sequenced with Oxford Nanopore Technologies. Seque

SUBMITTER: Le DB 

PROVIDER: S-EPMC12578865 | biostudies-literature | 2025 Oct

REPOSITORIES: biostudies-literature