Improved resolution of avian influenza virus using Oxford Nanopore R10 sequencing chemistry.

ABSTRACT: Highly pathogenic avian influenza viruses continue to pose global risks to One Health, including agriculture, public, and animal health. Rapid and accurate genomic surveillance is critical for monitoring viral mutations, tracing transmission, and guiding interventions in near real-time. Oxford Nanopore sequencing holds promise for real-time influenza genotyping, but data quality from R9 chemistry has limited its adoption due to challenges resolving low-complexity regions such as the biologically critical hemagglutinin cleavage site, a homopolymer of basic amino acids that distinguish highly pathogenic strains. In this study, human and avian influenza isolates (n = 45) from Cambodia were sequenced using both R9.4.1 and R10.4.1 flow cells and chemistries to evaluate performance betwee

SUBMITTER: Ratcliff JD 

PROVIDER: S-EPMC11623064 | biostudies-literature | 2024 Nov

REPOSITORIES: biostudies-literature