A general approach to identify low-frequency variants within influenza samples collected during routine surveillance.

ABSTRACT: Influenza viruses exhibit considerable diversity between hosts. Additionally, different quasispecies can be found within the same host. High-throughput sequencing technologies can be used to sequence a patient-derived virus population at sufficient depths to identify low-frequency variants (LFV) present in a quasispecies, but many challenges remain for reliable LFV detection because of experimental errors introduced during sample preparation and sequencing. High genomic copy numbers and extensive sequencing depths are required to differentiate false positive from real LFV, especially at low allelic frequencies (AFs). This study proposes a general approach for identifying LFV in patient-derived samples obtained during routine surveillance. Firstly, validated thresholds were determined for L

SUBMITTER: Van Poelvoorde LAE 

PROVIDER: S-EPMC9676042 | biostudies-literature | 2022 Sep

REPOSITORIES: biostudies-literature