Effect of low-passage number on dengue consensus genomes and intra-host variant frequencies.

ABSTRACT: Intra-host single nucleotide variants (iSNVs) have been increasingly used in genomic epidemiology to increase phylogenetic resolution and reconstruct fine-scale outbreak dynamics. These analyses are preferably done on sequence data from direct clinical samples, but in many cases due to low viral loads, there might not be enough genetic material for deep sequencing and iSNV determination. Isolation of the virus from clinical samples with low-passage number increases viral load, but few studies have investigated how dengue virus (DENV) culture isolation from a clinical sample impacts the consensus sequence and the intra-host virus population frequencies. In this study, we investigate consensus and iSNV frequency differences between DENV sequenced directly from clinical samples and their corr

SUBMITTER: Fung CK 

PROVIDER: S-EPMC8515859 | biostudies-literature | 2021 Mar

REPOSITORIES: biostudies-literature