Five-Year (2017-2022) Evolutionary Dynamics of Human Coronavirus OC43 in Southern France Based on Whole Genome Next-Generation Sequencing.

ABSTRACT: HCoV-OC43 genomes and their evolution are scarcely studied worldwide and in France, with only 361 genomes available as of October 2023. Here, an in-house PCR amplification system was implemented to obtain retrospectively by next-generation sequencing, then analyze HCoV-OC43 genomes for infections diagnosed with this virus in southern France between February 2017 and October 2022. Multiplex PCR amplification using a set of in-house primers designed with the Gemi software was carried out on residuals of HCoV-OC43 RNA-positive nasopharyngeal samples, before next-generation sequencing (NGS) using Illumina technology on a NovaSeq. 6000 instrument. HCoV-OC43 genome assembly, bioinformatic analyses, and phylogeny reconstruction were then carried out using CLC Genomics, Mafft, BioEdit, Nextstrain,

SUBMITTER: Houmadi H 

PROVIDER: S-EPMC12673430 | biostudies-literature | 2025 Dec

REPOSITORIES: biostudies-literature