Implementation of a Multiplex PCR Amplification System Combined With Next-Generation Genome Sequencing to Decipher the Circulation of Human Coronavirus 229E Lineages in Southern France.

ABSTRACT: Coronaviruses rapidly evolve and are prone to new virus emergence. Human coronavirus (HCoV)-229E is one of the seven coronaviruses (aside HCoV-OC43, HCoV-HKU1, HCoV-NL63, SARS-CoV, MERS-CoV, SARS-CoV-2) causing respiratory infections in humans. Genomic data are very scarce for this virus. We implemented an in-house multiplex PCR strategy to amplify HCoV-229E genomes from nasopharyngeal samples, before next-generation sequencing using Nanopore or Illumina technologies. HCoV-229E genomes were assembled and analyzed using MAFFT, MEGA, Itol, Nexstrain, and Nextclade softwares. Thirty-one PCR primer pairs designed to amplify HCoV-229E genome overlapping fragments allowed obtaining 123 genomes classified in an emerging HCoV-229E lineage first reported in China, with two sublineages being delinea

SUBMITTER: Hikmat H 

PROVIDER: S-EPMC12548560 | biostudies-literature | 2025 Nov

REPOSITORIES: biostudies-literature