Novel Amplicon-Based Sequencing Approach to West Nile Virus

Viruses. 2023 May 27;15(6):1261. doi: 10.3390/v15061261.


West Nile virus is a re-emerging arbovirus whose impact on public health is increasingly important as more and more epidemics and epizootics occur, particularly in America and Europe, with evidence of active circulation in Africa. Because birds constitute the main reservoirs, migratory movements allow the diffusion of various lineages in the world. It is therefore crucial to properly control the dispersion of these lineages, especially because some have a greater health impact on public health than others. This work describes the development and validation of a novel whole-genome amplicon-based sequencing approach to West Nile virus. This study was carried out on different strains from lineage 1 and 2 from Senegal and Italy. The presented protocol/approach showed good coverage using samples derived from several vertebrate hosts and may be valuable for West Nile genomic surveillance.

Keywords: West Nile virus; amplicon-based sequencing; lineages; next-generation sequencing.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Animals
  • Europe / epidemiology
  • Humans
  • Italy
  • Senegal
  • West Nile Fever* / epidemiology
  • West Nile Fever* / veterinary
  • West Nile virus* / genetics

Grants and funding

This research was partly funded by the Africa Pathogen Genomics Initiative (Africa PGI) through the Bill & Melinda Gates Foundation (4306-22-EIPHLSS-GENOMICS), the Institut Pasteur de Dakar internal funds, and an international PhD initiative including Fondazione Edmund Mach, University of Trento, and Istituto Zooprofilattico of Teramo.