Diversity of A(H5N1) clade avian influenza viruses with evidence of reassortment in Cambodia, 2014-2016

Autoři: Annika Suttie aff001;  Songha Tok aff001;  Sokhoun Yann aff001;  Ponnarath Keo aff001;  Srey Viseth Horm aff001;  Merryn Roe aff003;  Matthew Kaye aff003;  San Sorn aff004;  Davun Holl aff004;  Sothyra Tum aff004;  Philippe Buchy aff001;  Ian Barr aff003;  Aeron Hurt aff003;  Andrew R. Greenhill aff002;  Erik A. Karlsson aff001;  Dhanasekaran Vijaykrishna aff006;  Yi-Mo Deng aff003;  Philippe Dussart aff001;  Paul F. Horwood aff001
Působiště autorů: Virology Unit, Institut Pasteur du Cambodge, Institut Pasteur International Network, Phnom Penh, Cambodia aff001;  School of Health and Life Sciences, Federation University, Churchill, Australia aff002;  WHO Collaborating Centre for Reference and Research on Influenza, Victorian Infectious Diseases Reference Laboratory, at the Peter Doherty Institute for Infection and Immunity, Melbourne, Victoria, Australia aff003;  National Animal Health and Production Research Institute, General Directorate of Animal Health and Production, Cambodian Ministry of Agriculture, Forestry and Fisheries, Phnom Penh, Cambodia aff004;  GlaxoSmithKline Vaccines R&D Intercontinental, Singapore, Singapore aff005;  Department of Microbiology, Biomedicine Discovery Institute, Monash University, Melbourne, Victoria, Australia aff006;  College of Public Health, Medical and Veterinary Sciences, James Cook University, Townsville, Queensland, Australia aff007
Vyšlo v časopise: PLoS ONE 14(12)
Kategorie: Research Article
doi: https://doi.org/10.1371/journal.pone.0226108


In Cambodia, highly pathogenic avian influenza A(H5N1) subtype viruses circulate endemically causing poultry outbreaks and zoonotic human cases. To investigate the genomic diversity and development of endemicity of the predominantly circulating clade A(H5N1) viruses, we characterised 68 AIVs detected in poultry, the environment and from a single human A(H5N1) case from January 2014 to December 2016. Full genomes were generated for 42 A(H5N1) viruses. Phylogenetic analysis shows that five clade genotypes, designated KH1 to KH5, were circulating in Cambodia during this period. The genotypes arose through multiple reassortment events with the neuraminidase (NA) and internal genes belonging to H5N1 clade, clade or A(H9N2) lineages. Phylogenies suggest that the Cambodian AIVs were derived from viruses circulating between Cambodian and Vietnamese poultry. Molecular analyses show that these viruses contained the hemagglutinin (HA) gene substitutions D94N, S133A, S155N, T156A, T188I and K189R known to increase binding to the human-type α2,6-linked sialic acid receptors. Two A(H5N1) viruses displayed the M2 gene S31N or A30T substitutions indicative of adamantane resistance, however, susceptibility testing towards neuraminidase inhibitors (oseltamivir, zanamivir, lananmivir and peramivir) of a subset of thirty clade viruses showed susceptibility to all four drugs. This study shows that A(H5N1) viruses continue to reassort with other A(H5N1) and A(H9N2) viruses that are endemic in the region, highlighting the risk of introduction and emergence of novel A(H5N1) genotypes in Cambodia.

Klíčová slova:

Cambodia – Infectious disease surveillance – Microbial mutation – Phylogenetic analysis – Population genetics – Poultry – Viral genomics


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