Clade-level Spatial Modelling of HPAI H5N1 Dynamics in the Mekong Region Reveals New Patterns and Associations with Agro-Ecological Factors.

Détails

Ressource 1Télécharger: srep30316.pdf (1414.86 [Ko])
Etat: Serval
Version: Final published version
ID Serval
serval:BIB_D16B45CF3D73
Type
Article: article d'un périodique ou d'un magazine.
Collection
Publications
Titre
Clade-level Spatial Modelling of HPAI H5N1 Dynamics in the Mekong Region Reveals New Patterns and Associations with Agro-Ecological Factors.
Périodique
Scientific reports
Auteur(s)
Artois J., Newman S.H., Dhingra M.S., Chaiban C., Linard C., Cattoli G., Monne I., Fusaro A., Xenarios I., Engler R., Liechti R., Kuznetsov D., Pham T.L., Nguyen T., Pham V.D., Castellan D., Von Dobschuetz S., Claes F., Dauphin G., Inui K., Gilbert M.
ISSN
2045-2322 (Electronic)
ISSN-L
2045-2322
Statut éditorial
Publié
Date de publication
25/07/2016
Peer-reviewed
Oui
Volume
6
Pages
30316
Langue
anglais
Notes
Publication types: Journal Article ; Research Support, N.I.H., Extramural ; Research Support, U.S. Gov't, Non-P.H.S.
Publication Status: epublish
Résumé
The highly pathogenic avian influenza (HPAI) H5N1 virus has been circulating in Asia since 2003 and diversified into several genetic lineages, or clades. Although the spatial distribution of its outbreaks was extensively studied, differences in clades were never previously taken into account. We developed models to quantify associations over time and space between different HPAI H5N1 viruses from clade 1, 2.3.4 and 2.3.2 and agro-ecological factors. We found that the distribution of clades in the Mekong region from 2004 to 2013 was strongly regionalised, defining specific epidemiological zones, or epizones. Clade 1 became entrenched in the Mekong Delta and was not supplanted by newer clades, in association with a relatively higher presence of domestic ducks. In contrast, two new clades were introduced (2.3.4 and 2.3.2) in northern Viet Nam and were associated with higher chicken density and more intensive chicken production systems. We suggest that differences in poultry production systems in these different epizones may explain these associations, along with differences in introduction pressure from neighbouring countries. The different distribution patterns found at the clade level would not be otherwise apparent through analysis treating all outbreaks equally, which requires improved linking of disease outbreak records and genetic sequence data.

Mots-clé
Agriculture, Animals, Chickens, Disease Outbreaks, Ducks, Genotype, Geography, Influenza A Virus, H5N1 Subtype/classification, Influenza A Virus, H5N1 Subtype/genetics, Influenza in Birds/epidemiology, Influenza in Birds/virology, Phylogeny, Phylogeography, Poultry Diseases/epidemiology, Poultry Diseases/virology, Socioeconomic Factors, Spatial Analysis, Vietnam/epidemiology
Pubmed
Web of science
Open Access
Oui
Création de la notice
30/07/2016 11:22
Dernière modification de la notice
09/05/2019 1:36
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