Abstract
From 29 November 2016 to 24 January 2017, sixty-three cases of H5N6 highly pathogenic avian influenza virus (HPAIV) infections were detected in wild birds in Ibaraki Prefecture, Japan. Here, we analyzed the genetic, temporal, and geographic correlations of these 63 HPAIVs to elucidate their dissemination throughout the prefecture. Full-genome sequence analysis of the Ibaraki isolates showed that 7 segments (PB2, PB1, PA, HA, NP, NA, NS) were derived from G1.1.9 strains while the M segment was from G1.1 strains; both groups of strains circulated in south China. Pathological studies revealed severe systemic infection in dead swans (the majority of dead birds and the only species necropsied), thus indicating high susceptibility to H5N6 HPAIVs. Coalescent phylogenetic analysis using the 7 G1.1.9-derived segments enabled detailed analysis of the short-term evolution of these highly homologous HPAIVs. This analysis revealed that the H5N6 HPAIVs isolated from wild birds in Ibaraki Prefecture were divided into 7 groups. Spatial analysis demonstrated that most of the cases concentrated around Senba Lake originated from a single source, and progeny viruses were transmitted to other locations after the infection expanded in mute swans. In contrast, within just a 5-km radius of the area in which cases were concentrated, three different intrusions of H5N6 HPAIVs were evident. Multi-segment analysis of short-term evolution showed that not only was the invading virus spread throughout Ibaraki Prefecture but also that, despite the small size of this region, multiple invasions had occurred during winter 2016–2017.
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Acknowledgements
In this research, we used the supercomputer of AFFRIT, MAFF, Japan.
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This study was part of a research project for improving food safety and animal health that was supported by the Ministry of Agriculture, Forestry, and Fisheries of Japan.
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RT designed the study, characterized viruses, and drafted the manuscript; YY, YK, and KY conducted pathology diagnosis and virus isolation; TS designed and coordinated the study and drafted the manuscript; NT, JM, TT, and YU characterized the viruses; all authors have read and approved the manuscript.
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705_2018_3752_MOESM2_ESM.pdf
Supplementary material 2 (PDF 396 kb) Online Resource 2: Pathologic findings in dead mute swans. Brain (a, b), lung (c, d,), and rachis (e, f) were collected from dead mute swans. Tissue sections were stained with hematoxylin and eosin (a, c, e). In immunohistochemical analysis for AIV M protein, the antigen stains red (b, d, f)
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Supplementary material 3 (PDF 260 kb) Online Resource 3: Pathologic finding in a dead mute swan: hemorrhage in the conjunctiva (a). Tissue sections were stained with hematoxylin and eosin (b). In the immunohistochemical analysis for AIV M protein, the antigen stains red (c)
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Supplementary material 4 (PDF 249 kb) Online Resource 4: Phylogenetic tree based on the HA gene. Branches in clade 2.3.4.4 are filled in beige and that of the Ibaraki isolates is shown as a red line
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Supplementary material 13 (PDF 211 kb) Online Resource 13: Occurrence rates of branch posteriors of the maximum clade credibility (MCC) tree. The graph shows five ranges of posterior values: 0 to 0.2, >0.2 to 0.4, >0.4 to 0.6, >0.6 to 0.8, and >0.8 to 1. MCC trees based on the HA or NA segment were generated under the same conditions as that using 7 segments. The branch posteriors of the MCC tree generated from 7 segments differed significantly (P < 0.01, Mann–Whitney U test) from those of the MCC tree generated by using the HA or NA segment
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Tsunekuni, R., Yaguchi, Y., Kashima, Y. et al. Spatial transmission of H5N6 highly pathogenic avian influenza viruses among wild birds in Ibaraki Prefecture, Japan, 2016–2017. Arch Virol 163, 1195–1207 (2018). https://doi.org/10.1007/s00705-018-3752-7
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DOI: https://doi.org/10.1007/s00705-018-3752-7