Population dynamics of cocirculating swine influenza A viruses in the United States from 2009 to 2012
Population dynamics of cocirculating swine influenza A viruses in the United States from 2009 to 2012
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DOI：
10.1111/irv.12193
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发表时间：
2013-12-01
影响因子：
4.4
通讯作者：
Vincent, Amy L.
中科院分区：
文献类型：
--
作者：
Anderson, Tavis K.;Nelson, Martha I.;Vincent, Amy L.
背景了解甲型流感病毒（IAV）在哺乳动物宿主中的生态和进化对于减轻生产动物的疾病负担和降低人类人畜共患感染风险至关重要。美国猪群流感监测的最新进展允许及时进行流行病学、系统发育和病毒学分析，以监测新病毒的出现并评估病毒种群动态的变化。方法为了更好地了解北美猪群中的 IAV，我们对 2009-2012 年期间通过自愿从美国猪中分离出的 IAV 的 1075 个 HA、1049 个 NA 和 1040M 序列进行了系统发育分析。以及向美国农业部 IAV 猪监测系统匿名提交的材料。结果分析揭示了 2009-2012 年期间在美国猪群中共同流行的 A/H1N1、A/H3N2 和 A/H1N2 多个分支之间的种群动态变化。病毒分离株被分为七个遗传和抗原上不同的血凝素谱系之一：H1、H1、H1、H11、H12、H1pdm09 和 H3 簇 IV。提交的样本中 H11 的发生率有所增加，同时 H1pdm09 的发生率有所下降。 H3 簇 IV 表现出日益增加的多样化，需要重新评估系统发育命名标准。尽管 H3N2 占已识别病毒的 25%，但据报道，自 2011 年底以来，该亚型在已测序分离株中所占比例不断增加。结论 自 2009 年以来，美国猪 IAV 的监测和报告有所增加，我们证明了一段病毒多样性扩大的时期。这些数据可用于为疫苗和诊断更新以及猪健康管理变化的干预策略提供信息。
BackgroundUnderstanding the ecology and evolution of influenza A viruses (IAV) in mammalian hosts is critical to reduce disease burden in production animals and lower zoonotic infection risk in humans. Recent advances in influenza surveillance in US swine populations allow for timely epidemiological, phylogenetic, and virological analyses that monitor emergence of novel viruses and assess changes in viral population dynamics.MethodsTo better understand IAV in the North American swine population, we undertook a phylogenetic analysis of 1075 HA, 1049 NA, and 1040M sequences of IAV isolated from US swine during 2009-2012 through voluntary and anonymous submissions to the US Department of Agriculture IAV swine surveillance system.ResultsAnalyses revealed changes in population dynamics among multiple clades of A/H1N1, A/H3N2, and A/H1N2 cocirculating in US swine populations during 2009-2012. Viral isolates were categorized into one of seven genetically and antigenically distinct hemagglutinin lineages: H1, H1, H1, H11, H12, H1pdm09, and H3 cluster IV. There was an increase in occurrence of H11 in samples submitted, with a concurrent decrease in H1pdm09. H3 cluster IV exhibited increasing diversification, warranting a re-evaluation of phylogenetic nomenclature criteria. Although H3N2 represented 25% of identified viruses, this subtype was reported in increasing proportion of sequenced isolates since late 2011.ConclusionsSurveillance and reporting of IAV in US swine have increased since 2009, and we demonstrate a period of expanded viral diversity. These data may be used to inform intervention strategies of vaccine and diagnostic updates and changes in swine health management.