The genomic and epidemiological dynamics of human influenza A virus
The genomic and epidemiological dynamics of human influenza A virus
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DOI：
10.1038/nature06945
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发表时间：
2008-05-29
期刊：
影响因子：
64.8
通讯作者：
Holmes, Edward C.
中科院分区：
文献类型：
--
作者：
Rambaut, Andrew;Pybus, Oliver G.;Holmes, Edward C.
甲型流感病毒和人类免疫系统之间的进化相互作用，表现为病毒血凝素的“抗原漂移”，是分子进化中描述最好的模式之一。然而，对这种病原体的基因组规模的进化动力学知之甚少。同样，基因组过程如何与全球流感流行病学（A/H3 N2和A/ H1N1亚型在其中共同传播）相关也知之甚少。在这里，通过对从两个半球的温带人群中取样的1,302个完整病毒基因组的分析，我们表明甲型流感病毒的基因组进化的特征是频繁的重配和周期性的选择性扫描之间的复杂相互作用。A/H3 N2和A/ H1N1亚型表现出不同的进化动力学，在A/ H1N1中循环的不同谱系表明抗原漂移较弱。这些结果表明了一种病毒生态学的汇源模型，其中新的谱系是从一个持续的流感水库播种的，我们假设该水库位于热带地区，以使温带地区的种群下沉。
The evolutionary interaction between influenza A virus and the human immune system, manifest as 'antigenic drift' of the viral haemagglutinin, is one of the best described patterns in molecular evolution. However, little is known about the genome- scale evolutionary dynamics of this pathogen. Similarly, how genomic processes relate to global influenza epidemiology, in which the A/ H3N2 and A/ H1N1 subtypes co- circulate, is poorly understood. Here through an analysis of 1,302 complete viral genomes sampled from temperate populations in both hemispheres, we show that the genomic evolution of influenza A virus is characterized by a complex interplay between frequent reassortment and periodic selective sweeps. The A/ H3N2 and A/ H1N1 subtypes exhibit different evolutionary dynamics, with diverse lineages circulating in A/ H1N1, indicative of weaker antigenic drift. These results suggest a sink - source model of viral ecology in which new lineages are seeded from a persistent influenza reservoir, which we hypothesize to be located in the tropics, to sink populations in temperate regions.