a complete analysis of ha and na genes of influenza a viruses一个完整的分析a型流感病毒的血凝素和神经氨酸酶基因.pdfVIP

A Complete Analysis of HA and NA Genes of Influenza A Viruses 1 2 2 1 1 Weifeng Shi *, Fumin Lei , Chaodong Zhu , Fabian Sievers , Desmond G. Higgins 1The Conway Institute of Biomolecular and Biomedical Research, University College Dublin, Dublin, Ireland, 2 Institute of Zoology, Chinese Academy of Sciences, Beijing, China Abstract Background: More and more nucleotide sequences of type A influenza virus are available in public databases. Although these sequences have been the focus of many molecular epidemiological and phylogenetic analyses, most studies only deal with a few representative sequences. In this paper, we present a complete analysis of all Haemagglutinin (HA) and Neuraminidase (NA) gene sequences available to allow large scale analyses of the evolution and epidemiology of type A influenza. Methodology/Principal Findings: This paper describes an analysis and complete classification of all HA and NA gene sequences available in public databases using multivariate and phylogenetic methods. Conclusions/Significance: We analyzed 18975 HA sequences and divided them into 280 subgroups according to multivariate and phylogenetic analyses. Similarly, we divided 11362 NA sequences into 202 subgroups. Compared to previous analyses, this work is more detailed and comprehensive, especially for the bigger datasets. Therefore, it can be used to show the full and complex phylogenetic diversity and provides a framework for studying the molecular evolution and epidemiology of type A influenza virus. For more than 85% of type A influenza HA and NA sequences into GenBank, they are categorized in one unambiguous and unique group. Therefore, our results are a kind of genetic