Cluster analysis of the origins of the new influenza A(H1N1) virus

A Solovyov; G Palacios; T Briese; W I Lipkin; R Rabadan

doi:10.2807/ese.14.21.19224-en

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Cluster analysis of the origins of the new influenza A(H1N1) virus
A Solovyov¹ , G Palacios² , T Briese² , W I Lipkin² , R Rabadan³
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Affiliations: ¹ Physics Department, Princeton University, Princeton, United States ² Center for Infection and Immunity, Mailman School of Public Health, Columbia University, New York, United States ³ Department of Biomedical Informatics, Center for Computational Biology and Bioinformatics, Columbia University College of Physicians and Surgeons, New York, United States

Correspondence:
R Rabadan
rabadan dbmi.columbia.edu
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Citation style for this article: Solovyov A, Palacios G, Briese T, Lipkin W I, Rabadan R. Cluster analysis of the origins of the new influenza A(H1N1) virus. Euro Surveill. 2009;14(21):pii=19224. https://doi.org/10.2807/ese.14.21.19224-en Received: 27 May 2009

Abstract

In March and April 2009, a new strain of influenza A(H1N1) virus has been isolated in Mexico and the United States. Since the initial reports more than 10,000 cases have been reported to the World Health Organization, all around the world. Several hundred isolates have already been sequenced and deposited in public databases. We have studied the genetics of the new strain and identified its closest relatives through a cluster analysis approach. We show that the new virus combines genetic information related to different swine influenza viruses. Segments PB2, PB1, PA, HA, NP and NS are related to swine H1N2 and H3N2 influenza viruses isolated in North America. Segments NA and M are related to swine influenza viruses isolated in Eurasia.