alexa Detection of novel (swine origin) H1N1 influenza A virus by quantitative real-time reverse transcription-PCR.
Pathology

Pathology

Journal of Forensic Pathology

Author(s): Wang R, Sheng ZM, Taubenberger JK

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A novel H1N1 subtype influenza A virus, derived by reassortment between two known circulating swine influenza strains, has now been declared a human pandemic influenza A virus (8). The pandemic virus, centered initially in Mexico and the United States, has now spread to 74 countries with the World Health Organization reporting 29,669 cases and 145 deaths as of 15 June 2009 (2, 7). The potential severity of this pandemic virus is currently unknown. Because the novel virus began circulating at the end of the 2008-2009 influenza season in the northern hemisphere, distinguishing it from other influenza A viruses, especially the circulating human H1N1 viruses, is crucial not only for pandemic planning, containment, and surveillance but also for treatment. The current human H1N1 viruses are now predominantly resistant to the neuraminidase inhibitor oseltamivir (4), while the novel swine origin H1N1 viruses are resistant to the adamantanes (2). To this end, we developed and evaluated several reverse transcription (RT)-PCR-based assays to distinguish the human lineage H1N1 and the novel swine origin virus and report here specific RT-PCR assays for human and swine origin H1N1 and also an RT-PCR assay with one primer set that can amplify a portion of the H1 subtype hemagglutinin (HA) gene segment from avian, swine, and human origin influenza A viruses and, in a sensitive, quantitative real-time assay, distinguish both the current human H1N1 virus and the novel H1N1 virus by using specific probes in a one-tube format. Each of these real-time assays uses primers designed to match highly conserved regions of the H1 HA gene.

This article was published in J Clin Microbiol and referenced in Journal of Forensic Pathology

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