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Most previous evolutionary studies of influenza A have focussed on genetic drift, or reassortment of specific gene segments, hosts or subtypes. We conducted a systematic literature review to identify reported claimed reassortant influenza A lineages with genomic data available in GenBank, to obtain 646 unique first-report isolates out of a possible 20,781 open-access genomes.After adjusting for correlations, only: swine as host, China, Europe, Japan and years between 1997 and 2002; remained as significant risk factors for the reporting of reassortant viral lineages. For swine H1, more reassortants were observed in the North American H1 clade compared with the Eurasian avian-like H1N1 clade. Conversely, for avian H5 isolates, a higher number of reported reassortants were observed in the European H5N2/H3N2 clade compared with the H5N2 North American clade.Despite unavoidable biases (publication, database choice and upload propensity) these results synthesize a large majority of the current literature on novel reported influenza A reassortants and are a potentially useful prerequisite to inform further algorithmic studies.

Original publication

DOI

10.1186/s12879-015-1298-9

Type

Journal article

Journal

BMC infectious diseases

Publication Date

05/01/2016

Volume

16

Addresses

Department of Infectious Disease Epidemiology, MRC Centre for Outbreak Analyses and Modelling, School of Public Health, Imperial College London, London, UK. amy.pinsent07@imperial.ac.uk.

Keywords

Animals, Humans, Reassortant Viruses, Phylogeny, Genetic Drift, Influenza, Human, Influenza A Virus, H3N2 Subtype, Influenza A Virus, H1N1 Subtype, Influenza A Virus, H5N2 Subtype