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Open Access Highly Accessed Research article

Evolutionary interactions between haemagglutinin and neuraminidase in avian influenza

Melissa J Ward1*, Samantha J Lycett1, Dorita Avila1, Jonathan P Bollback12 and Andrew J Leigh Brown1

Author Affiliations

1 Institute for Evolutionary Biology, University of Edinburgh, Ashworth Building, West Mains Road, Edinburgh EH9 3JT, Scotland, UK

2 IST Austria, Am Campus 1, Klosterneuburg 3400, Austria

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BMC Evolutionary Biology 2013, 13:222  doi:10.1186/1471-2148-13-222

Published: 9 October 2013

Additional files

Additional file 1: Table S1:

H7 HA1 sites with dN/dS > 1 in stochastic mutational analysis on different NA subtype backgrounds. Table S2: Classification of avian hosts of H7 influenza virus by taxonomic order. Table S3: H7 avian influenza sequence dataset. Figure S1 H7 HA1 MrBayes consensus phylogeny. Figure S2 The rate of non-synonymous substitution (dN) plotted against the rate of synonymous substitution (dS) for avian influenza H7 HA1 from viruses with different background NA subtypes. Figure S3 Relationship between proportion of sequences from terrestrial poultry (Galliformes) and mean dN/dS for each background NA subtype. Figure S4 Site-by-site dN/dS values across the avian influenza H7 HA1, ranked by size. Figure S5 Histograms showing frequency of different log(dN/gene-wide dS) values across the H7 HA1 alignment for H7N1, H7N2, H7N3 and H7N7 lineages. Figure S6 Plot of transitions (s) and transversions (v) against genetic distance for H7 HA dataset. Figure S7 Example nucleotide mutational maps. Figure S8 Example codon map obtained using stochastic mutational mapping. Figure S9 Example parsimony reconstruction of background NA subtypes on a phylogeny of H7 HA sequences. Figure S10 Testing for differences between posterior distributions of evolutionary rates for different NA background subtypes.

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