Avian Influenza A H7N9 emerging human cases around Shanghai, China
GISAID data acknowledgements
We gratefully acknowledge the authors, originating and submitting laboratories of the sequences from GISAID’s EpiFlu™ Database on which this analysis is based. A list of the sequences, their submitting labs and GISAID links is provided on this page.
Clinical case study of the first 3 cases
The Chinese CDC have published a paper in the New England Journal of Medicine describing the first 3 cases including phylogenetic analysis:
Analysis and interpretation
The main findings of the phylogenetic analysis is that although the human cases are a H7N9 virus, this seems to be an independent reassortment of 3 avian viruses: the HA (H7) from a H7N3 virus, the NA (N9) from a H7N9 virus and the remaining segments from a number of H9N2 virus. Thus, interestingly, this is a new bringing together of H7 and N9 that we haven't observed in birds. Given the high frequency of reassortment in wild birds it is quite possible that it simply hadn't been sampled.
- Spatial Phylogenetic Analysis - posted by Andrew Rambaut, Samantha Lycett & Lu Lu 2013-04-26
- Genomic Mutations - posted by Tommy Lam, updated by Andrew Rambaut 2013-05-01
- Structural Analysis - posted by Thomas Bowden Oliver Pybus 2013-04-22
- Molecular Phylogenetic Analysis - updated by Andrew Rambaut 2013-04-22
- Deletion in neuraminidase - posted by Samantha Lycett 2013-04-01
- Preliminary BEAST Analyses: HA (segment 4, H7), NA (segment 6, N9) - posted by Samantha Lycett 2013-04-02
- Reassortment History - posted by Andrew Rambaut 2013-04-03