Evolutionary features of influenza A/H5N1 virus populations in Egypt: poultry and human health implications
Since 2006, in Egypt, highly pathogenic avian influenza virus (HPAIV) H5N1 has established endemic status in poultry. Bayesian evolutionary analysis sampling trees suggested an introduction date in the third quarter of 2005. Evolutionary dynamics using Bayesian analysis showed that H5N1 viruses of clade 184.108.40.206 evolved at higher rates than those of clade 220.127.116.11. Bayesian skyline plot analysis of the HA gene of 840 and NA gene of 401 Egyptian H5N1 viruses from 2006-2015 identified two waves of viral population expansion correlating with the stepwise emergence of the 18.104.22.168 variant lineage in 2008 and with the newly emerging 22.214.171.124 cluster in late 2014. H5N1 infections in human hosts in 2014-2015 were statistically linked to a contemporary poultry outbreak.
Naguib, M.M. / Abd el-Whab, El-Sayed Mohammed / Harder, Timm C.: Evolutionary features of influenza A/H5N1 virus populations in Egypt: poultry and human health implications. 2016.
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