Figure 3
From: Surveillance on A/H5N1 virus in domestic poultry and wild birds in Egypt
Phylogenetic relatedness of the HA and NA genes generated in this study with other relevant H5N1 viruses isolated from poultry and human in Egypt. Phylogenetic relatedness of the H5 (left) and N1 (right) sequences generated in this study and relevant genes were done using the Bayesian (MrBayes algorithm) method launched from TOPALi v2 with general time-reversible (GTR) likelihood model and 10 independent runs with the initial 25% of each run discarded as burn-in. Each run consisted of two independent tree files with each 100,000 Markov Chain Monte Carlo-sampled trees. Viruses obtained from this study are written in bold and the two co-circulating genotypes are highlighted in pink (variant clade 2.2.1.1) and yellow (2.2.1/c subclade). Both trees were rooted to the corresponding sequences of A/goose/Guangdong/1/96. Final trees were further edited by Inkscape 0.48 software.