Fig. 5

Phylogenetic tree and sequence alterations. The left panel shows the phylogenetic relation of eight sequences selected from each lineage which were constructed using the maximum likelihood method in MEGA6 with the following settings: GTR + I. The branches with different colors show their lineages depicted in Fig. 4. Each strain name is linked to the branch with a dotted line. The number in parentheses is the alteration count in each strain compared to the Korea index strain. The right panel shows non-synonymous (NS) single-nucleotide differences (vertical colored bars) between the Korean index genome and the representative genomes available. Mutation information is displayed as follows: change in ORF1ab (red), change in S protein (orange), change in ORF3 (yellow), change in ORF4a (green), change in ORF4b (blue), change in ORF5 (navy), change in M (purple), change in N (dark green) and change in ORF8b (sky). The asterisk indicates unique alterations in the Korean index strain