Figure 5.

Mutation Profiles of Variants of DENV-1 Genotype III 2013 and Genotype Ia Lineages

The figure illustrates temporal pattern of emergence, maintenance, and extinction of each variant during the study period. The classification of DENV-1 genotype III variants (variant 13.01–13.13) has been described in details elsewhere (Hapuarachchi et al., 2016a). Arrows indicate the transmission period of each variant. A timeline is given below the figure with numbers 1–4 to represent each quarter of the year (1: Jan–Mar; 2: Apr–Jun; 3: Jul–Sep; 4: Oct–Dec). Substitutions shown are the E-gene-based signature mutations of each variant. Initial substitutions were considered as founder substitutions and have been shown with an asterisk. Those that appeared later in respective variants were named as “secondary” substitutions (without an asterisk) in the text. Those shown in red are “fixed” non-synonymous substitutions. Remaining residues are “fixed” synonymous substitutions. Positions of all amino acid substitutions are shown at the E gene level, whereas the synonymous substitutions are numbered from the beginning of the polyprotein. D1GIII, genotype III 2013 lineage; D1GIa, genotype Ia lineage; n, number of sequences belonging to each variant, WT, wild-type.