Genomic Analysis of G2P[4] Group A Rotaviruses in Zambia Reveals Positive Selection in Amino Acid Site 7 of Viral Protein 3

Figures

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  Figure 1. VP7. Maximum Likelihood phylogenetic tree of the genome segment encoding VP7 of Zambian G2P[4] sequences. The study strains are indicated with light-green circular symbols. Lineages are indicated in Roman numerals, while sub-lineages are in italic. The scale number indicates the number of nucleotide substitutions per site.

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  Figure 2. VP4. Maximum Likelihood phylogenetic tree of the genome segment encoding VP4 of Zambian G2P[4] sequences. The study strains are indicated with light-green circular symbols. Lineages are indicated in Roman numerals, while sub-lineages are in italic. The scale number indicates the number of nucleotide substitutions per site.

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  Figure 3. VP1. Maximum Likelihood phylogenetic tree of the genome segment encoding VP1 of Zambian G2P[4] sequences. The study strains are indicated with light-green circular symbols. Lineages are indicated in Roman numerals. The scale number indicates the number of nucleotide substitutions per site.

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  Figure 4. VP2. Maximum Likelihood phylogenetic tree of the genome segment encoding VP2 of Zambian G2P[4] sequences. The study strains are indicated with light-green circular symbols. Lineages are indicated in Roman numerals. The scale number indicates the number of nucleotide substitutions per site.

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  Figure 5. VP3. Maximum Likelihood phylogenetic tree of the genome segment encoding VP3 of Zambian G2P[4] sequences. The study strains are indicated with light-green circular symbols. Lineages are indicated in Roman numerals. The scale number indicates the number of nucleotide substitutions per site.

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  Figure 6. VP6. Maximum Likelihood phylogenetic tree of the genome segment encoding VP6 of Zambian G2P[4] sequences. The study strains are indicated with light-green circular symbols. Lineages are indicated in Roman numerals. The scale number indicates the number of nucleotide substitutions per site.

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  Figure 7. NSP1. Maximum Likelihood phylogenetic tree of the genome segment encoding NSP1 of Zambian G2P[4] sequences. The study strains are indicated with light-green circular symbols. Lineages are indicated in Roman numerals. The scale number indicates the number of nucleotide substitutions per site.

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  Figure 8. NSP2. Maximum Likelihood phylogenetic tree of the genome segment encoding NSP2 of Zambian G2P[4] sequences. The study strains are indicated with light-green circular symbols. Lineages are indicated in Roman numerals. The scale number indicates the number of nucleotide substitutions per site.

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  Figure 9. NSP3. Maximum Likelihood phylogenetic tree of the genome segment encoding NSP3 of Zambian G2P[4] sequences. The study strains are indicated with light-green circular symbols. Lineages are indicated in Roman numerals. The scale number indicates the number of nucleotide substitutions per site.

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  Figure 10. NSP4. Maximum Likelihood phylogenetic tree of the genome segment encoding NSP4 of Zambian G2P[4] sequences. The study strains are indicated with light-green circular symbols. Lineages are indicated in Roman numerals. The scale number indicates the number of nucleotide substitutions per site.

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  Figure 11. NSP5. Maximum Likelihood phylogenetic tree of the genome segment encoding NSP5 of Zambian G2P[4] sequences. The study strains are indicated with light-green circular symbols. Lineages are indicated in Roman numerals. The scale number indicates the number of nucleotide substitutions per site.

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  Figure 12. Posterior distributions of VP3 site seven over the discretized rate grid. The size of a dot is proportional to the posterior weight allocated to that grid point, and the color shows the intensity of selection.