FIG 3.

Maximum-likelihood phylogenetic tree of 349 SARS-CoV-2 genomes isolated from vaccinated and nonvaccinated populations. The tree is rooted to the SARS-CoV-2 Wuhan-Hu-1 reference genome (NC_045512.2). The scale represents 0.0001 nucleotide substitutions per site. The vaccination conditions are color coded at the tree tips: purple, black, and white tips denote single dose, fully vaccinated, and nonvaccinated, respectively. The SARS-CoV-2 Pangolin lineage is illustrated as a color bar, and the S protein NTD/RBD mutations are shown as a heatmap on the right panel. The S protein NTD/RBD amino acid changes are shown on the column labels in the heatmap, and different mutation alleles are separated by a comma if more than one allele is detected at the same site.