Phylogenetic reconstruction and amino acid variants shared among different U.S. HSV-2 clusters.

Amino acid sequences in the SD90e reference strain correspond to gI (highlighted in green), gE (yellow), US8A (orange) and US9 (grey). Each gene segment is also bracketed at the bottom of the figure. Amino acid sequences were ordered according to the Bayesian tree diagrammed on the left side of the figure. Blue and red accession numbers represent, respectively, non-recurrent and recurrent isolates (Table 2). Selected regions with amino acid variation are shown. The position of each amino acid variant shared by non-related clusters (♦) or at which multiple amino acid variants occur () is indicated above the reference strain. Bayesian posterior probabilities (≥80%) and maximum-parsimony bootstrap (≥65%) / maximum-likelihood bootstrap (≥65%) values appear above and below the branches, respectively. * High-passage laboratory strain.