FIG. 3.

Composite neighbor-joining tree of SGA env sequences in the SIVmac251 virus stock and plasma SGA SIVenv sequences from five male rhesus macaques infected after penile SIV inoculation. Variants from individual animals are represented as different colors within the phylogenetic tree as denoted in the key. The sequences amplified from week 1 plasma (7 or 10 days PI) are denoted by an elliptical symbol and are lighter shaded whereas set point plasma sequences are denoted by square symbols and are darker shaded. Black asterisk (*) indicates sequences from the (UCD 6/04) SIVmac251 stock. G-to-A mutations in the sequences are indicated with (^). The scale bar represents 0.001 nucleotide substitutions per site.