FIG 7.

Short-term longitudinal analysis of viral populations in semen of macaque H2. Shown is a maximum likelihood phylogenetic tree generated from sequences derived from semen samples collected 4 days (blue, 22 sequences), 14 days (green, 12 sequences), and 60 days (yellow, 6 sequences) before euthanasia, together with semen (pink), blood (red), and source genital organ (vas deferens, blue; epididymis head and tail, green) sequences obtained at euthanasia. Semen samples obtained 4, 14, and 60 days before euthanasia displayed a viral population pattern similar to that of semen obtained at euthanasia, suggesting that the tissue source profile observed in a given semen sample is stable over at least several weeks rather than random. The tree was rooted using a clade (top of the tree) of the first SIV sequences collected (60 days before euthanasia) in the analysis.