Molecular Ecology and Natural History of Simian Foamy Virus Infection in Wild-Living Chimpanzees
Figure 9
Coinfection and recombination in SFVcpz.
(A) The maximum clade credibility (MCC) topology of pol-IN sequences is shown, with branch lengths as described in Figure 6. Brackets indicate the number of distinct SFVcpz strains that are present in samples DP157 and MF1279, respectively. Bulk PCR derived sequences are shown in red; SGA derived sequences are shown in blue. Numbers on nodes indicate posterior probabilities expressed as percentages (only values of 90% or higher are shown). The scale bar represents 0.009 substitutions per site. (B) Maximum clade credibility (MCC) topologies of gag sequences in two adjacent fragments are shown. Viruses that exhibit discordant branching patterns are highlighted. Numbers on nodes indicate percentage posterior probabilities. The scale bars represent 0.02 substitutions per site.