Figure 2
Phylogenetic reconstruction based on nucleotide sequence of LTR and coding genes from full-length FIV nucleotide sequences excluding env. (A-E) Shown are the maximum likelihood trees (ML) which are identical to tree topologies using maximum parisimony (MP) and minimum evolution (ME) for each gene region. See methods and Additional file 3 for specific parameters as implemented in PAUP ver 4.10b. (E) OrfA phylogeny does not include FIVPco subtype A due to lack of sufficient homology for proper gene identification. (F) Phylogenetic tree of concatenated combined data of coding genes gag, pol vif, and orfA. All nodes supported by 100% bootstrap proportions in ME, MP and ML analyses except for relative positions of FIV Fca subtypes which were supported by bootstraps >50% but less than 100% within the FIV Fca clade.