Skip to main content
Fig. 3 | BMC Infectious Diseases

Fig. 3

From: The PTAP sequence duplication in HIV-1 subtype C Gag p6 in drug-naive subjects of India and South Africa

Fig. 3

The phylogenetic analysis of the gag sequences using the neighbor-joining method. Full-length gag sequences (n = 126) derived from 50 subjects were used in the analysis. For two samples (T013-M6p6 and T015-M24p6), only gag p6 could be amplified. Filled circles, filled diamonds and filled triangles represent the subjects from whom sequences were available at ≥ five (n = 6), four (n = 3) and three (n = 13) different time points, respectively. Open circles represent all the other subjects (n = 28), from whom sequences at less than three time-points were available. The reference sequences of gag from various genetic subtypes - A, B, C, D, E, F, G, H, J, and K were downloaded from the Los Alamos HIV sequence database. The star represents subtype C reference sequence. After the gap stripping, there were 1,632 nucleic acid positions in the final dataset. The percentage of replicate trees in which the associated taxa clustered together in the bootstrap test (1,000 replicates) are shown next to the branches. The tree is drawn to scale, with branch lengths in the same units as those of the evolutionary distances used to infer the phylogenetic tree. The evolutionary distances were computed using the Maximum Composite Likelihood method and were in the units of the number of base substitutions per site

Back to article page