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. 2014 Aug 1;30(8):742–752. doi: 10.1089/aid.2013.0194

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Copyright 2014, Mary Ann Liebert, Inc.

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FIG. 3. — Phylogenetic analysis of HIV-1 pol sequences coding the Pro and RT regions (2253–3179 bp) from subtype C samples analyzed in this study and reference sequences of subtype C and BC recombinants. The phylogenetic tree was constructed using the PhyML tool by the maximum likelihood method of phylogeny, the bootstrap method of branch support (100 replicates), and the GTR+gamma nucleotide substitution model. The optimization of the phylogenetic tree was carried out by FigTree v.1.3.1. Nucleotide positions are shown with respect to the HXB2 genome (GenBank number K03455). Samples from Khabarovsk and Vladivostok are marked as RU_KHB*** and RU_VLK***, respectively. Reference isolates are represented by their subtypes and sampling countries. Node support values as percentages are indicated at the nodes.