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. 2018 Oct 30;8:16046. doi: 10.1038/s41598-018-33996-6

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© The Author(s) 2018

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Phylogenetic trees of sequences with CRF07_BC (A) and CRF01_AE (B) infection. The phylogenetic tree was constructed using the approximately-maximum-likelihood method based on the pol region (HXB2: 2, 253 to 3, 312 nt) in FastTree 2.3. The nucleotide substitution mode was GTR + G + I. Bootstrap values ≥0.9 were used to identify lineages and were indicated at all relevant nodes. Genetic transmission clusters were defined by node support thresholds ≥95% and intra-cluster maximum pairwise genetic distances <3.0% nucleotide substitutions per site. Transmission clusters were depicted in red. Blue branches represented the sequences from Guangyuan. HIV-1 subtype J (A) and C (B) were chosen as an out-group in the rooted tree.