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. Author manuscript; available in PMC: 2019 Aug 1.
Published in final edited form as: J Acquir Immune Defic Syndr. 2018 Aug 1;78(4):367–375. doi: 10.1097/QAI.0000000000001695

Figure 2. Phylogenetic tree of HIV pol gene sequences showing transmission clusters.

Figure 2

Maximum-likelihood tree constructed for display purposes using sequences (n=800) identified in confirmed phylogenetic transmission clusters among 15,246 HIV-1 positive persons sampled in North Carolina 1997–2014. Confirmed clusters had posterior probability >0.98 in the Bayesian analysis and include at least one index or partner case identified during partner notification of new HIV diagnoses in Wake County, 2012–2013. Index cases (new diagnoses in 2012–2013) are indicated by red circles and partner cases are indicated with blue circles at the tips of the tree. Clusters in grey boxes involve ≥2 cases from the partner notification network. Clusters with letters (A–S) are the Wake clusters that meet these criteria and also include ≥5 persons statewide. Branch support, using the Shimodaira-Hasegawa-like test values, is included for the Wake clusters.