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. 2013 Dec 26;10:162. doi: 10.1186/1742-4690-10-162

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Copyright © 2013 Pena-Cruz et al.; licensee BioMed Central Ltd.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

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Epidemiologically linked partner’s HIV-1 envelope sequences are phylogenetically linked. Full-length HIV-1 envelope transmitter (gray) and recipient (red) sequences were aligned with subtype reference sequences from the Los Alamos database using Clustal X. Paup was used to generate the maximum likelihood tree using parameters from FindModel best fit evolutionary model. Bootstrap values from 100 replicates were generated from a neighbor joining tree and are noted on each node of interest. Couple IDs and HXB2 reference outgroup node are noted.