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. 2007 Dec 4;4:87. doi: 10.1186/1742-4690-4-87

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Copyright © 2007 van Marle 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.

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Bootstrap Neighbor-Joining tree of the sequences of the Nef encoding region obtained from gut tissues. Nef sequences clustered by individual patients (indicated by colors). Closer examination of these sequences revealed clustering of Nef sequence by tissue compartment (esophagus (E), stomach (S), duodenum (D), colorectum (C) and PBL) within patients, indicative of compartmentalization of viral replication in the gut, resulting in the evolution of different HIV-1 quasispecies in different parts of the gut. (Bootstrap values > 70 are indicated.)