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. 2011 Nov 2;6(11):e27211. doi: 10.1371/journal.pone.0027211

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The relevant regions of the HIV genome are shown (adapted from [39]). Numbers at the ends of each genomic segment correspond to coordinates in HXB2 (Genbank accession number: K03455). The amplicons used for HRM diversity analysis (regions analyzed) are indicated by shaded boxes. (A) Gag and pol amplicons: The GAG1 amplicon includes a portion of the coding regions for gag p7 and gag p1. The GAG2 amplicon includes the coding regions for gag p1 and gag p6 and extends into the coding region for HIV protease (PR); this amplicon also corresponds to the transframe (TF) protein. The POL amplicon spans the junction between the coding regions of HIV protease and HIV reverse transcriptase (RT). (B) Env amplicons: The ENV1 amplicon includes the coding region for heptad repeat 1 (HR1) of gp41, as well as portions of the coding regions to either side of HR1. The ENV3 amplicon includes the coding region for heptad repeat 2 (HR2), as well as portions of the coding regions to either side of HR2. The ENV2 amplicon includes the coding region for immunodominant region (IDR) cluster I of gp41, as well as portions of the coding regions for HR1 and HR2 [33].