Alignment of partial envelope protein sequences from multiple SIVagmVer isolates.

<p>PCR-derived <i>env</i> nucleotide sequences were translated, aligned with previously reported SIVAGM <i>env</i> sequences <a href="http://www.plospathogens.org/article/info:doi/10.1371/journal.ppat.1003011#ppat.1003011-Kuiken1" target="_blank">[133]</a> and compared with a consensus sequence generated by BioEdit. Dots denote sequence identity with the consensus sequence, while dashes represent gaps introduced to optimize the alignment. Triangles (∧) denote N-linked glycosylation sites. Bullets (•) mark CD4 binding sites. V3, V4 and V5 designate hypervariable SIVagm Env domains as previously described <a href="http://www.plospathogens.org/article/info:doi/10.1371/journal.ppat.1003011#ppat.1003011-Jin1" target="_blank">[10]</a>. The envelope precursor cleavage site is indicated by an arrow above the consensus sequence. Strain nomenclature includes the identification number, monkey status (M-male, F-female; I-infant; J-juvenile and A-adult), and the site and the state of origin (FS-Free State; KZN-KwaZulu Natal; EC-Eastern Cape).