Phylogenetic network of HIV-1.

<p>Panel A depicts the network of the near full-length genome of a CRF_29 isolate (16704) and the conflicting relationship (green and red network) with its subtype B (Br02BR013) and subtype F (BZ126) lineages. Other references (subtype A, C, D) are also included. Numbers represent bootstrap support. Panel B depicts the network constructed with a recombination-free 3427-bp fragment and shows all isolates and CRFs branching off from the same node. The topology shows that there is no network between the distinct subtypes (subtypes A, B, C, D and F).</p

Bayesian tree constructed with a 3427-bp fragment free of recombinations to illustrate the common origin of all CRF_28 and CRF_29 isolates and other GWGR and GPGR Brazilian isolates.

<p>The yellow area delineates the cluster formed by the Brazilian isolates (blue letters). The grey area inside the Brazilian cluster denotes the group formed by CRF_28 and CRF_29. Sequences with GWGR at the V3 loop tetramer are indicated in pink letters in the tree. Argentinean isolates are indicated in green. Numbers in the nodes indicate the a posteriori support values. Subtype D sequences were used as outgroups in this tree (yellow letters).</p

Amino acids frequency at the second position of the GxGR tetramer of V3 loop of HIV-1 subtype B.

<p>*) Sequences from worldwide countries. All sequences were obtained from the Los Alamos HIV-1 database (<a href="http://www.hiv.lanl.gov/" target="_blank">http://www.hiv.lanl.gov/</a>).</p><p>P = proline; L = leucine; W = tryptophan; Q = glutamine;</p><p>F = phenylalanine; M = Methionine; R = Arginine.</p><p>Others =  alanine, lysine, serine, glycine, valine, histidine, threonine and tyrosine.</p