Phylogenetic analyses of DNA sequences derived from integrated virus in CD4⁺ memory T-cells.

<p>Phylogenetic trees were constructed using a neighbour-joining method with sequences from nucleotide 6 to 548 of the LTR derived from memory CD4⁺ T-cells prior to the initiation of cART (<i>open symbols</i>), after at least 18 months of cART (<i>closed symbols</i>) in four participants and the consensus sequence from NL4-3 (square symbol). Arrows indicate clones selected at random for cloning into pCEP4. Scale-bars indicate genetic distance (e.g., 0.01 = 1% genetic distance). Bootstrap values of &gt;75 are shown on branches. All hypermutated clones (<i>P</i>&lt;0.05 analysed on Hypermut V2.0) were excluded from the analysis.