FIG 4.

Examples of integration site (IS) nested PCR amplicons across HIV-1 host-virus junctions from various MDA reactions containing HIV-1 proviruses. IS PCR was performed on MDA reaction containing HIV-1 for which NFLPAS PCR generated a proviral amplicon. PCR wells that were positive by gel red dye screening were analyzed by 0.8% sodium borate agarose gel electrophoresis at 250 V for 15 mins with a GeneRuler 1-kb plus ladder. Each ladder separates different MDA reactions, as indicated by each lane label. In instances where PCR did not produce consistently sized amplicons or produced multiband PCR products, either incomplete restriction digestion occurred or there was more than one provirus in the MDA reaction (proviral mixture).