Fig 2.

Allele-specific PCR analysis of E138 substitutions selected in viral isolates from acute HIV-1 infections harboring wild-type and G190A viral quasispecies under etravirine pressure. Raw data from the AS-PCR analysis of E138A/G/K/Q are presented. These selections were also screened for E138R and E138V minority species by AS-PCR; however, E138R and E138V were never present at levels above the sensitivity of the assay. The shaded areas indicate time points at which E138K was measurable by bulk sequencing. Open symbols indicate proportions of mutated viruses at levels below AS-PCR sensitivity. Closed symbols show the proportions of mutants above the levels of AS-PCR sensitivity. (A) Etravirine selection experiments performed in CBMCs using viral samples taken from the plasma of HIV-1 subtype B infected, drug-naive patients. (B) Etravirine selection experiments performed in CBMCs with viral samples taken from the plasma of an HIV-1 subtype C-infected, drug-naive patient. (C) Approximate decrease in observed proportion caused by primer-binding site mismatches, determined by comparing the observed proportion of E138K at points when E138K was measurable by both AS-PCR and bulk sequencing. The sequences are arranged from 5′ to 3′.