Changes in immunological parameters and compartmentalisation of the virus in various cell subtypes in the peripheral blood during the chronic phase of infection. (A) Changes in the total number of CD4+ T cells and of their various subtypes, such as naive, central memory and effector memory cells, in the peripheral blood between set point on day 100 pi and 2 years pi. (B) Changes in plasma viral RNA, viral DNA, and 2LTR circle levels in PBMCs between set point on day 100 pi and 2 years pi. (C) Distribution of viral RNA, viral DNA and 2LTR circles in naive, central memory and effector memory lymphocyte subsets and in CD14+ monocytes from PBMCs, during chronic infection. The cell sorting was performed twice from each animal and each RT-PCR or PCR was quantified in duplicate.