Figure 4. Comparison of HIV DNA levels and reservoir composition by NFL sequencing in T_N versus T_SCM cells for Subject 2.

The sorting experiment described in Figure 1 was repeated, separating T_SCM from CD95^– T_N cells. CD95^– T_N cells were defined as CD45RA⁺CCR7⁺CD27⁺CD95^– cells, while T_SCM cells were defined as CD45RA⁺CCR7⁺CD27⁺CD95⁺ cells. Sorted cells were used to measure HIV DNA levels by qPCR and to obtain proviral sequences. These proviral sequences were used to generate deletion maps, as described in Figure 3. T_SCM and CD95^– T_N cells had similar levels of intact HIV, with a higher fraction of clones in T_SCM cells.