Extended Data Fig. 2: Effectiveness of CD8⁺ T cell depletion, longitudinal CD8⁺ T cell frequencies, Ki-67, and PD-1 expression.

a. Representative flow cytometry shows the absence of CD8β⁺ cells 7 days post-depletion in the peripheral blood. b. Comparison of CD8β⁺ frequency to pre-depletion baseline calculated in all CD8⁻depleted macaques (n = 16). For figures c–i: Blue triangle indicates SIVmac239M infection, red triangle indicates CD8⁺ T cell depletion prior to infection, orange triangle indicates CD8⁺ T cell depletion prior to ART initiation. Grey box represents ART. c. Lymph node CD8⁺ T cell kinetics in Pre-infection CD8⁺ depletion group (n = 8 macaques, magenta line), Pre-ART CD8⁺ depletion group (n = 8 macaques, teal line), and control group (n = 5 macaques, black line). Data are mean ± s.e.m. In Figures c–i: lines on each graph represents individual animals in each study group and indicated in key under each column of graphs. d, e. Longitudinal CD8⁺ T cell percentage in peripheral blood (d), lymph node biopsies (e) in the three experimental groups. f,g. Longitudinal flow cytometry analysis of Ki-67 expression in bulk CD8⁺ T cells after CD8⁺ T cell depletion in peripheral blood (f) and lymph node biopsies (g). h, i. Longitudinal flow cytometry analysis of PD-1 expression in bulk CD8⁺ T cells after CD8⁺ T cell depletion in peripheral blood and lymph node biopsies.