Fig. 3: Dynamics of NK cell repertoire and activity in response to SIV infection in LN.

a Pie charts and arcs showing the proportion of different combinations of markers on NKG2a + NK cells isolated from LN during SIVmac (left panel) and SIVagm (right panel) infections, as analyzed using SPICE 5.3. b Frequency of NK cell subpopulations out of total NK cells in LN. Colors are the same as in Fig. 1. Cells were sampled before and during SIVmac and SIVagm infection (n = 6 animals per species) at the time point indicated by the X axis. The full line indicates the median, and the interquartile range is indicated by the area between the dotted lines. For Groups comparisons two-sided Wilcoxon signed-rank test with Bonferroni correction were used (n = 6). P values ≤ 0.05 were considered statistically significant. Asterix indicate significant change when compared to the base line. Exact P values are provided on the graphs. c Longitudinal profiles of intracellular levels of Perforin, interferon gamma, Ki-67, and surface level of CD107a on NK cell subsets ex vivo during SIVmac (left panel) and SIVagm (right panel) infections without any prior stimulation. The colors for each NK cell subpopulation are the same as in Fig. 1. Each symbol represents one monkey, the black line indicates the median and error bars the interquartile range. For group comparisons, two-sided Wilcoxon signed-rank test with Bonferroni correction was used (n = 6). P values ≤ 0.05 were considered statistically significant. Asterix indicate significant change when compared to the base line, graphically annotated as follows: *p < 0.05; **p < 0.01; ***p < 0.001; ****p < 0.0001. d, e Pearson correlation matrix between viral load in LN (ca-vDNA and ca-vRNA) and expression level of functional markers showed in Fig. 3c for d MAC and e AGM. The orange and blue colors indicate higher and lower r value. The p value is indicated by the size of the circle. All p and r values are given in the Data Source file.