Fig. 3: CD161 and NKp44 discriminate functional ILC subsets at homeostasis.

a, Representative histogram (left) and contour plot (middle) of IFNγ expression in CD103⁺ and CD103⁻ ILC1s with quantification of percentage of IFNγ⁺ ILC1s (right) (n = 30). b, Histogram and contour plot of IFNγ expression in CD161⁺ and CD161⁻ ILC1s (left) (n = 30). Quantification of IFNγ⁺CD103⁻ and CD103⁺ ILC1s based on CD161 expression (right). c, Histogram and contour plot of IL-22 expression in ILC3 subsets (left) with quantification of percentage of IL-22⁺ ILC3 subsets (right) (n = 30). d, Histogram and contour plot of IL-22 expression in CD161⁺ and CD161⁻ ILC3s. Quantification of IL-22⁺CCR6⁺CD103⁺ and CCR6⁺CD103⁻ ILC3s based on CD161 expression (right) (n = 30). e, Representative contour plot of CD107a expression in FMO (left) and EM (right) ILCs. f, Histogram of CD107a expression in ILCs, NK cells and T cells. g, Contour plot of CD107a and CD117 in total ILCs. h, Contour plot of CD103 and CD107a in ILC3s. i, Histogram and contour plot of CD107a expression in all ILC subsets. j, Percentage of CD107a⁺ cells by ILC3 subsets. k, Percentage of CD107a⁺CCR6⁺CD103⁻ ILC3s by tissue (n = 24 tissues). l, Contour plot of CD161 and CD107a expression (left) and mean fluorescence intensity (MFI) comparison between CD107a⁺ and CD107a⁻ in n = 12 EM samples. m, Contour plot of NKp44 and CD117 (left) and percentage of NKp44⁺ ILC3s by tissue (right) (n = 17 tissues: EM, n = 7; END, n = 5; ECT, n = 5). n, Representative histogram of NKp44 expression in ILC subsets (left). Percentage of NKp44⁺ ILC3s by ILC3 subset (right) (n = 9 tissues). o, Contour plot of CD107a and NKp44 expression in EM (top) and END (middle) ILC3s. Percentage of NKp44⁺ ILC3s that are CD107a⁺ (bottom) (n = 10 tissues: EM, n = 5; END and ECT, n = 5). p, Contour plots representing IL-22 secretion during PMA stimulation for 1 h in NKp44^+/− ILC3s. Graph on the right represents the percentage of ILC3s positive for IL-22 secretion with and without stimulation (n = 6 tissues). q, Representative contour plots of CD107a expression in genital NKp44^+/− ILC3s with and without PMA stimulation. Graph on the right represents the percentage of ILC3s positive for CD107a with and without stimulation (n = 6). Each dot represents a biological replicate. Horizontal lines represent the median ± IQR. Statistical analysis was performed using the non-parametric Kruskal–Wallis test with Dunn’s post hoc test correction for multiple comparisons.

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