Extended Data Fig. 1: Phenotype and function of tissue CD8⁺ T cells in acute or chronic infection.

a, P14 T cells isolated from tissues 30 dpi with LCMV Arm or Cl13. b, Viral titers 28-32 dpi. c, Marker expression by P14 cells 30 dpi. d, Frequency (^†) or absolute number (^*) of CD69⁺CD103⁺ P14 cells in SG. Data points represent mean; shading represents 95% confidence interval. e, Geometric mean fluorescence intensity (gMFI) of markers in CD69⁺CD103⁺ P14 cells 30 dpi from the SI of Arm (T_RM) or Cl13 mice, or Arm Spl T_CIRCM. f, g, Marker expression by P14 T cells from Spl (f) or SI (g) 30 dpi. h, Frequency of Ly108⁻CX3CR1⁻ cells within total P14 (Spl), CD69⁺CXCR6⁺ P14 (Liv or Kid) or CD69⁺CD103⁺ P14 cells (SG, SI) 30 dpi. i, gMFI of markers in CD69⁺CD103⁺ P14 cells isolated 30 dpi from the SI of Arm (T_RM) or Cl13 mice, or Arm Spl T_CIRCM. j, CD39 expression in P14 cells 30 dpi. k, Marker expression in CD69⁺CD103⁺ (SI, SG) or CD69⁺CXCR6⁺ (Liv) P14 cells from Arm or Cl13-infected mice compared to Arm Spl T_CIRCM and Cl13 Spl T_EX-TERM 30–40 dpi. Dashed line indicates average in Arm Spl T_CIRCM. l, Cytokine production by Arm Spl T_CIRCM, CD69⁺CD103⁺ P14 from Arm SI (T_RM) or Cl13 SI (l, m) or CD69⁺CD103⁺ P14 from Arm SG or Cl13 SG (m) or CD69⁺CXCR6⁺ Arm Liv or Cl13 Liv 30–40 dpi following in vitro gp_33-41 peptide stimulation. n, Ratio of Bim and Bcl2 gMFI in CD69⁺CD103⁺ P14 from SI or SG of Arm (T_RM) or Cl13 mice 15-25 dpi. Data are pooled from (a, b, d, h, j, m, n) or representative of (c, e, f, g, i, k, l) 2–3 independent experiments with n = 10 (a, c), 7 or 18 (b), 11-18 (d), 4 or 5 (e), 4–5 (f, g), 10 (h), 4 or 5 (i), 10 (j), 4–5 (k), 4-6 (l), 9 or 10 (m) and 6 (n) mice per group.* or ^† p < 0.05, ** p < 0.01, *** p < 0.001, **** p < 0.0001 two-tailed Mann–Whitney test (a, c, d, e, h, i, j, m), two-sided Wilcoxon signed-rank test (n). Bars represent the mean.