Figure 1.

Characteristics of animals over the course of Mtb infection and granuloma bacterial burden

(A) Study design: cynomolgus macaques (n = 4) were infected with a low-dose inoculum of Mtb (Erdman strain), and serial PET-CT scans were performed at four, eight, and 10 weeks post-infection (p.i.), with the final scan used as a map for lesion identification at necropsy.

(B) Distribution of CFU per granuloma sampled for Seq-Well assay for each animal.

(C and G) CFU log₁₀ per granuloma (total live bacteria). Box plot showing median, interquartile range, and range with MWU.

(D and H) CEQ log₁₀ per granuloma (live + dead Mtb) organized by time of detection. Box plot showing median, interquartile range, and range with MWU.

(E and I) Ratio between CFU (viable bacteria) and CEQ (total bacterial burden)—i.e., relative bacterial survival. Box plot showing median, interquartile range, and range with MWU. Lower ratio (negative values) corresponds to increased killing, and higher ratio corresponds to increased Mtb survival.

(C–E) Organized by bacterial burden: low, green; high, orange.

(F) Individual granuloma bacterial burden (log₁₀ CFU) plotted with time of detection by PET-CT scans: four weeks p.i. (early) or 10 weeks p.i. (late).

(F–I) Time of detection by PET-CT scan (Table S1): early granulomas (maroon), late granulomas (blue).

(J) Histological evaluation of necrosis across early-arising and late-arising granulomas at 10–12 weeks post-infection (n = 87 granulomas across 16 macaques).

See also Figures S1, S3, and S6; Table S1.