Fig. 2: Cellular and molecular changes in the AT2 cells during RILI reveal a transdifferentiation profile after fibrogenic doses of IR.
From: An interactive murine single-cell atlas of the lung responses to radiation injury
a Dynamics in the proportion of the AT2 cells in the NI (n = 5) and at the different time points after IR10Gy (n = 1) and IR17Gy (n = 2). Error bar refers to the standard deviation of the data. b Automatic Lamp3 mRNA (orange) detection with Big-FISH in NI, IR5M10Gy, and IR5M17Gy lung tissue sections. Inset top panel shows an AT2 cell; inset bottom panel shows the convex hull of a cluster of mRNA spots. Scale bars, 10 µm. c Quantification and cell volume estimation of the Lamp3+ cells in NI, IR5M10Gy, and IR5M17Gy lung tissue sections. To compare two groups, the P value was computed with the Mann–Whitney–Wilcoxon test (two-sided test) from scipy (n/s, adjusted p value >0.05; *, adjusted p value <0.05; **, adjusted p value <0.01; ***, adjusted p value <0.001; ****, adjusted p value <0.0001). Each dot represents one analyzed image. Each color per time point represents a different biological replicate (NI n = 3; IR5M10Gy n = 3; IR5M17Gy n = 5). d Dynamics in the significantly upregulated genes in the AT2 cells compared to the NI samples at the different time points after IR10Gy and IR17Gy. e Violin plot showing the single cell score calculated based on the transdifferentiation expressed genes in the AT2 cells. f UMAP visualization of the different AT2 cell subpopulations. g Violin plot showing the single cell score calculated based on the transdifferentiation expressed genes in the different AT2 cell subpopulations. h UMAP visualization of the expression of Krt8. i Violin plot of Krt8 expression in the AT2 cells cluster three in the NI samples and at the different time points after IR10Gy and IR17Gy.
