Fig. 1. MI induces focal IFNIC colonies at BZs in mice.
Spatial transcriptomics analysis of short-axis sections from infarcted mouse hearts at day 3 (D3) after MI. a,b, BZ gene scores (Supplementary Table 2) for 2 WT (a) and 1 Irf3−/− (b) hearts. c,d, Ischaemic zone gene scores for 2 WT (c) and 1 Irf3−/− (d) hearts. e,f, Ifit1 gene expression for WT (e) and Irf3−/− (f) hearts. g–l Magnified view of representative ISGs Ifit1 (g) and Rsad2 (i) and the summed ISG score count score (k). Quantification of Ifit1+ (h) and Rsad2+ (j) spots per section, and IFNIC colony sizes (l) in day 3 WT hearts compared with in day 3 Irf3−/− hearts. n = 3 (Irf3−/−) and n = 5 (WT) mice. m,n, Moran’s I test statistics of the top 2,000 variable features with annotated ISGs within represented samples in WT (m) and Irf3−/− (n) hearts. o, ISG cluster localization to the infarct BZ determined by permutation testing of randomly placed ISG clusters of different sizes in each WT day 3 sample. n = 5 WT mice (Supplementary Fig. 3c). p, Representative in situ hybridization staining of Nppa (blue) and Ifit1 (magenta) transcripts. q, The time course of cardiac spatial transcriptomic patterns (left) of the BZ gene score (top) and Ifit1 (bottom) for sham, 1 h, 4 h, day 1, day 3, day 7 and day 28 after MI. Data were analysed using two-tailed Student’s t-tests (h, j and l), one-sided Moran’s I test statistic with Benjamini–Hochberg false-discovery rate (FDR) adjustment (m and n), and values derived from Monte Carlo simulation of autocorrelation coefficients were compared to observed values using two-sided Fisher’s exact tests with Yates’ correction (o); *P < 0.05, **P < 0.001, ***P < 0.0001. Data are mean ± s.e.m. Results in a–p are representative of three independent repeated experiments. Detailed statistics for null-hypothesis testing are provided in Supplementary Table 1. Scale bars, 500 μm (a–f, o (left), p and q) and 200 μm (g, i, k and o (middle and right)).