Extended Data Fig. 5: Focused analyses of myocardial populations and spatial validation of RV markers.
From: Single-cell analysis of cardiogenesis reveals basis for organ-level developmental defects
a, UMAP plot of reclustered ‘myocardium’ population coloured by cluster and embryonic stage of collection. b, Heat map of highly and uniquely expressed genes in myocardial subpopulations. Scale indicates z-scored expression values. Statistics for differential gene expression tests were applied to n = 6,474 cells. c, UMAP plot of reclustered ventricle populations coloured by cluster and embryonic stage of collection. d, Heat map showing curated list of genes that identify LV, RV and early RV cells. Scale indicates z-scored expression values. Statistics for differential gene expression tests were applied to n = 1,976 cells. All genes represented in b, d, have a Bonferroni correction adjusted P < 1 × 10−4 (two-sided Wilcoxon rank-sum test). e, mRNA expression of LV marker Hand1 (green) and Pln (red) in frontal view of the E9.5 heart showing enrichment of Pln in the RV region by whole-mount in situ hybridization. n = 2 independent embryos per gene. Scale bar, 200 μm. f, Breeding scheme for lineage-tracing Cck expressing cells. g, mRNA expression of endogenous Cck and TdTomato driven by Cck-cre transgene at E9.25 in right oblique view of the heart. n = 2 independent embryos per gene. Scale bars, 200 μm. h, Expression of TdTomato in whole-mount and sectioned P1 heart from Ai14 × Cck-cre lineage-traced mice showing location of progeny of Cck-expressing cells. Left panels show bright-field view (top) or TdTomato (bottom) of whole-mount P1 heart; right panels show sections of TdTomato and DAPI (top) or TdTomato alone (bottom) in P1 heart section. n = 2 independent embryos. Scale bars, 100 μm. A, atria; V, ventricle.
