Fig. 1: Single-cell RNA-seq of NCCs from mouse embryos at E8.5-E10.5 reveals transcriptional heterogeneity within the pharyngeal region. | Nature Communications

Fig. 1: Single-cell RNA-seq of NCCs from mouse embryos at E8.5-E10.5 reveals transcriptional heterogeneity within the pharyngeal region.

From: Single-cell transcriptomics uncovers a non-autonomous Tbx1-dependent genetic program controlling cardiac neural crest cell development

Fig. 1

a–c Wnt1-Cre;ROSA-EGFP genetic lineage tracing shows the distribution of NCCs within the pharyngeal region and outflow tract of E8.5 (a), E9.5 (b), and E10.5 (c) embryos. The region rostral to the white dotted line of the embryo at E8.5 (a) and the pharyngeal region between the dotted lines in embryos at E9.5 and E10.5, including the heart were microdissected and EGFP-positive NCCs were used for scRNA-seq. d–f Seurat UMAP (Uniform Manifold Approximation and Projection) plots with cluster annotations of scRNA-seq data of NCCs at E8.5 (d), E9.5 (e), and E10.5 (f). g–i Expression of genes at E8.5 (g), E9.5 (h), and E10.5 (i) with highest expression in blue and lowest expression in gray. j–l Wholemount RNAscope in situ hybridization of Wnt1-Cre;ROSA-EGFP embryos (n = 3) at E8.5 (j), E9.5 (k), and E10.5 (l) with probes for Sox10, Hoxb3, and Egfp, together and separated (colors are indicated above embryos). Twist1 expression was analyzed at E8.5, E9.5, and E10.5 and Hoxa2 was examined at E9.5 as indicated. PA pharyngeal arch, OFT outflow tract, OV otic vesicle, SM-CNCCs smooth muscle CNCCs. Scale bar: 100 μm in j, 200 μm in k, and 300 μm in l.

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