Figure 3 - figure supplement 1

Figure 3 - figure supplement 1

(A,B) A heatmap of signature mesenchyme identity genes within the major cell type classified cells at 48–50 and 68–70 hpf, respectively. Relative expression levels within each cluster is summarized within the color key, where red to blue color indicates high to low gene expression levels. (C) A cluster tree depicting the relationship between general and chondrogenic mesenchyme cellular subtypes. (D) Violin plots summarizing the expression levels for select mesenchyme identity markers within individual clusters at the 48–50 and 68–70 hpf time points, respectively. Data points depicted in each cluster represent single cells expressing each gene shown. (E,L) tSNE plots depicting the co-expression of twist1a (blue) and barx1 (red) or prrx1b (blue) and barx1 (red) in the 48–50 and 68–70 hpf datasets, respectively. Relative expression levels are summarized within the color keys, where color intensity is proportional to expression level of each gene depicted. (F–K) Whole mount HCR analysis reveals the spatiotemporal expression of prrx1b (F), barx1 (G), twist1a (H), sox10:GFP (J) in 48 hpf embryos. (I) A merge of barx1, prrx1b, and twist1a is shown. (K) A merge of barx1, prrx1b, twist1a, and sox10:GFP is shown. White arrowheads denote expression in posterior pharyngeal arch, while yellow arrowheads highlight fin bud expression. (M–R) Whole mount HCR analysis reveals the spatiotemporal expression of prrx1b (M), barx1 (N), twist1a (O), sox10:GFP (Q) in 68 hpf embryos. (P) A merge of barx1, prrx1b, and twist1a is shown. (R) A merge of barx1, prrx1b, twist1a, and sox10:GFP is shown. White arrowheads denote expression in posterior pharyngeal arch, while yellow arrowheads highlight fin bud expression. Ot: otic; Fb: Fin bud. Scale bar: 100 µm.