Figure 3
Single-cell RNAseq analysis shows that Igsf3 is the only IGSF member that is expressed by the neural crest cells. (A) Large panel in the left upper corner displays the t-SNE embedding showing the cell clusters of E8.5 Wnt1-Cre; R26Tomatoembryo. The image is adopted from the original analysis and annotations of the source data, of which our analysis is based on23. The early neural crest comprises of three spatially distinct clusters including a Hox-negative (–) corresponding to the anterior cranial neural crest, Hoxb2-positive ( +) corresponding to the mandibular level, and HoxD3-positive ( +) corresponding to the post-otic (including cardiac and vagal) streams of the neural crest23. Single cell RNA sequence analysis reveals the expression of different Igsf members in the distinct cell clusters defined respectively by Sox10 (NC cells) and Sox2 expression (NT cells). Igsf3 is the only family member expressed solely by the neural crest cells at E8.5. The other IGSF members are expressed about equally by both cell clusters or preferentially by the neural tube cell cluster. Expression of Igsf5 and Igsf23 was not detected at E8.5. (B) Large panel in the left upper corner displays the t-SNE embedding showing the cell clusters of mouse E9.5 Wnt1Cre/R26RTomato embryo and reflects the spatiotemporal properties of neural crest (NC) development, as adopted from the original analysis of the source data23. These neural crest cell clusters are classified into the following major subpopulations such as pre-EMT, delaminating and migrating neural crest, sensory neurons, autonomic neurons, and mesenchyme23. Single cell RNA sequence analysis at E9.5 represented as t-SNE plot reveals the expression of various IgSF members in different neural tube (NT) and neural crest (NC) cell clusters defined by Sox10 and Sox2 expression, respectively. Igsf3 is expressed in the NC and its derivative cell clusters also at this stage. Igsf8 and Igsf9 are predominantly expressed in the NT population, while Igsf10 and Igsf9b are detected about equally in the NC and NT cells, and Igsf11 shows a slight preferential expression in the NC cell cluster. (C) At E10.5, the choroid plexus and NC cells specifically express Igsf3, but other Igsf members are not co-expressed in these cells.
