Extended Data Fig. 12: Gene expression patterns in immature neuronal populations and RMS astrocytes.
From: A high-resolution transcriptomic and spatial atlas of cell types in the whole mouse brain
(a) UMAP representation of immature neuron populations colored by supertype. Maturation trajectories in dentate gyrus (DG) (b), inner olfactory bulb (c), and outer olfactory bulb (d) are highlighted. (b-d) Representative MERFISH sections showing location of immature neuronal supertypes from the three trajectories shown in (a). (e-g) Heatmap showing gene expression changes as immature neurons transition to mature cell types, conserved between OB (left) and DG (right) cell type development (e), specific to OB cell types (f), and specific to DG cell types (g). Key marker genes at each stage of development are highlighted. It seems, however, that the scRNA-seq data might not have captured all cell states along the DG maturation trajectory based on the gaps between clusters in the UMAP and absence of expression for genes like Ascl1, Pax6, Top2a, and Mki67 along the DG trajectory. Various studies have tried to capture the transitional states between neural stem and neuronal progenitor cells in the DG with most making use of transgenic mice to isolate specific states142,143. (h) MERFISH sections showing the co-localization of immature neurons and astrocytes in the rostral migratory stream (RMS). The dashed boxes in (d) show the location of the highlighted regions in (h). (i) Heatmap showing gene expression changes in astrocytes associated with the RMS from SVZ to OB. Highlighted genes are conserved between the RMS-associated astrocytes and the OB trajectory.
