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Fig. 1 Spatiotemporal scRNA-seq analysis during lateral line HC regeneration (A) 5dpf Tg(she:H2A-mCherry) larvae were used for FACS of lateral line cells. (B–D) Illustration of homeostatic lateral line cell types. (B and D) Dorsal view and (C) lateral view. (E) Experimental timeline of scRNA-seq sample collection. Maximum intensity projection of confocal images of Tg(myo6b:H2B-mScarlet-I/Et20:GFP) neuromasts during HC regeneration. This transgenic line shows the HCs more clearly than the Tg(she:H2A-mCherry) line that was used for sorting. Scale bar, 20 μm; arrow indicates two new HCs. (F) Integration of scRNA-seq samples of seven different time points in UMAP latent space. (G) UMAP of a cluster analysis identifies eight different neuromast cell types. (H) Heatmap visualizing the top 25 genes in each time point during HC regeneration. (Differential gene expression analysis of each time point versus all other time points). (I–M) UMAPs of subsetted (I) central SCs, (J) A/P cells, (K) D/V cells, (L) HC progenitors, and (M) young HCs with bar graphs showing the number of upregulated and downregulated genes during regeneration (differential gene expression analysis of each time point versus homeostasis in individual cell type).
Reprinted from Developmental Cell, 57(6), Baek, S., Tran, N.T.T., Diaz, D.C., Tsai, Y.Y., Acedo, J.N., Lush, M.E., Piotrowski, T., Single-cell transcriptome analysis reveals three sequential phases of gene expression during zebrafish sensory hair cell regeneration, 799-819.e6, Copyright (2022) with permission from Elsevier. Full text @ Dev. Cell