Fig. 4: Single-nucleus RNA sequencing shows endpoint differentiation cell-types in DD28 control and DE organoids.
From: Axial nephron fate switching demonstrates a plastic system tunable on demand
a Annotated unsupervised clustering of integrated PAX2+ nephron-like DD28 control and DE organoid cells represented in a UMAP. (Inset) Sample contribution of each condition. b Feature plots of nephron marker expression in DD28 organoids showing podocyte-, PEC-, proximal tubule-, loop of Henle-, and distal tubule-like cells. c–e Immunofluorescent stains of DD28 control and DE organoids showing detection of glomerular, proximal tubule, loop of Henle/macula densa, and DCT precursor markers. Biological replicates (n > 4) showed similar results. Scale bar: 50 microns. f UMAP of adult human kidney snRNAseq data (44,774 cells) with ‘subclass.l1’ annotations, including nephron (pink border) and ureteric epithelia (gray border). g UMAP of adult human kidney (reference) overlaid with DD28 control and DE organoid reference mapping. h Bar plot showing number of organoid cells mapping to each predicted cell type in control (top) and DE (bottom) organoids. Numbers above bars denote prediction score for each cell type. i Feature plots showing detection of select TAL-enriched ion transporters in DD28 organoids. j Illustration of cell type enrichment in DD28 DE organoids.
