Fig. 6: Somatostatin, Calbindin and NPY are pivotal interneuron markers co-expressed in Kcc2 gene Slc12a5 expressing Ins. | Nature Communications

Fig. 6: Somatostatin, Calbindin and NPY are pivotal interneuron markers co-expressed in Kcc2 gene Slc12a5 expressing Ins.

From: Functional KCC2 expression marks an evolutionarily conserved population of early-maturing interneurons in the perinatal cortex

Fig. 6

a UMAP plot depicting the time points of sample origin in the analyzed data set. We utilized data sets of embryonic day 13–18 and post-natal day 1. b UMAP plot of IN clusters found in the data set (c). Dot plot quantifications of enrichment of Kcc2 (Slc12a5), Sst, Npy, Calb, Gad1, Gad2, Dlx2, Htr3a, Lhx6, Nxph1, Nxph2, Pax6, Sp8, Cxcl14, and Meis2. d UMAP plot depicting Kcc2 gene Slc12a5 enrichment in IN populations. e Similar UMAP plots depicting gene enrichments of Sst, Npy, Calb1, Gad1, Gad2, and Htr3a in IN populations. Total INs in UMAPs: n = 4785. DEG analysis was done in Kcc2 expressing IN clusters, n = 4 animals, with 2579 cells (see “methods” and Supplementary Data for details), of which 242 were Kcc2 positive and 2337 Kcc2 negative. f Upset plot illustrating the intersection sizes among Kcc2-positive cells expressing canonical interneuron marker genes (Gad1, Gad2, Sst, Npy, Calb1, and Htr3a) in the perinatal cortex. Horizontal bars (right) show the total number of Kcc2-positive cells expressing each marker gene (set size). Vertical bars (top) indicate the size of each intersection, i.e., the number of Kcc2-positive cells co-expressing the indicated combination(s) of marker genes (highlighted by filled dots below each bar). The largest intersection corresponds to Kcc2-positive cells co-expressing Gad1 and Gad2, with additional subsets defined by co-expression with Sst, Npy, Calb1, and Htr3a. Table below plot showing the fold difference (observed/expected) and Bonferroni-adjusted p values (P.adj bonferroni) for the enrichment of canonical interneuron marker genes (Sst, Npy, Calb1, Gad1, Gad2, and Htr3a) among Kcc2-positive cells. Positive values indicate over-representation, while negative values indicate under-representation relative to expectation. Statistically significant enrichment or depletion (P.adj < 0.05) is observed for Sst, Npy, Calb1, Gad1, and Htr3a, highlighting distinct molecular profiles within the early-maturing Kcc2-positive interneuron population. g Quantification of percentages of co-expression of Kcc2 in INs expressing discrete markers. Source data are provided as a Source data file.

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