Fig. 8.

ISL1 binds regulatory elements of critical developmental genes and reprograms the H3K27me3 landscape in endocrine cells. a Pie chart showing genomic distribution of ISL1 loci. b Venn diagram indicating overlap of ISL1-loci, and of distinctive H3K27me3 loci from pairwise comparisons control and Isl1CKO endocrine cells at E14.5 in promoter regions (Additional file 7: Dataset S2). c Sequence logos of the significantly enriched motifs against ISL1 peaks (2 kb areas) from Homer FindMotifsGenome analysis. Percent of target sites in ISL1 peaks is indicated. d Venn diagrams illustrating intersection of ISL1-bound genes, genes with differential H3K27me3 depositions from pairwise comparisons of control and Isl1CKO endocrine cells at E14.5, and differentially expressed genes at E14.5 identified from RNA-seq data. e Sequence logos of the significantly enriched motifs against ISL1 peaks containing H3K27me3 peaks (2 kb areas) from Homer FindMotifsGenome analysis. f Genome track view of representative gene loci showing ISL1 and H3K27me3 normalized read peaks based on CUT&Tag-seq data from E14.5 endocrine cells (an arrow indicates a TSS). The presence of both marks at the promoter region indicates overlapping occupancy of silencing methylation signature of H3K27me3 and ISL1. g Venn diagrams indicating overlap of ISL1-bound genes and genes with distinctive H3K27me3 depositions from pairwise comparisons P9 control and Isl1CKO endocrine cells, and differentially expressed genes identified from RNA-seq data at P9 (Additional file 8: Dataset S3). h and i Genome track view of representative gene loci showing ISL1 and H3K27me3 normalized read peaks based on CUT&Tag-seq data. The presence of both marks at the promoter region indicates overlapping occupancy of silencing methylation signature of H3K27me3 and ISL1 in upregulated (h) and downregulated (i) genes. Samples used for comparison: ISL1-CUT&Tag-seq E14.5 endocrine cells, and H3K27me3-CUT&Tag-seq P9 endocrine cells