Fig. 3: PCGF1 is involved in stabilizing H3K27me3 at TSS regions without impact on the enrichment of H2AK119ub1 and SUZ12 in target genes of IdHPCs. | Nature Communications

Fig. 3: PCGF1 is involved in stabilizing H3K27me3 at TSS regions without impact on the enrichment of H2AK119ub1 and SUZ12 in target genes of IdHPCs.

From: PCGF1-PRC1 links chromatin repression with DNA replication during hematopoietic cell lineage commitment

Fig. 3

a Target binding of KDM2B, BCOR, RING1B, H2AK119ub1, JARID2, SUZ12, H3K27me3 and PHC2 in control (Ctrl) and Pcgf1-KO (KO) IdHPCs. A heatmap of ChIP-seq signals across TSS( ± 10 kb) of C1, C2, C3, and C4 genes in control and Pcgf1-KO is shown. Local levels of RING1B and H2AK119ub1 were also tested in Ring1a/b-dKO (R1ABdKO) IdHPCs as controls. H3K27me3 ChIP-seq were calibrated by spike-in chromatin. Representative data of biological duplicates are shown except for RING1B ChIP-seq in Ring1a/b-dKO IdHPCs, which was obtained from a single experiment. b Box plot views for ChIP-seq results across TSS ( ± 5 kb) for RING1B, H2AK119ub1, SUZ12 and H3K27me3 in each cluster in control, Pcgf1-KO and (in the case of H2AK119ub1) Ring1a/b-dKO IdHPCs. Data in graphs represent means for two biologically independent experiments. The center circle indicates a median value and the boxes indicate 25th to 75th percentile. Each dot represents individual genes. The numbers beneath the graph are p-values between the control and Pcgf1-KO calculated with the Wilcoxon signed rank test. CPM: Counts Per Million. c ChIP-qPCR analyses for local binding of RING1B, H2AK119ub1, SUZ12 (PRC2), EZH2 (PRC2), H3K27me3, PHC2 (cPRC1) and BMI1 (cPRC1) at selected C1 and C2 genes in the control and Pcgf1-KO IdHPCs. Data represent mean ± SD of three independent experiments, except for ChIP for EZH2 which is derived from two independent analysis. The numbers on the graph are p-values between the control and Pcgf1-KO calculated with the Student’s two-sided t test.

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