EZH2 binds to the MITR promoter and inhibits MITR expression in adipocytes but not in osteoblasts. A and B, human mesenchymal stem cell line 3A6 (MSC) was differentiated into osteoblasts (Ost.) and adipocytes (Adi.) for 7 days and analyzed for EZH2 expression by Western blotting (A) and EZH2-ChIP-on-chip assays (B). The total EZH2-targeted genes in undifferentiated MSCs, adipocytes, and osteoblasts are listed. C, EZH2-targeted genes were confirmed using real time RT-PCR. RNA expression in differentiated MSCs compared with parental MSCs is plotted. The data are expressed as mean ± S.D. CAST, calpastatin; PHTF1, putative homeodomain transcription factor 1; MITR, myocyte enhancer factor-2 interacting transcriptional repressor (also named histone deacetylase 9c, HDAC9c); NRG1, neuregulin; OSTF1, osteoclast stimulating factor 1; ZBTB10, zinc finger and BTB domain containing 10. D, protein expression levels of MITR in the indicated cells were analyzed using Western blotting analysis with indicated antibodies. E, protein expression levels of MITR in bone and adipose tissues from mice were examined using Western blotting analysis with indicated antibodies. F and G, binding of EZH2 and tri-methylated histone H3 at lysine 27 (H3K27me3) at MITR promoter during osteogenesis and adipogenesis were analyzed using quantitative ChIP assay. Cross-linked chromatin from MSC, osteoblasts (Ost.), and adipocytes (Adi.) was immunoprecipitated using EZH2 (F), H3K27me3 (G), or IgG antibodies. The input and immunoprecipitated DNA were subjected to PCR (upper panels) or real time PCR (lower panels) using primers corresponding to promoter region of MITR listed in supplemental Table 1. H, binding of EZH2 to MITR promoter during osteogenesis and adipogenesis was analyzed using EMSA. Biotin-labeled double-stranded oligonucleotides containing MITR promoter region was incubated with nuclear extracts harvested from differentiated osteoblasts and adipocytes (left panel). For the competition experiments, unlabeled cold competitive oligonucleotides were included in the reaction mixture. To verify the involvement of EZH2 in the complex, specific antibody against EZH2 was added to the reaction mixture (right panel). Oligonucleotides that contain EZH2-bound sequence of MITR promoter region were used for EMSA and are listed in supplemental Table 1.