Bisulfite sequencing analysis of DNA methylation. A, methylation levels of Dlx5, Hoxa10, Runx2, Bglap, and Osterix promoters were analyzed in undifferentiated ADSCs and after 6 days of osteogenic induction. In both undifferentiated and osteogenic differentiated ADSCs, the CpG islands in the Dlx5 promoter from +190 to +375 and the Hoxa10 promoter from −189 to +31 were totally unmethylated, and the Col1 promoter from −1628 to −1334 was also unmethylated. In contrast, the percentage of methylated CpGs in medium CpG density regions of Dlx5, Hoxa10, Runx2, and Bglap promoters was more than 80% in undifferentiated ADSCs and that in the Osterix promoter was 25%. After differentiation, most methylated gene promoters were partly demethylated except Hoxa10. B, percentage of individual methylated CpGs (closed circles in A) in undifferentiated (solid line) or osteogenic differentiated ADSCs (dashed line). The demethylation of CpGs was largely restricted to particular sites, such as the 6th and 7th CpG in the Dlx5 promoter, the first three CpGs in the Runx2 promoter, the 2nd CpG in the Bglap promoter, and the 4th to 12th CpGs in Osterix promoter. CpG sites (tick marks) in the regions analyzed by bisulfite sequencing are underlined by black bars. Numbers are relative to the transcription start site (TSS). Each row represents one bacterial clone with one circle symbolizing one CpG. Closed circles, methylated CpG; open circles, unmethylated CpG.