Cell type-specific methylation profiles occurring disproportionately in CpG-less regions that delineate developmental similarity

Hideki Sakamoto, Masako Suzuki, Tetsuya Abe, Tohru Hosoyama, Emi Himeno, Satoshi Tanaka, John M. Greally, Naka Hattori, Shintaro Yagi, Kunio Shiota

研究成果: Article

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Our previous studies using restriction landmark genomic scanning (RLGS) defined tissue- or cell-specific DNA methylation profiles. It remains to be determined whether the DNA sequence compositions in the genomic contexts of the Not I loci tested by RLGS influence their tendency to change with differentiation. We carried out 3834 methylation measurements consisting of 213 Not I loci in the mouse genome in 18 different tissues and cell types, using quantitative real-time PCR based on a V irtual image rlgs database. Loci were categorized as CpG islands or other, and as unique or repetitive sequences, each category being associated with a variety of methylation categories. Strikingly, the tissue-dependently and differentially methylated regions (T-DMRs) were disproportionately distributed in the non-CpG island loci. These loci were located not only in 5′-upstream regions of genes but also in intronic and non-genic regions. Hierarchical clustering of the methylation profiles could be used to define developmental similarity and cellular phenotypes. The results show that distinctive tissue- and cell type-specific methylation profiles by RLGS occur mostly at Not I sites located at non-CpG island sequences, which delineate developmental similarity of different cell types. The finding indicates the power of Not I methylation profiles in evaluating the relatedness of different cell types.

元の言語English
ページ(範囲)1123-1132
ページ数10
ジャーナルGenes to Cells
12
発行部数10
DOI
出版物ステータスPublished - 2007 10
外部発表Yes

ASJC Scopus subject areas

  • Genetics
  • Cell Biology

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    Sakamoto, H., Suzuki, M., Abe, T., Hosoyama, T., Himeno, E., Tanaka, S., Greally, J. M., Hattori, N., Yagi, S., & Shiota, K. (2007). Cell type-specific methylation profiles occurring disproportionately in CpG-less regions that delineate developmental similarity. Genes to Cells, 12(10), 1123-1132. https://doi.org/10.1111/j.1365-2443.2007.01120.x