Genome-wide DNA methylation profile of tissue-dependent and differentially methylated regions (T-DMRs) residing in mouse pluripotent stem cells

Shinya Sato, Shintaro Yagi, Yoshikazu Arai, Keiji Hirabayashi, Naoko Hattori, Misa Iwatani, Keisuke Okita, Jun Ohgane, Satoshi Tanaka, Teruhiko Wakayama, Shinya Yamanaka, Kunio Shiota

Research output: Contribution to journalArticle

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Abstract

DNA methylation profile, consisting of tissue-dependent and differentially methylated regions (T-DMRs), has elucidated tissue-specific gene function in mouse tissues. Here, we identified and profiled thousands of T-DMRs in embryonic stem cells (ESCs), embryonic germ cells (EGCs) and induced pluripotent stem cells (iPSCs). T-DMRs of ESCs compared with somatic tissues well illustrated gene function of ESCs, by hypomethylation at genes associated with CpG islands and nuclear events including transcriptional regulation network of ESCs, and by hypermethylation at genes for tissue-specific function. These T-DMRs in EGCs and iPSCs showed DNA methylation similar to ESCs. iPSCs, however, showed hypomethylation at a considerable number of T-DMRs that were hypermethylated in ESCs, suggesting existence of traceable progenitor epigenetic information. Thus, DNA methylation profile of T-DMRs contributes to the mechanism of pluripotency, and can be a feasible solution for identification and evaluation of the pluripotent cells.

Original languageEnglish
Pages (from-to)607-618
Number of pages12
JournalGenes to Cells
Volume15
Issue number6
DOIs
Publication statusPublished - 2010 Jun
Externally publishedYes

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Pluripotent Stem Cells
DNA Methylation
Genome
Embryonic Stem Cells
Induced Pluripotent Stem Cells
Genes
CpG Islands
Gene Regulatory Networks
Epigenomics

ASJC Scopus subject areas

  • Genetics
  • Cell Biology
  • Medicine(all)

Cite this

Genome-wide DNA methylation profile of tissue-dependent and differentially methylated regions (T-DMRs) residing in mouse pluripotent stem cells. / Sato, Shinya; Yagi, Shintaro; Arai, Yoshikazu; Hirabayashi, Keiji; Hattori, Naoko; Iwatani, Misa; Okita, Keisuke; Ohgane, Jun; Tanaka, Satoshi; Wakayama, Teruhiko; Yamanaka, Shinya; Shiota, Kunio.

In: Genes to Cells, Vol. 15, No. 6, 06.2010, p. 607-618.

Research output: Contribution to journalArticle

Sato, S, Yagi, S, Arai, Y, Hirabayashi, K, Hattori, N, Iwatani, M, Okita, K, Ohgane, J, Tanaka, S, Wakayama, T, Yamanaka, S & Shiota, K 2010, 'Genome-wide DNA methylation profile of tissue-dependent and differentially methylated regions (T-DMRs) residing in mouse pluripotent stem cells', Genes to Cells, vol. 15, no. 6, pp. 607-618. https://doi.org/10.1111/j.1365-2443.2010.01404.x
Sato, Shinya ; Yagi, Shintaro ; Arai, Yoshikazu ; Hirabayashi, Keiji ; Hattori, Naoko ; Iwatani, Misa ; Okita, Keisuke ; Ohgane, Jun ; Tanaka, Satoshi ; Wakayama, Teruhiko ; Yamanaka, Shinya ; Shiota, Kunio. / Genome-wide DNA methylation profile of tissue-dependent and differentially methylated regions (T-DMRs) residing in mouse pluripotent stem cells. In: Genes to Cells. 2010 ; Vol. 15, No. 6. pp. 607-618.
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