Analysis of DNA methylation change induced by Dnmt3b in mouse hepatocytes

Mayumi Takahashi, Yasutomi Kamei, Tatsuya Ehara, Xunmei Yuan, Takayoshi Suganami, Takako Takai-Igarashi, Izuho Hatada, Yoshihiro Ogawa

Research output: Contribution to journalArticle

8 Citations (Scopus)

Abstract

DNA methylation is a key epigenetic contributor to gene regulation in mammals. We have recently found that in the mouse liver, the promoter region of glycerol-3-phosphate acyltransferase 1, a rate-limiting enzyme of de novo lipogenesis, is regulated by DNA methylation, which is mediated by Dnmt3b, an enzyme required for the initiation of de novo methylation. In this study, using primary cultures of mouse hepatocytes with adenoviral overexpression of Dnmt3b, we characterized Dnmt3b-dependent DNA methylation on a genome-wide basis. A genome-wide DNA methylation analysis, called microarray-based integrated analysis of methylation by isoschizomers, identified 108 genes with Dnmt3b dependent DNA methylation. In DNA expression array analysis, expression of some genes with Dnmt3b-dependent DNA methylation was suppressed. Studies with primary mouse hepatocytes overexpressing Dnmt3b or Dnmt3a revealed that many genes with Dnmt3b-dependent methylation are not methylated by Dnmt3a, whereas those methylated by Dnmt3a are mostly methylated by Dnmt3b. Bioinformatic analysis showed that the CANAGCTG and CCGGWNCSC (N denotes A, T, G, or C; W denotes A or T; and S denotes C or G) sequences are enriched in genes methylated by overexpression of Dnmt3b and Dnmt3a, respectively. We also observed a large number of genes with Dnmt3b-dependent DNA methylation in primary cultures of mouse hepatocytes with adenoviral overexpression of Dnmt3, suggesting that Dnmt3b is an important DNA methyltransferase in primary mouse hepatocytes, targets specific genes, and potentially plays a role in vivo.

Original languageEnglish
Pages (from-to)873-878
Number of pages6
JournalBiochemical and Biophysical Research Communications
Volume434
Issue number4
DOIs
Publication statusPublished - May 17 2013
Externally publishedYes

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DNA Methylation
Hepatocytes
Genes
Methylation
Genome
Acyltransferases
Lipogenesis
Methyltransferases
Enzymes
Mammals
Microarray Analysis
Oligonucleotide Array Sequence Analysis
Computational Biology
DNA
Genetic Promoter Regions
Epigenomics
Bioinformatics
Microarrays
Cell culture
Gene expression

All Science Journal Classification (ASJC) codes

  • Biophysics
  • Biochemistry
  • Molecular Biology
  • Cell Biology

Cite this

Analysis of DNA methylation change induced by Dnmt3b in mouse hepatocytes. / Takahashi, Mayumi; Kamei, Yasutomi; Ehara, Tatsuya; Yuan, Xunmei; Suganami, Takayoshi; Takai-Igarashi, Takako; Hatada, Izuho; Ogawa, Yoshihiro.

In: Biochemical and Biophysical Research Communications, Vol. 434, No. 4, 17.05.2013, p. 873-878.

Research output: Contribution to journalArticle

Takahashi, M, Kamei, Y, Ehara, T, Yuan, X, Suganami, T, Takai-Igarashi, T, Hatada, I & Ogawa, Y 2013, 'Analysis of DNA methylation change induced by Dnmt3b in mouse hepatocytes', Biochemical and Biophysical Research Communications, vol. 434, no. 4, pp. 873-878. https://doi.org/10.1016/j.bbrc.2013.04.041
Takahashi, Mayumi ; Kamei, Yasutomi ; Ehara, Tatsuya ; Yuan, Xunmei ; Suganami, Takayoshi ; Takai-Igarashi, Takako ; Hatada, Izuho ; Ogawa, Yoshihiro. / Analysis of DNA methylation change induced by Dnmt3b in mouse hepatocytes. In: Biochemical and Biophysical Research Communications. 2013 ; Vol. 434, No. 4. pp. 873-878.
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