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DNA methylation coupled with transcription elongation machinery

Research Project

Project/Area Number 25650007
Research Category

Grant-in-Aid for Challenging Exploratory Research

Allocation TypeMulti-year Fund
Research Field Molecular biology
Research InstitutionOsaka University

Principal Investigator

Kimura Hironobu  大阪大学, たんぱく質研究所, 助教 (60378891)

Co-Investigator(Renkei-kenkyūsha) Shoji Tajima  大阪大学, たんぱく質研究所, 教授 (50132931)
Project Period (FY) 2013-04-01 – 2016-03-31
Project Status Completed (Fiscal Year 2015)
Budget Amount *help
¥3,900,000 (Direct Cost: ¥3,000,000、Indirect Cost: ¥900,000)
Fiscal Year 2015: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2014: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2013: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
KeywordsDNAメチル化 / 転写伸長 / DNAのメチル化機構 / 転写伸長因子
Outline of Final Research Achievements

Recent whole genome bisulfite sequencing analysis with next generation sequencer reveals that DNA methylation exist not only at promoter, but also at gene bodies of highly transcribed genes. Previously, I purified the Dnmt3a complex from mouse embryonic stem cell (mESC), and found that Rpb1 and Supt6h, which are components of transcriptional elongation machinery, were co-purified with Dnmt3a. To elucidate the mechanism underling in the gene body methylation, I focused in an interaction of Dnmt3a and transcriptional elongation machinery. I found that (1) Dnmt3a and Rpb1 bound in mESC, NIH3T3 and N1E115, (2) Dnmt3a localized on gene body of Atp5b gene, which is highly transcribed in mESC, in the same manner with the elongating Rpb1 (phosphorylated CTD-Ser2) and H3K36me3, (3) both of Dnmt3a and Dnmt3b contributed on the gene body methylation.

Report

(4 results)
  • 2015 Annual Research Report   Final Research Report ( PDF )
  • 2014 Research-status Report
  • 2013 Research-status Report
  • Research Products

    (15 results)

All 2015 2014 2013

All Journal Article (5 results) (of which Peer Reviewed: 5 results,  Open Access: 2 results) Presentation (10 results) (of which Invited: 1 results)

  • [Journal Article] Dual functions of the RFTS domain of Dnmt1 in replication-coupled DNA methylation and in protection of the genome from aberrant methylation2015

    • Author(s)
      Ronald Garingalao Garvilles, Takashi Hasegawa, Hironobu Kimura, Jafar Sharif, Masahiro Muto, Haruhiko Koseki, Saori Takahashi, Isao Suetake, and Shoji Tajima
    • Journal Title

      PLoS ONE

      Volume: 10 Issue: 9 Pages: e0137509-e0137509

    • DOI

      10.1371/journal.pone.0137509

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] The mTOR pathway controls cell proliferation by regulating the FoxO3a transcription factor via SGK1 kinase2014

    • Author(s)
      Mori S, Nada S, Kimura H, Tajima S, Takahashi Y, Kitamura A, Oneyama C, Okada M.
    • Journal Title

      PLos ONE

      Volume: 9(2) Issue: 2 Pages: e88891-e88891

    • DOI

      10.1371/journal.pone.0088891

    • Related Report
      2013 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Cell cycle-dependent turnover of 5-hydroxymethyl cytosine in mouse embryonic stem cells.2013

    • Author(s)
      Otani J, Kimura H, Sharif J, Endo TA, Mishima Y, Kawakami T, Koseki H, Shirakawa M, Suetake I, Tajima S
    • Journal Title

      PLoS One

      Volume: 8 Issue: 12 Pages: e82961-e82961

    • DOI

      10.1371/journal.pone.0082961

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] Structural basis of the versatile DNA recognition ability of the methyl-CpG binding domain of methyl-CpG binding domain protein 4.2013

    • Author(s)
      Otani, J., Arita, K., Kato, T., Kinoshita, M., Kimura, H., Suetake, I., Tajima, S., Ariyoshi, M., Shirakawa, M.
    • Journal Title

      J Biol. Chem.

      Volume: 288 Issue: 9 Pages: 6351-6362

    • DOI

      10.1074/jbc.m112.431098

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] Genome engineering of mammalian haploid embryonic stem cells using the cas9/RNA system2013

    • Author(s)
      Horii T, Morita S, Kimura M, Kobayashi R, Tamura D, Takahashi RU, Kimura H, Suetake I, Ohata H, Okamoto K, Tajima S, Ochiya T, Abe Y, Hatada I
    • Journal Title

      PeerJ

      Volume: 2013 Issue: 1 Pages: e230-e230

    • DOI

      10.7717/peerj.230

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Presentation] 細胞周期阻害剤による5hmC産生機構の解明2015

    • Author(s)
      木村博信、堀居拓郎、大谷順二、末武 勲、畑田出穂、田嶋正二
    • Organizer
      第9回日本エピジェネティクス研究会年会
    • Place of Presentation
      東京
    • Year and Date
      2015-05-25
    • Related Report
      2015 Annual Research Report
  • [Presentation] マウスES細胞での5hmC化を介した脱メチル化後のDnmt1の役割2014

    • Author(s)
      首浦武作志、木村博信、田嶋正二、多田政子
    • Organizer
      第37回日本分子生物学会年会
    • Place of Presentation
      パシフィコ横浜(神奈川)
    • Year and Date
      2014-11-25 – 2014-11-27
    • Related Report
      2014 Research-status Report
  • [Presentation] CRISPR/Cas法による樹立したTetトリプルノックアウトES細胞の特性2014

    • Author(s)
      35.堀居拓郎、森田純代、木村美香、小林遼平、田村大樹、木村博信、末武勲、安部由美子、畑田出穂
    • Organizer
      第37回日本分子生物学会年会
    • Place of Presentation
      パシフィコ横浜(神奈川)
    • Year and Date
      2014-11-25 – 2014-11-27
    • Related Report
      2014 Research-status Report
  • [Presentation] プロモーター領域でのヒドロキシメチルシトシンのメチルシトシンに対する相対位置は遺伝子発現と相関する2014

    • Author(s)
      木村博信、末武 勲、遠井紀江、川上 徹、饗庭一博、中辻憲夫、田嶋正二
    • Organizer
      第8回日本エピジェネティクス研究会年会
    • Place of Presentation
      伊藤国際学術研究センター(東京)
    • Year and Date
      2014-05-25 – 2014-05-27
    • Related Report
      2014 Research-status Report
  • [Presentation] 遺伝性知覚神経疾患の原因となるDnmt1のRFTS内の変異がDNA維持メチル化に及ぼす影響2014

    • Author(s)
      ロナルド・G・ガルビレス、木村 博信、アーメット・キャン・ベルキュレック、末武 勲、田嶋 正二
    • Organizer
      第8回日本エピジェネティクス研究会年会
    • Place of Presentation
      伊藤国際学術研究センター(東京)
    • Year and Date
      2014-05-25 – 2014-05-27
    • Related Report
      2014 Research-status Report
  • [Presentation] マウス半数体ES細胞とCRISPR/Cas9法を用いたTet1ファミリーのゲノム編集2014

    • Author(s)
      堀居拓郎、森田純代、木村美香、小林遼平、田村大樹、高橋陵宇、木村博信、末武勲、大畑広和、岡本康司、田嶋正二、落谷孝広、安部由美子、畑田出穂
    • Organizer
      第8回日本エピジェネティクス研究会年会
    • Place of Presentation
      伊藤国際学術研究センター(東京)
    • Year and Date
      2014-05-25 – 2014-05-27
    • Related Report
      2014 Research-status Report
  • [Presentation] マウスES細胞における5mCと5hmCの連続変換によるメチル化制御2014

    • Author(s)
      首浦武作志、岡野正樹、木村博信、田嶋正二、多田政子
    • Organizer
      第8回日本エピジェネティクス研究会年会
    • Place of Presentation
      伊藤国際学術研究センター(東京)
    • Year and Date
      2014-05-25 – 2014-05-27
    • Related Report
      2014 Research-status Report
  • [Presentation] 細胞の形質を司るエピジェネティクス~DNAメチル化から考える~2014

    • Author(s)
      木村博信
    • Organizer
      第18回関西大学先端科学技術シンポジウム
    • Place of Presentation
      大阪府関西大学
    • Related Report
      2013 Research-status Report
    • Invited
  • [Presentation] マウスES細胞におけるヒドロキシメチルシトシンの産生と消去2013

    • Author(s)
      木村博信、大谷淳二、川上徹、ジャファル・シャリフ、古関明彦、白川昌宏、末武勲、田嶋正二
    • Organizer
      第7回日本エピジェネティクス研究会年会
    • Place of Presentation
      奈良県新公会堂
    • Related Report
      2013 Research-status Report
  • [Presentation] Relative positions of 5-hydroxymethylcytosine and 5-methylcytosine at promoter correlate with the level of gene expression.2013

    • Author(s)
      Kimura, H., Suetake, I., Tooi, N., Kawakami, T., Thomoto, T., Aiba, K., Nakatsuji, N and Shoji Tajima
    • Organizer
      International Symposium on Transcription and Metabolism
    • Place of Presentation
      兵庫県淡路夢舞台
    • Related Report
      2013 Research-status Report

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Published: 2014-07-25   Modified: 2019-07-29  

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