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2013 Fiscal Year Final Research Report

Lineage potential regulated by high order chromatin structure

Research Project

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Project/Area Number 23310134
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Research Field Genome biology
Research InstitutionKyushu University

Principal Investigator

OHKAWA Yasuyuki  九州大学, 医学研究院, 准教授 (80448430)

Co-Investigator(Kenkyū-buntansha) OKADA Seiji  九州大学, 医学(系)研究科(研究院), 准教授 (30448435)
Project Period (FY) 2011-04-01 – 2014-03-31
Keywordsクロマチン / 骨格筋分化 / 次世代シークエンサー / ジーンクラスタリング
Research Abstract

Lineage potential is triggered by lineage-specific transcription factor expression in association with structural chromatin changes. Histone H3.3 variant is a critical chromatin component that regulates lineage potential, but the function of each H3 variant remains unclear. Here, we found that forced incorporation of H3.1 (canonical H3 variant) into lineage-specific genes diminished trimethylation on H3K4 (H3K4me3) and increased trimethylation on H3K27 (H3K27me3), resulting in loss of lineage potential. In mouse embryos, bivalent modifications of H3K4me3 and H3K27me3 were equivalently formed on the H3.3-incorporated region before embryonic skeletal muscle differentiation at myogenic loci. These results suggest that lineage potential is established through selective H3.3 incorporation into chromatin and is defined by a quantitative balance among histone modifications.

  • Research Products

    (41 results)

All 2014 2013 2012 2011 Other

All Journal Article (11 results) (of which Peer Reviewed: 11 results) Presentation (23 results) Book (5 results) Remarks (2 results)

  • [Journal Article] Generation of a monoclonal antibody for INI1/hSNF5/BAF472014

    • Author(s)
      Harada A, Hayashi M, Kuniyoshi Y, Semba Y, Sugahara S, Tachibana T, Ohkawa Y, Fujita M
    • Journal Title

      Monoclon Antib Immunodiagn Immunother

      Volume: 33(1) Pages: 49-51

    • DOI

      10.1089/mab.2013.0065.

    • Peer Reviewed
  • [Journal Article] Production of a monoclonal antibody for C/EBPβ : the subnuclear localization of C/EBPβ in mouse L929 cells2014

    • Author(s)
      Harada A, Okazaki E, Okada S, Tachibana T, Ohkawa Y
    • Journal Title

      Monoclon Antib Immunodiagn Immunother

      Volume: 33(1) Pages: 34-7

    • DOI

      10.1089/mab.2013.0069

    • Peer Reviewed
  • [Journal Article] The PPARγ locus makes long-range chromatin interactions with selected tissue-specific gene loci during adipocyte differentiation in a protein kinase A dependent manner2014

    • Author(s)
      LeBlanc SE, Wu Q, Barutcu AR, Xiao H, Ohkawa Y, Imbalzano AN
    • Journal Title

      PLoS One

      Volume: 9(1) Pages: e86140

    • DOI

      10.1371/journal.pone.0086140

    • Peer Reviewed
  • [Journal Article] Human TREX component Thoc5 affects alternative polyadenylation site choice by recruiting mammalian cleavage factor I2013

    • Author(s)
      Katahira J, Okuzaki D, Inoue H, Yoneda Y, Maehara K, Ohkawa Y
    • Journal Title

      Nucleic Acids Res

      Volume: 41(14) Pages: 7060-72

    • DOI

      10.1093/nar/gkt414

    • Peer Reviewed
  • [Journal Article] Therapeutic activities of engrafted neural stem/precursor cells are not dormant in the chronically injured spinal cord2013

    • Author(s)
      Kumamaru H, Saiwai H, Kubota K, Kobayakawa K, Yokota K, Ohkawa Y, Shiba K, Iwamoto Y, Okada S
    • Journal Title

      Stem Cells

      Volume: 31(8) Pages: 1535-47

    • DOI

      10.1002/stem.1404

    • Peer Reviewed
  • [Journal Article] A co-localization model of paired ChIP-seq data using a large ENCODE data set enables comparison of multiple samples2013

    • Author(s)
      Maehara K, Odawara J, Harada A, Yoshimi T, Nagao K, Obuse C, Akashi K, Tachibana T, Sakata T, Ohkawa Y
    • Journal Title

      Nucleic Acids Res

      Volume: 41(1) Pages: 54-62

    • DOI

      10.1093/nar/gks1010

    • Peer Reviewed
  • [Journal Article] Chd2 interacts with H3.3 to determine myogenic cell fate2012

    • Author(s)
      Harada A, Okada S, Konno D, Odawara J, Yoshimi T, Yoshimura S, Kumamaru H, Saiwai H, Tsubota T, Kurumizaka H, Akashi K, Tachibana T, Imbalzano AN, Ohkawa Y.
    • Journal Title

      EMBO J.

      Volume: 31(13) Pages: 2994-3007

    • DOI

      10.1038/emboj.2012.136

    • Peer Reviewed
  • [Journal Article] Age-related differences in cellular and molecular profiles of inflammatory responses after spinal cord injury2012

    • Author(s)
      Kumamaru H, Saiwai H, Ohkawa Y, Yamada H, Iwamoto Y, Okada S
    • Journal Title

      J Cell Physiol

      Volume: 227(4) Pages: 1335-46

    • DOI

      10.1002/jcp.22845

    • Peer Reviewed
  • [Journal Article] Direct isolation and RNA-seq reveal environment-dependent properties of engrafted neural stem/progenitor cells2012

    • Author(s)
      Kumamaru H, Ohkawa Y, Saiwai H, Yamada H, Kubota K, Kobayakawa K, Akashi K, Okano H, Iwamoto Y, Okada S
    • Journal Title

      Nat Commun

      Volume: 3 Pages: 1140

    • DOI

      10.1038/ncomms2132

    • Peer Reviewed
  • [Journal Article] The classification of mRNA expression levels by the phosphorylation state of RNAPII CTD based on a combined genome-wide approach2011

    • Author(s)
      Odawara J, Harada A, Yoshimi T, Maehara K, Tachibana T, Okada S, Akashi K, Ohkawa Y
    • Journal Title

      BMC Genomics

      Volume: 12 Pages: 516

    • DOI

      10.1186/1471-2164-12-516

    • Peer Reviewed
  • [Journal Article] Generation of a rat monoclonal antibody specific for hsp722011

    • Author(s)
      Tanaka M, Shiota M, Okada S, Harada A, Odawara J, Mun S, Iwao H, Ohkawa Y
    • Journal Title

      Hybridoma

      Volume: 30(4) Pages: 397-400

    • DOI

      10.1089/hyb.2011.0015

    • Peer Reviewed
  • [Presentation] The balance of histone H3 variants around transcription start sites dictates cell differential potential2014

    • Author(s)
      Akihito Harada, Kazumitsu Maehara, Yasuyuki Ohkawa
    • Organizer
      Keystone Symposia
    • Place of Presentation
      Santa Fe Community Convention Center (USA)
    • Year and Date
      2014-02-06
  • [Presentation] The formation of nucleosome positioning patterns flanked by transcription factor binding site2014

    • Author(s)
      Kazumitsu Maehara, Yasuyuki Ohkaw
    • Organizer
      Keystone Symposia
    • Place of Presentation
      Santa Fe Community Convention Center (USA)
    • Year and Date
      2014-02-06
  • [Presentation] ヒストンH3 バリアントの選択的取り込みは骨格筋分化能を支配する2013

    • Author(s)
      原田哲仁 ,前原一満 ,佐藤優子, 今野大治郎, 立花太郎, 木村宏, 大川恭行
    • Organizer
      第36回日本分子生物学会年会
    • Place of Presentation
      神戸ポートアイランド(兵庫)
    • Year and Date
      2013-12-05
  • [Presentation] ヒストンH3 バリアントは骨格筋分化能を決定する2013

    • Author(s)
      大川恭行, 原田哲仁, 前原一満
    • Organizer
      第36回日本分子生物学会年会
    • Place of Presentation
      神戸ポートアイランド(兵庫)
    • Year and Date
      2013-12-05
  • [Presentation] 単一のChIP-Seq データを使った細胞分化におけるヌクレオソーム配置と転写因子結合の一体的解析2013

    • Author(s)
      前原一満, 大川恭行
    • Organizer
      第36回日本分子生物学会年会
    • Place of Presentation
      神戸ポートアイランド(兵庫)
    • Year and Date
      2013-12-05
  • [Presentation] マウス胚性幹細胞においてChromodomain Helicase DNA binding protein (Chd5)はOct3/4 と共役して未分化性の維持に寄与する2013

    • Author(s)
      林正康, 小田原淳, 原田哲仁, 前原一満, 吉見智彦, 立花太郎, 赤司浩一, 大川恭行
    • Organizer
      第36回日本分子生物学会年会
    • Place of Presentation
      神戸ポートアイランド(兵庫)
    • Year and Date
      2013-12-04
  • [Presentation] Epigenomic approach unveils cell fate decision2013

    • Author(s)
      大川恭行
    • Organizer
      日本遺伝学会第85回大会
    • Place of Presentation
      慶応大学日吉キャンパス(神奈川)
    • Year and Date
      2013-09-21
  • [Presentation] High order chromatin regulation in skeletal muscle differentiation2013

    • Author(s)
      Yasuyuki Ohkawa, Hitoshi Kurumizaka, Hiroshi Kimura
    • Organizer
      第86回日本生化学会大会
    • Place of Presentation
      パシフィコ横浜(神奈川)
    • Year and Date
      2013-09-12
  • [Presentation] Histone bariants determine the lineage potential of skeletal muscle2013

    • Author(s)
      大川恭行
    • Organizer
      Fukuoka Internasional Symposium on Genomics & Epigenomics 2013
    • Place of Presentation
      九州大学(福岡)
    • Year and Date
      2013-09-10
  • [Presentation] ヒストンバリアントH3.3 による細胞運命決定2013

    • Author(s)
      大川恭行
    • Organizer
      第65回日本細胞生物学会大会
    • Place of Presentation
      ウィンクあいち(名古屋)
    • Year and Date
      2013-06-20
  • [Presentation] 共局在性を評価する回帰モデルとENCODE データセットを用いたChlP-seq データの複数サンプル比較解析法2013

    • Author(s)
      前原一満, 小田原淳, 原田哲仁, 大川恭行
    • Organizer
      第65回日本細胞生物学会大会
    • Place of Presentation
      ウィンクあいち(名古屋)
    • Year and Date
      2013-06-19
  • [Presentation] ヒストンバリアントによる骨格筋運命決定2013

    • Author(s)
      大川恭行, 原田哲仁
    • 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
    • Year and Date
      2013-05-31
  • [Presentation] 次世代シークエンサーによる細胞分化運命決定メカニズムの解明2013

    • Author(s)
      大川恭行
    • Organizer
      第56回日本腎臓学会学術総会
    • Place of Presentation
      東京国際フォーラム
    • Year and Date
      2013-05-11
  • [Presentation] 共局在回帰モデルとENCODE データセットを介したChIP-seq データの多サンプル比較解析2012

    • Author(s)
      前原一満, 小田原淳, 原田哲仁, 吉見智彦, 長尾恒治, 小布施力史, 立花太郎, 坂田年男, 大川恭行
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      第35 回日本分子生物学会年会
    • Year and Date
      2012-12-14
  • [Presentation] 高次クロマチン構造制御による骨格筋分化制御2012

    • Author(s)
      大川恭行
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      福岡国際会議場・マリンメッセ福岡
    • Year and Date
      2012-12-12
  • [Presentation] Chd2 依存的なH3.3 マーキングが筋発生における骨格筋遺伝子のbivalent geneの形成に必要である2012

    • Author(s)
      原田哲仁, 小田原淳, 前原一満, 立花太郎, 木村宏, 大川恭行
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      福岡国際会議場・マリンメッセ福岡
    • Year and Date
      2012-12-11
  • [Presentation] 高次クロマチン構造における細胞分化運命決定2012

    • Author(s)
      大川恭行
    • Organizer
      第33回日本炎症・再生医学会
    • Place of Presentation
      ホテル日航福岡
    • Year and Date
      2012-07-05
  • [Presentation] ヒストンバリアントH3.3 取り込みによる骨格筋分化運命決定2012

    • Author(s)
      大川恭行
    • Organizer
      第6回日本エピジェネティクス研究会年会
    • Place of Presentation
      学術総合センター(東京)
    • Year and Date
      2012-05-14
  • [Presentation] Control of gene expression through the phosphorylation of Ser2 and Ser5 of RNAPII : A combined analysis for ChIPseq and RNAseq2012

    • Author(s)
      Jun Odawara, Akihito Harada, Yasuyuki Ohkawa
    • Organizer
      KEYSTONE SYMPOSIA
    • Place of Presentation
      Keystone Resort (USA)
    • Year and Date
      2012-01-19
  • [Presentation] Chd-2 dependent deposition of H3.3 is required for myogenic cell fate2012

    • Author(s)
      Akihito Harada, Anthony N. Imbalzano, Yasuyuki Ohkawa
    • Organizer
      KEYSTONE SYMPOSIA
    • Place of Presentation
      Keystone Resort (USA)
    • Year and Date
      2012-01-19
  • [Presentation] The deposition of histone varients is the basis of chromatin structual changes in cell fate decision2011

    • Author(s)
      Yasuyuki Ohkawa, Jun Odawara, Akihito Harada
    • Organizer
      第34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
      2011-12-16
  • [Presentation] Chd-2 dependent deposition of H3.3 is crucial for Brg1 recruitment in myogenesis2011

    • Author(s)
      Akihito Harada, Jun Odawara, Kazumitu Maehara, Tomohiko Yoshimi, Saori Yoshimura, Taro Tachibana, Hitoshi Kurumizaka, Hiroshi Kimura, Yasuyuki Ohkawa
    • Organizer
      第34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
      2011-12-16
  • [Presentation] Control of gene expression through the phosphorylation of Ser2 and Ser5 of RNAPII : A combined analysis for ChIPseq and RNAseq2011

    • Author(s)
      Kazumitu Maehara, Jun Odawara, Akihito Harada, Tomohiko Yoshimi, Taro Tachibana, Yasuyuki Ohkawa
    • Organizer
      第34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
      2011-12-14
  • [Book] エピジェネティクスで解く細胞運命制御,クロマチン構造から理解する細胞運命決, 実験医学2013

    • Author(s)
      大川恭行, 原田哲仁
    • Total Pages
      2083-2088
    • Publisher
      羊土社
  • [Book] ChIP-seq のためのクロマチン免疫沈降法, 実験医学2013

    • Author(s)
      大川恭行, 小田原淳, 原田哲仁
    • Total Pages
      577-582
    • Publisher
      羊土社
  • [Book] 骨格筋分化における高次クロマチン構造解析, 細胞工学2012

    • Author(s)
      原田哲仁, 大川恭行
    • Total Pages
      877-881
    • Publisher
      学研メディカル秀潤社
  • [Book] An improved restriction enzyme accessibility assay for analyzing changes in chromatin structure in samples of limited cell number. Springer2012

    • Author(s)
      Ohkawa Y, Mallappa C, Vallaster CS, Imbalzano AN
    • Total Pages
      531-42
    • Publisher
      Methods Mol Biol
  • [Book] Isolation of nuclei from skeletal muscle satellite cells and myofibers for use in chromatin immunoprecipitation assays. Springer2012

    • Author(s)
      Ohkawa Y, Mallappa C, Vallaster CS, Imbalzano AN.
    • Total Pages
      517-30
    • Publisher
      Methods Mol Biol
  • [Remarks]

    • URL

      http://chromatin.med.kyushu-u.ac.jp/

  • [Remarks] 九州大学医学研究院先端医療医学部門エピジェネティクス分野/大川研究室

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Published: 2015-06-25   Modified: 2020-04-17  

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