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Analysis of rDNA copy number monitoring system

Research Project

Project/Area Number 17H01443
Research Category

Grant-in-Aid for Scientific Research (A)

Allocation TypeSingle-year Grants
Section一般
Research Field Genetics/Chromosome dynamics
Research InstitutionThe University of Tokyo

Principal Investigator

Kobayashi Takehiko  東京大学, 定量生命科学研究所, 教授 (40270475)

Project Period (FY) 2017-04-01 – 2021-03-31
Project Status Completed (Fiscal Year 2021)
Budget Amount *help
¥42,380,000 (Direct Cost: ¥32,600,000、Indirect Cost: ¥9,780,000)
Fiscal Year 2020: ¥10,010,000 (Direct Cost: ¥7,700,000、Indirect Cost: ¥2,310,000)
Fiscal Year 2019: ¥10,010,000 (Direct Cost: ¥7,700,000、Indirect Cost: ¥2,310,000)
Fiscal Year 2018: ¥10,010,000 (Direct Cost: ¥7,700,000、Indirect Cost: ¥2,310,000)
Fiscal Year 2017: ¥12,350,000 (Direct Cost: ¥9,500,000、Indirect Cost: ¥2,850,000)
Keywordsリボソーム / リボソームRNA遺伝子 / 遺伝子増幅 / 組換え / UAF / 転写活性化因子 / SIR2 / 出芽酵母 / ゲノムの安定性 / 相同組換え / 転写抑制 / コピー数の維持 / 非コードDNA / 増幅組換え / コピー数モニター / 遺伝学 / リボソームRNA反復遺伝子 / 修復
Outline of Final Research Achievements

The ribosomal RNA genes (rDNA) are the most abundant gene in the eukaryotic cells and they make huge tandem clusters on the chromosome. Though the copy number maintenance is quite important for stable production of ribosome that translates mRNA to protein, the mechanism has not been elucidated. We identified the system for copy number monitoring, amplification induction and maintenance of the proper copy number by the rDNA transcription activating factor, UAF.

Academic Significance and Societal Importance of the Research Achievements

生物にとってタンパク質を生産することは、生命が地球に誕生した時から続いている最も重要な生命活動である。タンパク質の生産はリボソームによって担われており、リボソームは細胞中で最も多量に存在するRNA/タンパク質複合体である。リボソームの安定供給には1つの細胞に100コピー以上存在するリボソームRNA遺伝子のコピー数を適正に維持することが重要である。本研究では、そのリボソームRNA遺伝子コピー数をモニターし、数が足りなくなった時には遺伝子増幅で回復させる機構の全貌を解明した。本成果は、全ての真核細胞が持つ最も基本的な生理作用の解明であり、非常に重要な発見である。

Report

(5 results)
  • 2021 Final Research Report ( PDF )
  • 2020 Annual Research Report
  • 2019 Annual Research Report
  • 2018 Annual Research Report
  • 2017 Annual Research Report
  • Research Products

    (50 results)

All 2022 2021 2020 2019 2018 2017 Other

All Int'l Joint Research (1 results) Journal Article (14 results) (of which Int'l Joint Research: 1 results,  Peer Reviewed: 14 results,  Open Access: 13 results,  Acknowledgement Compliant: 1 results) Presentation (24 results) (of which Int'l Joint Research: 10 results,  Invited: 20 results) Book (6 results) Remarks (4 results) Patent(Industrial Property Rights) (1 results)

  • [Int'l Joint Research] フランス国立科学研究センター(IGBMC)(フランス)

    • Related Report
      2020 Annual Research Report
  • [Journal Article] RPS12 and UBC4 are related to senescence signal production in ribosomal RNA gene cluster2022

    • Author(s)
      Yanagi, S, Iida, T and Kobayashi, T.
    • Journal Title

      Mol Cell Biol,

      Volume: -

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Establishment of an “<i>in saccharo</i>” experimental system2021

    • Author(s)
      Iida, T. and kobayashi, T
    • Journal Title

      Genes & Genetic Systems

      Volume: 96 Issue: 3 Pages: 107-118

    • DOI

      10.1266/ggs.21-00004

    • NAID

      130008102463

    • ISSN
      1341-7568, 1880-5779
    • Year and Date
      2021-06-01
    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] The S-phase Cyclin Clb5 Promotes rDNA Stability by Maintaining Replication Initiation Efficiency in rDNA.2021

    • Author(s)
      Mayuko Goto, Mariko Sasaki, and Takehiko Kobayashi
    • Journal Title

      Molecular and Cellular Biology

      Volume: 5 Issue: 5 Pages: 1-1

    • DOI

      10.1128/mcb.00324-20

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] The human ribosomal DNA array is composed of highly homogenized tandem clusters.2021

    • Author(s)
      Hori, Y, Shimoto, A, and Kobayashi, T.
    • Journal Title

      Genome Research

      Volume: 31 Issue: 11 Pages: 1971-1982

    • DOI

      10.1101/gr.275838.121

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Evaluation of repair activity by quantification of ribonucleotides in the genome2021

    • Author(s)
      Iida, T. and kobayashi, T
    • Journal Title

      Genes Cells

      Volume: 26 Issue: 8 Pages: 555-569

    • DOI

      10.1111/gtc.12871

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Defects in the NuA4 acetyltransferase complex increase stability of the ribosomal RNA gene and extend replicative lifespan2019

    • Author(s)
      Tsuyoshi Wakatsuki, Mariko Sasaki, Takehiko Kobayashi
    • Journal Title

      Genes & Genetic Systems

      Volume: 94 Issue: 5 Pages: 197-206

    • DOI

      10.1266/ggs.19-00022

    • NAID

      130007760285

    • ISSN
      1341-7568, 1880-5779
    • Year and Date
      2019-10-01
    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] The CCR4-NOT complex maintains stability and transcription of rRNA genes by repressing antisense transcripts.2019

    • Author(s)
      Shun Hosoyamada, Mariko Sasaki, Takehiko Kobayashi
    • Journal Title

      Molecular and Cellular Biology

      Volume: 40 Issue: 1

    • DOI

      10.1128/mcb.00320-19

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] rDNA condensation promotes rDNA separation from nucleolar proteins degraded for nucleophagy after TORC1 inactivation2019

    • Author(s)
      Md. Golam Mostofa, Shamsul Morshed, Ritsu Shibata, Yuri Takeichi, Muhammad Arifur Rahman, Shun Hosoyamada, Takehiko Kobayashi, and Takashi Ushimaru
    • Journal Title

      Cell Reports

      Volume: 28 Issue: 13 Pages: 3423-3434

    • DOI

      10.1016/j.celrep.2019.08.059

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Ribosomal RNA gene repeats associate with the nuclear pore complex for maintenance after DNA damage2019

    • Author(s)
      Horigome Chihiro、Unozawa Eri、Ooki Takamasa、Kobayashi Takehiko
    • Journal Title

      PLOS Genetics

      Volume: 15 Issue: 4 Pages: e1008103-e1008103

    • DOI

      10.1371/journal.pgen.1008103

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] RNA Polymerase I activators count and adjust ribosomal RNA gene copy number2019

    • Author(s)
      Iida, T. and Kobayashi, T
    • Journal Title

      Molecular Cell

      Volume: 73 Issue: 4 Pages: 645-654

    • DOI

      10.1016/j.molcel.2018.11.029

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] DNA polymerase e-dependent modulation of the pausing property of CMG helicase at the barrier.2018

    • Author(s)
      Hizume, K., Endo, S., Muramatsu, S., Kobayashi, T. and Araki, H.
    • Journal Title

      Genes & Dev

      Volume: 32 Issue: 19-20 Pages: 1315-1320

    • DOI

      10.1101/gad.317073.118

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] CLIP and cohibin separate rDNA from nucleolar proteins destined for degradation by nucleophagy2018

    • Author(s)
      Mostofa Md. Golam、Rahman Muhammad Arifur、Koike Naoki、Yeasmin Akter MST、Islam Nafisa、Waliullah Talukdar Muhammad、Hosoyamada Shun、Shimobayashi Mitsugu、Kobayashi Takehiko、Hall Michael N.、Ushimaru Takashi
    • Journal Title

      The Journal of Cell Biology

      Volume: 217 Issue: 8 Pages: 2675-2690

    • DOI

      10.1083/jcb.201706164

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Ctf4 Prevents Genome Rearrangements by Suppressing DNA Double-Strand Break Formation and Its End Resection at Arrested Replication Forks2017

    • Author(s)
      Sasaki Mariko、Kobayashi Takehiko
    • Journal Title

      Molecular Cell

      Volume: 66 Issue: 4 Pages: 533-545

    • DOI

      10.1016/j.molcel.2017.04.020

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] rDNA stability is supported by many "Buffer genes" -Introduction to the Yeast rDNA Stability Database.2017

    • Author(s)
      Kobayashi T, Sasaki M
    • Journal Title

      FEMS Yeast Res.

      Volume: - Issue: 1 Pages: 1-8

    • DOI

      10.1093/femsyr/fox001

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Presentation] Budding yeast as an aging model system2021

    • Author(s)
      Takehiko Kobayashi
    • Organizer
      第44回日本分子生物学会年会
    • Related Report
      2020 Annual Research Report
    • Invited
  • [Presentation] 実験システムとしての酵母 -老化研究を例に2021

    • Author(s)
      小林 武彦
    • Organizer
      酵母合同シンポジウム
    • Related Report
      2020 Annual Research Report
    • Invited
  • [Presentation] DNA replication initiation affects stability of ribosomal RNA gene repeat and lifespan2021

    • Author(s)
      Takehiko Kobayashi
    • Organizer
      Cold Spring Harbor, Asia meeting
    • Related Report
      2020 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] ゲノム修復から見るゲノム安定性のプロファイル2021

    • Author(s)
      飯田哲史
    • Organizer
      日本遺伝学会第93回大会
    • Related Report
      2020 Annual Research Report
    • Invited
  • [Presentation] Understanding the Genome Stress Response as a Cellular Risk Management System2020

    • Author(s)
      Tetsushi Iida
    • Organizer
      第43回 日本分子生物学会年会
    • Related Report
      2020 Annual Research Report
  • [Presentation] 出芽酵母が適正なゲノム構造を維持するための記憶の分子機構2020

    • Author(s)
      飯田哲史
    • Organizer
      日本遺伝学会第 92 回大会
    • Related Report
      2020 Annual Research Report
    • Invited
  • [Presentation] 寿命はなぜ決まっているのか?2020

    • Author(s)
      小林武彦
    • Organizer
      千里ライフサイエンスフォーラム
    • Related Report
      2019 Annual Research Report
    • Invited
  • [Presentation] Ribosomal RNA gene instability, accumulation of circular DNA and cellular senescence2020

    • Author(s)
      小林武彦
    • Organizer
      Circular DNA in normal development and disease
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 寿命はなぜ決まっているのか2019

    • Author(s)
      小林武彦
    • Organizer
      九州大学公開セミナー
    • Related Report
      2019 Annual Research Report
    • Invited
  • [Presentation] Stability of ribosomal RNA gene repeat and cellular senescence2019

    • Author(s)
      小林武彦
    • Organizer
      International symposium on DNA Damage Response & Human Disease
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 寿命はなにが決めているのか2019

    • Author(s)
      小林武彦
    • Organizer
      大隅科学創生財団第4回創発セミナー
    • Related Report
      2019 Annual Research Report
    • Invited
  • [Presentation] ゲノムの安定性と細胞老化2018

    • Author(s)
      小林武彦
    • Organizer
      第63回日本生殖医学会学術講演会
    • Related Report
      2018 Annual Research Report
    • Invited
  • [Presentation] 反復配列の安定性を維持するRNA分解機構2018

    • Author(s)
      細山田舜、佐々木真理子、小林武彦
    • Organizer
      酵母遺伝学フォーラム
    • Related Report
      2018 Annual Research Report
  • [Presentation] 遺伝学はこんなに面白い2018

    • Author(s)
      小林武彦
    • Organizer
      日本遺伝学会市民公開講座
    • Related Report
      2018 Annual Research Report
    • Invited
  • [Presentation] Non-coding transcription and maintenance of ribosomal RNA gene cluster2018

    • Author(s)
      小林武彦
    • Organizer
      IFOM, Italy
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] ハダカデバネズミから学ぶ長生きの秘訣2018

    • Author(s)
      小林武彦
    • Organizer
      第一回 寺deサイエンス
    • Related Report
      2018 Annual Research Report
    • Invited
  • [Presentation] Degradation of non-coding transcripts maintains rDNA stability and transcription2018

    • Author(s)
      小林武彦
    • Organizer
      3R (Replication, Recombination and Repair) meeting
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Non-coding transcription and maintenance of ribosomal RNA gene cluster2018

    • Author(s)
      小林武彦
    • Organizer
      EMBO meeting
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Non-coding transcription induces rDNA instability and cellular senescence2017

    • Author(s)
      T. Kobayashi
    • Organizer
      Naito conference
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Studies of the ribosomal DNA repeats2017

    • Author(s)
      T. Kobayashi
    • Organizer
      GSA early carrier symposium
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Reprograming in yeast2017

    • Author(s)
      T. Kobayashi
    • Organizer
      Columbia University seminar series
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] rDNA stability and cellular senescence2017

    • Author(s)
      T. Kobayashi
    • Organizer
      Memorial Sloan Kettering Cancer Center seminar series
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] リボソームRNA遺伝子のコピー数調節機構2017

    • Author(s)
      小林武彦
    • Organizer
      DNA 複製、組換え、修復ワークショップ
    • Related Report
      2017 Annual Research Report
  • [Presentation] 寿命を決める非コードRNAの機能2017

    • Author(s)
      小林武彦
    • Organizer
      日本分子生物学会シンポジウム
    • Related Report
      2017 Annual Research Report
    • Invited
  • [Book] 生物の寿命延長  ~老化・長寿命の基盤研究最前線~2022

    • Author(s)
      堀優太郎、小林武彦、その他
    • Total Pages
      460
    • Publisher
      (株)エヌ・ティー・エス
    • ISBN
      9784860437732
    • Related Report
      2020 Annual Research Report
  • [Book] 改訂 遺伝単2021

    • Author(s)
      日本遺伝学会
    • Total Pages
      456
    • Publisher
      (株)エヌ・ティー・エス
    • ISBN
      9784860437121
    • Related Report
      2020 Annual Research Report
  • [Book] 生物はなぜ死ぬのか2021

    • Author(s)
      小林武彦
    • Total Pages
      224
    • Publisher
      講談社
    • ISBN
      9784065232170
    • Related Report
      2020 Annual Research Report
  • [Book] HOMOLOGOUS RECOMBINATION: METHODS AND PROTOCOLS2020

    • Author(s)
      Mariko Sasaki and Takehiko Kobayashi、その他
    • Total Pages
      557
    • Publisher
      Humana press
    • ISBN
      9781071606438
    • Related Report
      2020 Annual Research Report
  • [Book] DNAの98%は謎  生命の鍵を握る「非コードDNA」とは何か2017

    • Author(s)
      小林武彦
    • Total Pages
      206
    • Publisher
      講談社ブルーバックス
    • ISBN
      9784065020340
    • Related Report
      2017 Annual Research Report
  • [Book] 遺伝単2017

    • Author(s)
      小林武彦その他
    • Total Pages
      371
    • Publisher
      NTS
    • Related Report
      2017 Annual Research Report
  • [Remarks] 小林武彦研究室

    • URL

      https://tako-lab.net

    • Related Report
      2020 Annual Research Report
  • [Remarks] 東京大学定量生命科学研究所ゲノム再生研究分野

    • URL

      https://www.iqb.u-tokyo.ac.jp/lab/kobayashi/

    • Related Report
      2020 Annual Research Report
  • [Remarks] 小林研究室

    • URL

      http://lafula-com.info/kobayashiken/CytoGen/

    • Related Report
      2019 Annual Research Report 2018 Annual Research Report 2017 Annual Research Report
  • [Remarks] 東京大学定量生命科学研究所

    • URL

      http://www.iam.u-tokyo.ac.jp

    • Related Report
      2019 Annual Research Report 2018 Annual Research Report 2017 Annual Research Report
  • [Patent(Industrial Property Rights)] 人工染色体ベクターおよびその用途2020

    • Inventor(s)
      小林武彦、飯田哲史
    • Industrial Property Rights Holder
      東京大学
    • Industrial Property Rights Type
      特許
    • Industrial Property Number
      2020-039614
    • Filing Date
      2020
    • Related Report
      2019 Annual Research Report

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Published: 2017-04-28   Modified: 2023-01-30  

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