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Molecular mechanisms of severe genomic instability induced by embedded ribonucleotides

Research Project

Project/Area Number 19K12339
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Review Section Basic Section 63030:Chemical substance influence on environment-related
Research InstitutionChiba University

Principal Investigator

Sassa Akira  千葉大学, 大学院理学研究院, 准教授 (10738347)

Project Period (FY) 2019-04-01 – 2023-03-31
Project Status Completed (Fiscal Year 2022)
Budget Amount *help
¥4,420,000 (Direct Cost: ¥3,400,000、Indirect Cost: ¥1,020,000)
Fiscal Year 2021: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
Fiscal Year 2020: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000)
Fiscal Year 2019: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000)
KeywordsDNA損傷 / ゲノム不安定性 / DNA修復 / 突然変異 / RNA前駆体 / リボヌクレオチド / ゲノム
Outline of Research at the Start

細胞内のリボヌクレオチドは、エネルギー産生の基質やRNA前駆体として必須である一方で、DNA複製中にDNA前駆体と間違われてゲノムに取り込まれることがある。その頻度は、細胞あたり実に100万分子にもなり、適切に除去されなければ極めて深刻な神経変性疾患や発がんの引き金になると言われている。本研究は、リボヌクレオチドによってゲノムにいかなる異常が、どの様な機構を介して引き起こされるかを問い、リボヌクレオチドの蓄積による疾患の発症機構を紐解く。

Outline of Final Research Achievements

Ribonucleoside triphosphate is essential as the substrate for energy production and RNA synthesis. However, it can also be incorporated into the genome during DNA replication. In this study, we focused on genomic instability induced by the accumulation of ribonucleotides and its underlying mechanisms. First, we newly identified that nucleotide excision repair has an activity to excise an oxidized ribonucleotide embedded into DNA, which suppresses ribonucleotide-induced mutagenesis in cells. Second, we revealed that Tyrosyl-DNA phosphodiesterases TDP1 and TDP2 are involved in the ribonucleotide-induced mutagenesis in cells.

Academic Significance and Societal Importance of the Research Achievements

DNA中に取り込まれたリボヌクレオチドはDNA複製の妨害や染色体異常を引き起こし、深刻な神経変性疾患の発症や細胞のがん化につながることが報告されている。本研究において示唆されたゲノム不安定化の抑制及び誘発のメカニズムは、疾患発症の仕組みを明らかにするための分子基盤になると共に、治療法の開発につながる重要な知見となり得る。

Report

(5 results)
  • 2022 Annual Research Report   Final Research Report ( PDF )
  • 2021 Research-status Report
  • 2020 Research-status Report
  • 2019 Research-status Report
  • Research Products

    (50 results)

All 2023 2022 2021 2020 2019 Other

All Int'l Joint Research (2 results) Journal Article (11 results) (of which Int'l Joint Research: 4 results,  Peer Reviewed: 11 results,  Open Access: 8 results) Presentation (26 results) (of which Int'l Joint Research: 5 results,  Invited: 4 results) Remarks (11 results)

  • [Int'l Joint Research] NIEHS/NIH(米国)

    • Related Report
      2021 Research-status Report
  • [Int'l Joint Research] NIEHS/NIH(米国)

    • Related Report
      2020 Research-status Report
  • [Journal Article] FTO regulates the DNA damage response via effects on cell-cycle progression2023

    • Author(s)
      Liu Weiying、Yasui Manabu、Sassa Akira、You Xinyue、Wan Jingjing、Cao Yiyi、Xi Jing、Zhang Xinyu、Honma Masamitsu、Luan Yang
    • Journal Title

      Mutation Research/Genetic Toxicology and Environmental Mutagenesis

      Volume: 887 Pages: 503608-503608

    • DOI

      10.1016/j.mrgentox.2023.503608

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Analytical technologies to revolutionize the environmental mutagenesis-and genome- research -from the basics to the cutting-edge research-: the Open Symposium of the Japanese Environmental Mutagen and Genome Society (JEMS), 20222023

    • Author(s)
      Koyama Naoki、Sassa Akira
    • Journal Title

      Genes and Environment

      Volume: 45 Issue: 1 Pages: 9-9

    • DOI

      10.1186/s41021-023-00265-6

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Elevated mutation rates underlie the evolution of the aquatic plant family Podostemaceae2022

    • Author(s)
      Katayama Natsu、Koi Satoshi、Sassa Akira、Kurata Tetsuya、Imaichi Ryoko、Kato Masahiro、Nishiyama Tomoaki
    • Journal Title

      Communications Biology

      Volume: 5 Issue: 1 Pages: 75-75

    • DOI

      10.1038/s42003-022-03003-w

    • Related Report
      2021 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Structural basis for proficient oxidized ribonucleotide insertion in double strand break repair2021

    • Author(s)
      Jamsen Joonas A.、Sassa Akira、Perera Lalith、Shock David D.、Beard William A.、Wilson Samuel H.
    • Journal Title

      Nature Communications

      Volume: 12 Issue: 1 Pages: 5055-5055

    • DOI

      10.1038/s41467-021-24486-x

    • Related Report
      2021 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Follow-up genotoxicity assessment of Ames-positive/equivocal chemicals using the improved thymidine kinase gene mutation assay in DNA repair-deficient human TK6 cells2021

    • Author(s)
      A. Sassa, T. Fukuda, A. Ukai, M. Nakamura, R. Sato, S. Fujiwara, K. Hirota, S. Takeda, K.I. Sugiyama, M. Honma, M. Yasui
    • Journal Title

      Mutagenesis

      Volume: 36 Issue: 5 Pages: 331-338

    • DOI

      10.1093/mutage/geab025

    • Related Report
      2021 Research-status Report
    • Peer Reviewed
  • [Journal Article] Error-prone bypass patch by a low-fidelity variant of DNA polymerase zeta in human cells2021

    • Author(s)
      Suzuki Tetsuya、Sassa Akira、Gruz Petr、Gupta Ramesh C.、Johnson Francis、Adachi Noritaka、Nohmi Takehiko
    • Journal Title

      DNA Repair

      Volume: 100 Pages: 103052-103052

    • DOI

      10.1016/j.dnarep.2021.103052

    • Related Report
      2020 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Watching a double strand break repair polymerase insert a pro-mutagenic oxidized nucleotide2021

    • Author(s)
      Jamsen Joonas A.、Sassa Akira、Shock David D.、Beard William A.、Wilson Samuel H.
    • Journal Title

      Nature Communications

      Volume: 12 Issue: 1 Pages: 2059-2059

    • DOI

      10.1038/s41467-021-21354-6

    • Related Report
      2020 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Understanding the sequence and structural context effects in oxidative DNA damage repair2020

    • Author(s)
      Sassa Akira、Odagiri Mizuki
    • Journal Title

      DNA Repair

      Volume: 93 Pages: 102906-102906

    • DOI

      10.1016/j.dnarep.2020.102906

    • Related Report
      2020 Research-status Report
    • Peer Reviewed
  • [Journal Article] Tyrosyl-DNA phosphodiesterases are involved in mutagenic events at a ribonucleotide embedded into DNA in human cells2020

    • Author(s)
      Takeishi Ayuna、Kogashi Hiroyuki、Odagiri Mizuki、Sasanuma Hiroyuki、Takeda Shunichi、Yasui Manabu、Honma Masamitsu、Suzuki Tetsuya、Kamiya Hiroyuki、Sugasawa Kaoru、Ura Kiyoe、Sassa Akira
    • Journal Title

      PLOS ONE

      Volume: 15 Issue: 12 Pages: 0244790-0244790

    • DOI

      10.1371/journal.pone.0244790

    • Related Report
      2020 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Processing of a single ribonucleotide embedded into DNA by human nucleotide excision repair and DNA polymerase η2019

    • Author(s)
      Sassa Akira、Tada Haruto、Takeishi Ayuna、Harada Kaho、Suzuki Megumi、Tsuda Masataka、Sasanuma Hiroyuki、Takeda Shunichi、Sugasawa Kaoru、Yasui Manabu、Honma Masamitsu、Ura Kiyoe
    • Journal Title

      Scientific Reports

      Volume: 9 Issue: 1 Pages: 13910-13910

    • DOI

      10.1038/s41598-019-50421-8

    • NAID

      120006733134

    • Related Report
      2019 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Comparative study of cytotoxic effects induced by environmental genotoxins using XPC- and CSB-deficient human lymphoblastoid TK6 cells2019

    • Author(s)
      Sassa Akira、Fukuda Takayuki、Ukai Akiko、Nakamura Maki、Takabe Michihito、Takamura-Enya Takeji、Honma Masamitsu、Yasui Manabu
    • Journal Title

      Genes and Environment

      Volume: 41 Issue: 1 Pages: 15-15

    • DOI

      10.1186/s41021-019-0130-y

    • Related Report
      2019 Research-status Report
    • Peer Reviewed / Open Access
  • [Presentation] DNA中のリボヌクレオチドに起因する変異誘発機構とゲノム不安定性に関する研究2022

    • Author(s)
      佐々 彰
    • Organizer
      日本環境変異原ゲノム学会第51回大会
    • Related Report
      2022 Annual Research Report
    • Invited
  • [Presentation] DNA修復欠損モデルから迫る核酸誘導性自然免疫の分子機構2022

    • Author(s)
      佐々 彰
    • Organizer
      日本環境変異原ゲノム学会第51回大会
    • Related Report
      2022 Annual Research Report
    • Invited
  • [Presentation] DNA修復欠損による自然免疫惹起の分子メカニズムの解明2022

    • Author(s)
      高藤 賢、岩崎 滉、黛 結衣子、立川 明日香、中谷 一真、安井 学、本間 正充、杉山 圭一、藤木 亮次、金田 篤志、菅澤 薫、浦 聖恵、佐々 彰
    • Organizer
      日本環境変異原ゲノム学会第51回大会
    • Related Report
      2022 Annual Research Report
  • [Presentation] ゲノム中リボヌクレオチドの蓄積が誘発するDNA二本鎖切断の修復機構2022

    • Author(s)
      黛 結衣子、高藤 賢、立川 明日香、中谷 一真、安井 学、本間 正充、杉山 圭一、菅澤 薫、浦 聖恵、佐々 彰
    • Organizer
      日本環境変異原ゲノム学会第51回大会
    • Related Report
      2022 Annual Research Report
  • [Presentation] クロマチン構造変化を検出可能なエピ遺伝毒性試験法の開発2022

    • Author(s)
      北村 蒼史、山田 治人、高藤 賢、小田切 瑞基、安井 学、本間 正充、杉山 圭一、浦 聖恵、佐々 彰
    • Organizer
      日本環境変異原ゲノム学会第51回大会
    • Related Report
      2022 Annual Research Report
  • [Presentation] γH2AXの多角的解析による内因性DNA二本鎖切断の定量評価2022

    • Author(s)
      立川 明日香、吉本 侑依、高藤 賢、黛 結衣子、中谷 一真、中村 真生、福田 隆之、菅澤 薫、浦 聖恵、佐々 彰
    • Organizer
      日本環境変異原ゲノム学会第51回大会
    • Related Report
      2022 Annual Research Report
  • [Presentation] DNA二本鎖切断修復におけるNSD2の機能解析2022

    • Author(s)
      岩﨑 滉、東條 あかり、安井 学、本間 正充、上村 慶高、孫 継英、田代 聡、佐々 彰、浦 聖恵
    • Organizer
      第40回染色体ワークショップ・第21回核ダイナミクス研究会
    • Related Report
      2022 Annual Research Report
  • [Presentation] ヒストンメチル化酵素NSD2の酵素学的機能解析2022

    • Author(s)
      磯部 博登、小池 望実、佐々 彰、菊地 正樹、梅原 祟史、浦 聖恵
    • Organizer
      第40回染色体ワークショップ・第21回核ダイナミクス研究会
    • Related Report
      2022 Annual Research Report
  • [Presentation] B細胞の細胞増殖に果たすNSD2の機能2022

    • Author(s)
      磯野 太一、張 子一、許 文杰、佐々 彰、浦 聖恵
    • Organizer
      第45回日本分子生物学会年会
    • Related Report
      2022 Annual Research Report
  • [Presentation] Homeotic Gene Regulation Mediated by Histone Methyltransferase Nsd22022

    • Author(s)
      Isti Qonaatun, Taichi Isono, Akira Sasa, Kiyoe Ura
    • Organizer
      第45回日本分子生物学会年会
    • Related Report
      2022 Annual Research Report
  • [Presentation] MGMT持続発現型TK6細胞を用いた遺伝毒性試験のための基礎的研究2021

    • Author(s)
      安井学,佐々彰, 鵜飼明子, 足立淳, 鈴木孝昌, 本間正充, 杉山圭一
    • Organizer
      日本環境変異原ゲノム学会第50回大会
    • Related Report
      2021 Research-status Report
  • [Presentation] DNA 修復異常がもたらす過剰な免疫応答の分子機構2021

    • Author(s)
      高藤 賢, 立川 明日香, 黛 結衣子, 中谷 一真, 菅澤 薫, 浦 聖恵, 佐々 彰
    • Organizer
      日本環境変異原ゲノム学会第50回大会
    • Related Report
      2021 Research-status Report
  • [Presentation] ゲノム中のリボヌクレオチドに対する誤りがちな修復機構の解明2021

    • Author(s)
      黛 結衣子, 高藤 賢, 中谷 一真, 菅澤 薫, 浦 聖恵, 佐々 彰
    • Organizer
      日本環境変異原ゲノム学会第50回大会
    • Related Report
      2021 Research-status Report
  • [Presentation] ヒトリンパ芽球細胞株 TK6 を用いたエピ遺伝毒性試験法の確立2021

    • Author(s)
      小田切 瑞基, 安井 学, 本間 正充, 杉山 圭一, 浦 聖恵, 佐々 彰
    • Organizer
      日本環境変異原ゲノム学会第50回大会
    • Related Report
      2021 Research-status Report
  • [Presentation] Tyrosyl-DNA phosphodiesterasesはDNA中のリボヌクレオチドを起因とする突然変異形成に関与する2020

    • Author(s)
      竹石 歩奈, 古樫 浩之, 安井 学, 笹沼 博之, 武田 俊一, 菅澤 薫, 本間 正充, 浦 聖恵, 佐々 彰
    • Organizer
      第43回日本分子生物学会年会
    • Related Report
      2020 Research-status Report
  • [Presentation] 転写活性領域におけるDNA二本鎖切断修復経路の選択に果たすヒストンメチル化酵素NSD2の役割2020

    • Author(s)
      小林春花, 東條あかり, 佐々彰, 安井学, 本間正充, 浦 聖恵
    • Organizer
      第43回日本分子生物学会年会
    • Related Report
      2020 Research-status Report
  • [Presentation] 多次元に及ぶゲノム不安定性の分子機構解明に向けて2020

    • Author(s)
      佐々 彰
    • Organizer
      日本環境変異原学会第49回大会
    • Related Report
      2020 Research-status Report
    • Invited
  • [Presentation] 化学物質が引き起こすエピゲノム変化を定量的に評価可能な "epi-TK試験" の構築2020

    • Author(s)
      小田切 瑞基, 安井 学, 本田 大士, 浦 聖恵, 佐々 彰
    • Organizer
      日本環境変異原学会第49回大会
    • Related Report
      2020 Research-status Report
  • [Presentation] DNA修復障害疾患で引き起こされる多次元のゲノム不安定化2020

    • Author(s)
      佐々 彰, 竹石 歩奈, 高藤 賢, 黛 結衣子, 中谷 一真, 小田切 瑞基, 浦 聖恵
    • Organizer
      第5回千葉大学グローバルプロミネント研究基幹シンポジウム
    • Related Report
      2020 Research-status Report
  • [Presentation] Mechanistic basis for genome instability induced by non-canonical nucleotide accumulation in human cells2019

    • Author(s)
      Akira Sassa
    • Organizer
      2019 International Conference for Leading and Young Medical Scientists
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] Alternate processing pathways of a single ribonucleotide incorporated into DNA and its consequences in human cells2019

    • Author(s)
      Akira Sassa, Haruto Tada, Ayuna Takeishi, Kaho Harada, Kazuma Nakatani, Masataka Tsuda, Hiroyuki Sasanuma, Shunichi Takeda, Kaoru Sugasawa, Manabu Yasui, Masamitsu Honma, Kiyoe Ura
    • Organizer
      The Joint Meeting of The 6th Asian Congress on Environmental Mutagens and the 48th Annual Meeting of the Japanese Environmental Mutagen Society
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research
  • [Presentation] Mechanistic insight of unique mutations caused by a ribonucleotide embedded into DNA2019

    • Author(s)
      Ayuna Takeishi, Manabu Yasui, Hiroyuki Sasanuma, Shunichi Takeda,Kaoru Sugasawa, Masamitsu Honma, Kiyoe Ura, Akira Sassa
    • Organizer
      The Joint Meeting of The 6th Asian Congress on Environmental Mutagens and the 48th Annual Meeting of the Japanese Environmental Mutagen Society
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research
  • [Presentation] FTO's roles in DNA damage response and underlying mechanism2019

    • Author(s)
      Weiying LIU, Manabu YASUI, Akira SASSA, Yiyi CAO, Jing XI, Xinyue YOU, Masamitsu HONMA, Yang LUAN
    • Organizer
      The Joint Meeting of The 6th Asian Congress on Environmental Mutagens and the 48th Annual Meeting of the Japanese Environmental Mutagen Society
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research
  • [Presentation] Comparison analysis of backbones between 8-oxoG added DNA and intact DNA enclosed with water molecules by using an accelerated quantum chemical calculation2019

    • Author(s)
      Ai SUZUKI, Akira SASSA, Manabu YASUI, Masamitsu HONMA
    • Organizer
      The Joint Meeting of The 6th Asian Congress on Environmental Mutagens and the 48th Annual Meeting of the Japanese Environmental Mutagen Society
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research
  • [Presentation] ヒストンメチル化酵素NSD2の酵素学的機能解析2019

    • Author(s)
      小池 望実、佐々 彰、安田 武嗣、浦 聖恵
    • Organizer
      第37 回 染色体ワークショップ 第18 回 核ダイナミクス研究会
    • Related Report
      2019 Research-status Report
  • [Presentation] ゲノム恒常性維持におけるヒストンメチル化酵素NSD2の役割2019

    • Author(s)
      浦 聖恵、佐々 彰、東條 あかり、原田 佳歩、安井 学、本間 正充
    • Organizer
      第13回日本エピジェネティクス研究会年会
    • Related Report
      2019 Research-status Report
  • [Remarks] JEMS第51回大会で高藤さんがベストプレゼンテーション賞を受賞.

    • URL

      https://uralab.wordpress.com/2022/11/17/2/

    • Related Report
      2022 Annual Research Report
  • [Remarks] 日本環境変異原ゲノム学会第50回記念大会でベストプレゼンテーション賞(大会会長賞)を受賞

    • URL

      https://uralab.wordpress.com/2021/11/03/jems2021-50/

    • Related Report
      2021 Research-status Report
  • [Remarks] 傷ついたRNA前駆体がDNA合成の基質として取り込まれる仕組みを解明(佐々助教)

    • URL

      http://www.bio.s.chiba-u.ac.jp/research.html#sassa202108

    • Related Report
      2021 Research-status Report
  • [Remarks] DNA修復欠損ヒト細胞株を用いた発がん性物質のリスク評価法を発表(佐々助教)

    • URL

      http://www.bio.s.chiba-u.ac.jp/research.html#sassa202107

    • Related Report
      2021 Research-status Report
  • [Remarks] 国際共同研究の成果がNature Communications誌に掲載

    • URL

      https://uralab.wordpress.com/2021/04/08/

    • Related Report
      2020 Research-status Report
  • [Remarks] 損傷乗り越えDNAポリメラーゼζの機能に関する論文がDNA Repair誌に掲載

    • URL

      https://uralab.wordpress.com/2021/03/02/

    • Related Report
      2020 Research-status Report
  • [Remarks] DNAに取り込まれたリボヌクレオチドがゲノムを不安定化するメカニズムを提唱

    • URL

      https://uralab.wordpress.com/2020/12/31/

    • Related Report
      2020 Research-status Report
  • [Remarks] 酸化DNA損傷の修復メカニズムに関する論文がDNA Repair誌に掲載

    • URL

      https://uralab.wordpress.com/2020/10/19/

    • Related Report
      2020 Research-status Report
  • [Remarks] 竹石歩奈さんがACEM/JEMS 2019でベストプレゼンテーション賞を受賞

    • URL

      https://uralab.wordpress.com/2019/11/21/acem-jems-2019

    • Related Report
      2019 Research-status Report
  • [Remarks] DNAに取り込まれたリボヌクレオチドの除去修復を担う新たなメカニズムを解明

    • URL

      http://www.bio.s.chiba-u.ac.jp/research.html#sassa201909

    • Related Report
      2019 Research-status Report
  • [Remarks] ゲノム編集ヒト細胞を用いて環境中化学物質の毒性を評価する方法を開発

    • URL

      http://www.bio.s.chiba-u.ac.jp/research.html#sassa201908

    • Related Report
      2019 Research-status Report

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Published: 2019-04-18   Modified: 2024-01-30  

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