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Genome-wide analysis of regulation of miRNA processing and its effects on transcriptome

Research Project

Project/Area Number 17K20145
Research Category

Fund for the Promotion of Joint International Research (Home-Returning Researcher Development Research)

Allocation TypeMulti-year Fund
Review Section Biological Sciences
Research InstitutionNara Institute of Science and Technology

Principal Investigator

Okamura Katsutomo  奈良先端科学技術大学院大学, 先端科学技術研究科, 教授 (70817733)

Project Period (FY) 2019-04-01 – 2022-03-31
Project Status Completed (Fiscal Year 2021)
Budget Amount *help
¥58,500,000 (Direct Cost: ¥45,000,000、Indirect Cost: ¥13,500,000)
KeywordsmiRNA / トランスクリプトーム / 転写後制御 / microRNA / 遺伝子発現制御 / RNA結合蛋白質 / RNAプロセシング / 遺伝子発現調節 / バイオインフォマティクス
Outline of Final Research Achievements

To maintain the levels of gene products within the normal range, genes are regulated at various levels including the process known as transcription, where DNA sequence is copied onto RNA molecules, and the processes after that. We focused our attention to a group of genes called microRNAs (miRNAs) that encode small RNAs as their gene products, and studied how miRNAs are regulated after transcription. By analyzing large gene expression data derived from human cancers, we identified candidates of novel mechanisms that might regulate the efficiency of miRNA production. By developing new methodsof biochemical and cell biological analyses, we molecularly characterized the novel mechanisms. In addition, we studied how levels of proteins involved in miRNA processing change over time during cellular differentiation. These results will help us understand how different types of genes including miRNA genes and protein coding genes are coordinately regulated to achieve precise gene regulation.

Academic Significance and Societal Importance of the Research Achievements

今回の研究から様々な蛋白質がmiRNA遺伝子の発現制御に関わることが明らかになった。今回見つかった機構の多くは以前から蛋白質をコードする遺伝子のmRNAの生合成制御に関わることが知られている機構であり、miRNAとmRNAの生合成が共通の機構で制御されている可能性を示唆している。このような協調的機構が正常な細胞分化、発生過程でどのように機能しているのか、その破綻がどのようにして疾患につながるのか、今後の解析が必要である。本研究で開発された手法や実験材料は今後の本分野での研究に貢献できると期待される。

Report

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

    (21 results)

All 2021 2020 2019 Other

All Int'l Joint Research (9 results) Journal Article (3 results) (of which Int'l Joint Research: 3 results,  Open Access: 2 results,  Peer Reviewed: 1 results) Presentation (8 results) (of which Int'l Joint Research: 2 results,  Invited: 2 results) Book (1 results)

  • [Int'l Joint Research] Temasek Life Sciences Laboratory/National University of Singapore/National Neuroscience Institute(シンガポール)

    • Related Report
      2021 Annual Research Report
  • [Int'l Joint Research] King's College London(英国)

    • Related Report
      2021 Annual Research Report
  • [Int'l Joint Research] Memorial Sloan-Kettering Cancer Center(米国)

    • Related Report
      2021 Annual Research Report
  • [Int'l Joint Research] シンガポール国立大/南洋工科大(シンガポール)

    • Related Report
      2020 Research-status Report
  • [Int'l Joint Research] スローンケタリング癌センター(米国)

    • Related Report
      2020 Research-status Report
  • [Int'l Joint Research] King's College, London(英国)

    • Related Report
      2020 Research-status Report
  • [Int'l Joint Research] シンガポール国立大/南洋工科大(シンガポール)

    • Related Report
      2019 Research-status Report
  • [Int'l Joint Research] スローンケタリング癌センター(アメリカ合衆国)

    • Related Report
      2019 Research-status Report
  • [Int'l Joint Research] King's College, London(イギリス)

    • Related Report
      2019 Research-status Report
  • [Journal Article] RNA-dependent RNA polymerases in the black-legged tick produce Argonaute-dependent small RNAs and regulate genes2021

    • Author(s)
      Feng, Canran; Torimaru, Kyosuke; Lim, Mandy Yu Theng; Chak, Li-Ling; Tsuji, Kosuke; Tanaka, Tetsuya; Iida, Junko; Okamura, Katsutomo
    • Journal Title

      bioRxiv

      Volume: -

    • DOI

      10.1101/2021.09.19.460923

    • NAID

      120007186859

    • Related Report
      2021 Annual Research Report
    • Open Access / Int'l Joint Research
  • [Journal Article] microRNA-150-5p: A Novel Blood-Based Biomarker for Alzheimer’s Dementia with Good Correlation to Cognition, Cerebrospinal Fluid Amyloid-β, and Cerebral Atrophy2021

    • Author(s)
      Sook-Yoong Chia Ashwati Vipin Kok-Pin Ng Haitao Tu Ananth Bommakanti Brian Zhiyang Wang Yi Jayne Tan Fatin Zahra Zailan Adeline Su-Lyn Ng Shuo-Chian Ling3 Katsutomo Okamura Eng-King Tan Nagaendran Kandiah Li Zeng
    • Journal Title

      Research Square

      Volume: -

    • DOI

      10.21203/rs.3.rs-942370/v1

    • Related Report
      2021 Annual Research Report
    • Open Access / Int'l Joint Research
  • [Journal Article] Incorporating 2-Thiouracil into Short Double-Stranded RNA-Binding Peptide Nucleic Acids for Enhanced Recognition of A-U Pairs and for Targeting a MicroRNA Hairpin Precursor.2019

    • Author(s)
      Ong A. L., Toh D. K., Krishna M. S., Patil K. M., Okamura K. and Chen G.
    • Journal Title

      Biochemistry

      Volume: 58 Issue: 32 Pages: 3444-3453

    • DOI

      10.1021/acs.biochem.9b00521

    • Related Report
      2019 Research-status Report
    • Peer Reviewed / Int'l Joint Research
  • [Presentation] Novel tick RdRP-dependent small RNA pathways have roles in gene regulation2021

    • Author(s)
      Canran Feng Mandy Yu Theng Lim Li-Ling Chak Junko Iida Katsutomo Okamura
    • Organizer
      RNA meeting 2021 in Tsuruoka
    • Related Report
      2021 Annual Research Report
  • [Presentation] Improvement of intronic knock-in system by using NHEJ (non-homologous end joining) for in vivo characterization of RNA-binding proteins2021

    • Author(s)
      Yuma Hanai Yae Toda Katsutomo Okamura
    • Organizer
      RNA meeting 2021 in Tsuruoka
    • Related Report
      2021 Annual Research Report
  • [Presentation] Global prediction of regulators of miRNA processing using cancer cell line gene expression data.2021

    • Author(s)
      Ryosuke Hirota Junko Iida Katsutomo Okamura
    • Organizer
      RNA society meeting
    • Related Report
      2021 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Argonauteによる成熟miRNA産生の選択的促進の生物学的役割2021

    • Author(s)
      Yun Sungsik, Lee Li Ming , 島本 廉, Wan Yun Ho, Shuo-Chien Ling, Eugene V. Makeyev, 岡村 勝友
    • Organizer
      日本分子生物学会
    • Related Report
      2021 Annual Research Report
  • [Presentation] miRNA生合成の制御2021

    • Author(s)
      岡村 勝友
    • Organizer
      東名産学官・医連携研究会
    • Related Report
      2021 Annual Research Report
    • Invited
  • [Presentation] Regulation of miRNA biogenesis2020

    • Author(s)
      Katsutomo Okamura
    • Organizer
      AMSI BIOINFOSUMMER 2020
    • Related Report
      2020 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] A potential role for an alternative rRNA processing mechanism in gene regulation via the production of a miRNA.2019

    • Author(s)
      Ananth Bommakanti and Katsutomo Okamura
    • Organizer
      日本RNA学会 年会
    • Related Report
      2019 Research-status Report
  • [Presentation] Biological roles for selective promotion of miRNA dicing by Argonautes2019

    • Author(s)
      Li Ming Lee, Ren Shimamoto, Wan Yun Ho, Shuo-Chien Ling, Eugene V. Makeyev and Katsutomo Okamura
    • Organizer
      日本分子生物学会 年会
    • Related Report
      2019 Research-status Report
  • [Book] 核酸科学ハンドブック 杉本 直己編(第11章-3、小分子RNA)2020

    • Author(s)
      島本 廉、岡村 勝友
    • Pages
      339-349
    • Total Pages
      565
    • Publisher
      講談社サイエンティフィク
    • Related Report
      2020 Research-status Report

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Published: 2018-03-28   Modified: 2023-01-30  

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