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A histone modication-based synthetic circuit to engineer temporal gene expression in Arabidopsis floral meristems

Research Project

Project/Area Number 18H02465
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Review Section Basic Section 44030:Plant molecular biology and physiology-related
Research InstitutionNara Institute of Science and Technology

Principal Investigator

Nobutoshi Yamaguchi  奈良先端科学技術大学院大学, 先端科学技術研究科, 准教授 (90767899)

Project Period (FY) 2018-04-01 – 2023-03-31
Project Status Completed (Fiscal Year 2022)
Budget Amount *help
¥17,030,000 (Direct Cost: ¥13,100,000、Indirect Cost: ¥3,930,000)
Fiscal Year 2022: ¥2,860,000 (Direct Cost: ¥2,200,000、Indirect Cost: ¥660,000)
Fiscal Year 2021: ¥3,250,000 (Direct Cost: ¥2,500,000、Indirect Cost: ¥750,000)
Fiscal Year 2020: ¥2,990,000 (Direct Cost: ¥2,300,000、Indirect Cost: ¥690,000)
Fiscal Year 2019: ¥3,640,000 (Direct Cost: ¥2,800,000、Indirect Cost: ¥840,000)
Fiscal Year 2018: ¥4,290,000 (Direct Cost: ¥3,300,000、Indirect Cost: ¥990,000)
Keywordsシロイヌナズナ / 花発生 / エピゲノム / 遺伝子発現 / 転写因子 / 植物分子遺伝学 / エピジェネティクス / 花の形態形成
Outline of Final Research Achievements

The AG regulates floral meristem termination by preventing maintenance of the histone modification H3K27me3 along the KNU coding sequence. At two days after AG binding, cell division has diluted the repressive mark H3K27me3, allowing activation of KNU transcription prior to floral meristem termination. However, how many other downstream genes are temporally regulated by this intrinsic epigenetic timer is remain unknown.

Here, we identify direct AG targets regulated through cell cycle-coupled H3K27me3 dilution in Arabidopsis thaliana. Expression of the targets occurred later in plants with longer H3K27me3-marked regions. We established a mathematical model to predict gene expression and manipulated temporal gene expression using the H3K27me3-marked del region from the KNU coding sequence. Our results suggest that AG controls the timing of expression of various target genes via cell cycle-coupled dilution of H3K27me3 for proper floral meristem termination and stamen development.

Academic Significance and Societal Importance of the Research Achievements

本研究により、メチル基をもつヒストンの数と分化遺伝子の誘導時期を方程式にして、花の幹細胞の自己複製と分化のバランスを決める際に起こる仕組みを数学的に明らかにし、一般的な法則を見出しました。この法則に従って、メチル基をもつヒストンの数を人為的に増やすと、方程式で計算される時期に分化遺伝子が誘導される実証実験にも成功しました。植物の幹細胞の自己複製と分化の普遍的な仕組みを知るだけでなく、その仕組みを有効に使って農業や園芸の分野で利用していくうえでも大きく貢献すると期待されます。

Report

(6 results)
  • 2022 Annual Research Report   Final Research Report ( PDF )
  • 2021 Annual Research Report
  • 2020 Annual Research Report
  • 2019 Annual Research Report
  • 2018 Annual Research Report
  • Research Products

    (18 results)

All 2023 2022 2019 2018

All Journal Article (18 results) (of which Int'l Joint Research: 4 results,  Peer Reviewed: 14 results,  Open Access: 5 results)

  • [Journal Article] AGAMOUS regulates various target genes via cell cycle?coupled H3K27me3 dilution in floral meristems and stamens2023

    • Author(s)
      Pelayo Margaret Anne、Morishita Fumi、Sawada Haruka、Matsushita Kasumi、Iimura Hideaki、He Zemiao、Looi Liang Sheng、Katagiri Naoya、Nagamori Asumi、Suzuki Takamasa、?irl Marek、Soukup Ale?、Satake Akiko、Ito Toshiro、Yamaguchi Nobutoshi
    • Journal Title

      The Plant Cell

      Volume: - Issue: 8 Pages: 2821-2847

    • DOI

      10.1093/plcell/koad123

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Local and terminal cell differentiation mediated by the jasmonic acid-mediated autophagy evokes petal abscission in Arabidopsis thaliana.2022

    • Author(s)
      Yamamoto H, Furuta Y, Hirakawa T, Uemura A, Pelayo M, Iimura H, Katagiri N, Takeda-Kamiya N, Kumaishi K, Ishiguro S, Ichihashi Y, Suzuki T, Goh T, Toyooka K, Ito T, Yamaguchi N
    • Journal Title

      Research Square

      Volume: -

    • Related Report
      2022 Annual Research Report
  • [Journal Article] A phase-separated transcription factor regulates an interspecific barrier.2022

    • Author(s)
      Fuji S, Yamamoto E, Tangpranomkom S, Kimura Y, Miura H, Yamaguchi N, Niidome M, Shimosato-Asano H, Kato Y, Wada Y, Ito T, Takayama S
    • Journal Title

      Research Square

      Volume: -

    • Related Report
      2022 Annual Research Report
  • [Journal Article] Identification and characterization of drought-tolerant local pigmented rice from Indonesia2022

    • Author(s)
      Sebastian Alfino、Nugroho Ilham Cahyo、Putra Herdin Surya Dwi、Susanto Febri Adi、Wijayanti Putri、Yamaguchi Nobutoshi、Nuringtyas Tri Rini、Purwestri Yekti Asih
    • Journal Title

      Physiology and Molecular Biology of Plants

      Volume: 28 Issue: 5 Pages: 1061-1075

    • DOI

      10.1007/s12298-022-01185-5

    • Related Report
      2022 Annual Research Report
  • [Journal Article] Seed Halopriming Improves Salinity Tolerance of Some Rice Cultivars During Seedling Stage2022

    • Author(s)
      Hidayah Anik、Nisak Rizka Rohmatin、Susanto Febri Adi、Nuringtyas Tri Rini、Yamaguchi Nobutoshi、Purwestri Yekti Asih
    • Journal Title

      Botanical Studies

      Volume: 63 Issue: 1

    • DOI

      10.1186/s40529-022-00354-9

    • Related Report
      2022 Annual Research Report
  • [Journal Article] Editorial: Epigenetics in Plant Development2022

    • Author(s)
      Nobutoshi Yamaguchi
    • Journal Title

      Frontiers in Plant Science

      Volume: -

    • DOI

      10.21203/rs.3.rs-1240596/v1

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Abscisic acid-dependent histone demethylation during postgermination growth arrest in Arabidopsis.2019

    • Author(s)
      Wu, J., Ichihashi, Y., Suzuki, T., Shibata, A., Shirasu, K., Yamaguchi, N. and Ito T.
    • Journal Title

      Plant Cell and Environment

      Volume: 42 Pages: 2198-2214

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Histone demethylases control root elongation in response to stress-signaling hormone abscisic acid.2019

    • Author(s)
      Wu, J., Yamaguchi, N. and Ito T.
    • Journal Title

      Plant Signaling and Behavior

      Volume: 14 Pages: 1604019-1604019

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] When to stop: an update on molecular mechanisms of floral meristem termination.2019

    • Author(s)
      Xu Y., Yamaguchi, N. Gan, E-S., and Ito, T.
    • Journal Title

      Journal of Experimental Botany

      Volume: 70 Pages: 1711-1718

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Integration of transcriptional repression and Polycomb-mediated silencing of WUSCHEL in floral meristems.2019

    • Author(s)
      Sun, B., Zhou, Y., Cai, J., Shang E., Yamaguchi, N., Xiao, J., Looi, L-S., Wee W-Y., Gao, X., Wagner, D., and Ito, T.
    • Journal Title

      Plant Cell

      Volume: 31 Pages: 1488-1505

    • NAID

      120006726651

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] The roles of plant hormones and their interactions with regulatory genes in determining meristem activity.2019

    • Author(s)
      Ze Hong, L., Hirakawa, T., Yamaguchi, N., Ito, T.
    • Journal Title

      International Journals of Molecular Sciences

      Volume: 20 Pages: 4065-4065

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Lateral root initiation requires the sequential induction of transcription factors LBD16 and PUCHI in Arabidopsis thaliana.2019

    • Author(s)
      Goh, T., Toyokura, K., Yamaguchi, N., Okamoto, T., Uehara, T., Kaneko, S., Takebayashi, Y., Kasahara, H., Ikeyama, Y., Okushima, Y., Nakajima, K., Mimura, T., Tasaka, M., and Fukaki, H.
    • Journal Title

      New Phytologist

      Volume: 222 Pages: 2-2

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] CRABS CLAW and SUPERMAN coordinate hormone-, stress-, and metabolic-related gene expression during Arabidopsis stamen development.2019

    • Author(s)
      Ze Hong, L., Tatsumi, Y., Ichihashi, Y., Suzuki, T., Shibata, A., Shirasu, K., Yamaguchi, N. and Ito T.
    • Journal Title

      Frontiers in Ecology and Evolution.

      Volume: 7 Pages: 437-437

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Abscisic acid‐dependent histone demethylation during postgermination growth arrest in Arabidopsis2019

    • Author(s)
      Wu Jinfeng、Ichihashi Yasunori、Suzuki Takamasa、Shibata Arisa、Shirasu Ken、Yamaguchi Nobutoshi、Ito Toshiro
    • Journal Title

      Plant, Cell & Environment

      Volume: - Issue: 7 Pages: 2198-2214

    • DOI

      10.1111/pce.13547

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Chromatin-mediated feed-forward auxin biosynthesis in floral meristem determinacy.2018

    • Author(s)
      Yamaguchi, N., Huang, J., Tatsumi, Y., Abe, M., Sugano, S. S., Kojima, M., Takebayashi, Y., Kiba, T., Yokoyama, R., Nishitani, K., Sakakibara, H., and Ito, T.
    • Journal Title

      Nature Commun.

      Volume: 9 Issue: 1 Pages: 5290-5290

    • DOI

      10.1038/s41467-018-07763-0

    • NAID

      120006549567

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] SUPERMAN regulates floral whorl boundaries through control of auxin biosynthesis.2018

    • Author(s)
      Xu, Y., Prunet, N., Gan, E-S., Wang, Y., Stewart, D., Wellmer, F., Huang, J., Yamaguchi, N., Tatsumi, Y., Kojima, M., Kiba, T., Sakakibara, H., Jack, T.P., Meyerowitz, E.M., Ito, T.
    • Journal Title

      EMBO Journal

      Volume: - Issue: 11

    • DOI

      10.15252/embj.201797499

    • NAID

      120006478564

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Using CRISPR/Cas9 System to Introduce Targeted Mutation in Arabidopsis2018

    • Author(s)
      Ze Hong Lee, Nobutoshi Yamaguchi, Toshiro Ito
    • Journal Title

      Plant Transcription Factors.Methods in molecular biology (Clifton, N.J.)

      Volume: 1830 Pages: 93-108

    • DOI

      10.1007/978-1-4939-8657-6_6

    • ISBN
      9781493986569, 9781493986576
    • Related Report
      2018 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Gene Expression and Transcription Factor Binding Tests Using Mutated-Promoter Reporter Lines2018

    • Author(s)
      Nishizawa-Yokoi Ayako、Yamaguchi Nobutoshi
    • Journal Title

      Methods in molecular biology (Clifton, N.J.)

      Volume: 2 Pages: 291-305

    • DOI

      10.1007/978-1-4939-8657-6_17

    • ISBN
      9781493986569, 9781493986576
    • Related Report
      2018 Annual Research Report
    • Peer Reviewed

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Published: 2018-04-23   Modified: 2024-01-30  

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