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Small RNA pathway analysis on C. elegans and the relatives

Research Project

Project/Area Number 19H03212
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Review Section Basic Section 43050:Genome biology-related
Research InstitutionThe University of Tokyo (2021-2023)
University of Miyazaki (2019-2020)

Principal Investigator

Kikuchi Taisei  東京大学, 大学院新領域創成科学研究科, 教授 (20353659)

Co-Investigator(Kenkyū-buntansha) 平形 樹生  東京大学, 大学院理学系研究科(理学部), 助教 (40844791)
佐藤 薫  東京大学, 大学院理学系研究科(理学部), 助教 (20548507)
塩見 美喜子  東京大学, 大学院理学系研究科(理学部), 教授 (20322745)
Project Period (FY) 2019-04-01 – 2023-03-31
Project Status Completed (Fiscal Year 2023)
Budget Amount *help
¥17,160,000 (Direct Cost: ¥13,200,000、Indirect Cost: ¥3,960,000)
Fiscal Year 2022: ¥4,550,000 (Direct Cost: ¥3,500,000、Indirect Cost: ¥1,050,000)
Fiscal Year 2021: ¥4,030,000 (Direct Cost: ¥3,100,000、Indirect Cost: ¥930,000)
Fiscal Year 2020: ¥3,900,000 (Direct Cost: ¥3,000,000、Indirect Cost: ¥900,000)
Fiscal Year 2019: ¥4,680,000 (Direct Cost: ¥3,600,000、Indirect Cost: ¥1,080,000)
Keywordsゲノム構造変化 / C. elegans / 姉妹種 / トランスポゾン / 進化 / ゲノム / small RNA / ゲノム構造進化 / 比較ゲノム / トランポゾン / 近縁種
Outline of Research at the Start

トランスポゾンは生物進化を助長する一方で、トランスポゾンの転移活性はゲノム損傷ひいては致死を引き起こすため、真核生物はSmall RNAによるRNAサイレンシング機構を駆使してトランスポゾンを抑制する。本研究ではモデル生物であるC. elegansと、近年発見された姉妹種C. inopinataの比較解析を行うことで、トランスポゾンによるゲノムの構造進化、さらにそれを制御するsmall RNA機構を明らかにすることを目的として行う。

Outline of Final Research Achievements

Transposons are essential for biological evolution; however, their transfer can lead to genetic damage, resulting in severe consequences, including infertility and death. The genome of C. inopinata, a closely related species of C. elegans found on Ishigaki Island, contains a high number of transposons. In this study, we performed a small RNA expression analysis across various developmental stages of C. inopinata and C. elegans, uncovering a unique small RNA profile in C. inopinata. We also performed a genome comparison of wild isolates to shed light on the dynamics of transposons in wild strains of C. inopinata.

Academic Significance and Societal Importance of the Research Achievements

トランスポゾンは生物の進化に役立つ一方で、ゲノムにダメージを与え、生殖障害や死亡を引き起こすリスクがあります。真核生物はこれを防ぐため、Small RNAによるRNAサイレンシングでトランスポゾンを抑制しています。石垣島で発見されたC. elegansの姉妹種C. inopinataは、体が約2倍大きく、繁殖方法や生態が異なります。研究により、C. inopinataのゲノムには多くのトランスポゾンがあり、重要な遺伝子が損傷を受けていることが分かりました。small RNAパスウェイの変化がトランスポゾンの活性化に関与している可能性もあきらかとなりました。

Report

(5 results)
  • 2023 Final Research Report ( PDF )
  • 2022 Annual Research Report
  • 2021 Annual Research Report
  • 2020 Annual Research Report
  • 2019 Annual Research Report
  • Research Products

    (9 results)

All 2024 2023 2022 Other

All Int'l Joint Research (2 results) Journal Article (7 results) (of which Int'l Joint Research: 6 results,  Peer Reviewed: 7 results,  Open Access: 6 results)

  • [Int'l Joint Research] University of Bath(英国)

    • Related Report
      2022 Annual Research Report
  • [Int'l Joint Research] Duzce University(トルコ)

    • Related Report
      2022 Annual Research Report
  • [Journal Article] Aberrant sparganosis in cat caused by Spirometra mansoni (Cestoda:Diphyllobothriidae): a case report2024

    • Author(s)
      Tokiwa Toshihiro、Fushimi Momo、Chou Shyun、Yoshida Akemi、Kinoshita Kensei、Hikima Atsushi、Kikuchi Taisei、Ozaki Kiyokazu
    • Journal Title

      BMC Veterinary Research

      Volume: 20 Issue: 1

    • DOI

      10.1186/s12917-024-03995-z

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Differentially Expressed Genes Associated with Body Size Changes and Transposable Element Insertions between Caenorhabditis elegans and Its Sister Species, Caenorhabditis inopinata2023

    • Author(s)
      Kawahara Kazuma、Inada Taruho、Tanaka Ryusei、Dayi Mehmet、Makino Takashi、Maruyama Shinichiro、Kikuchi Taisei、Sugimoto Asako、Kawata Masakado
    • Journal Title

      Genome Biology and Evolution

      Volume: 15 Issue: 4

    • DOI

      10.1093/gbe/evad063

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] The <i>Aphelenchoides</i> genomes reveal substantial horizontal gene transfers in the last common ancestor of free‐living and major plant‐parasitic nematodes2023

    • Author(s)
      Lai Cheng‐Kuo、Lee Yi‐Chien、Ke Huei‐Mien、Lu Min R.、Liu Wei‐An、Lee Hsin‐Han、Liu Yu‐Ching、Yoshiga Toyoshi、Kikuchi Taisei、Chen Peichen J.、Tsai Isheng Jason
    • Journal Title

      Molecular Ecology Resources

      Volume: 23 Issue: 4 Pages: 905-919

    • DOI

      10.1111/1755-0998.13752

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] The compact genome of Caenorhabditis niphades n. sp., isolated from a wood-boring weevil, Niphades variegatus2022

    • Author(s)
      Sun Simo、Kanzaki Natsumi、Dayi Mehmet、Maeda Yasunobu、Yoshida Akemi、Tanaka Ryusei、Kikuchi Taisei
    • Journal Title

      BMC Genomics

      Volume: 23 Issue: 1 Pages: 765-765

    • DOI

      10.1186/s12864-022-09011-8

    • Related Report
      2022 Annual Research Report 2021 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Possible stochastic sex determination in Bursaphelenchus nematodes2022

    • Author(s)
      Shinya Ryoji、Sun Simo、Dayi Mehmet、Tsai Isheng Jason、Miyama Atsushi、Chen Anthony Fu、Hasegawa Koichi、Antoshechkin Igor、Kikuchi Taisei、Sternberg Paul W.
    • Journal Title

      Nature Communications

      Volume: 13 Issue: 1 Pages: 2574-2574

    • DOI

      10.1038/s41467-022-30173-2

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] The GATA factor ELT-3 specifies endoderm in Caenorhabditis angaria in an ancestral gene network2022

    • Author(s)
      Broitman-Maduro Gina、Sun Simo、Kikuchi Taisei、Maduro Morris F.
    • Journal Title

      Development

      Volume: 149 Issue: 21

    • DOI

      10.1242/dev.200984

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] piRNA-like small RNAs target transposable elements in a Clade IV parasitic nematode2022

    • Author(s)
      Suleiman Mona、Kounosu Asuka、Murcott Ben、Dayi Mehmet、Pawluk Rebecca、Yoshida Akemi、Viney Mark、Kikuchi Taisei、Hunt Vicky L.
    • Journal Title

      Scientific Reports

      Volume: 12 Issue: 1

    • DOI

      10.1038/s41598-022-14247-1

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research

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Published: 2019-04-18   Modified: 2025-01-30  

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