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Understanding genomic bases of coral-algae symbioses occurring in nature

Research Project

Project/Area Number 20H03235
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

Principal Investigator

Shinzato Chuya  東京大学, 大気海洋研究所, 准教授 (70524726)

Co-Investigator(Kenkyū-buntansha) 山下 洋  国立研究開発法人水産研究・教育機構, 水産技術研究所(長崎), 主任研究員 (00583147)
鈴木 豪  国立研究開発法人水産研究・教育機構, 水産技術研究所(長崎), 主任研究員 (30533319)
將口 栄一  沖縄科学技術大学院大学, マリンゲノミックスユニット, グループリーダー (90378563)
Project Period (FY) 2020-04-01 – 2023-03-31
Project Status Completed (Fiscal Year 2023)
Budget Amount *help
¥17,550,000 (Direct Cost: ¥13,500,000、Indirect Cost: ¥4,050,000)
Fiscal Year 2022: ¥3,510,000 (Direct Cost: ¥2,700,000、Indirect Cost: ¥810,000)
Fiscal Year 2021: ¥5,720,000 (Direct Cost: ¥4,400,000、Indirect Cost: ¥1,320,000)
Fiscal Year 2020: ¥8,320,000 (Direct Cost: ¥6,400,000、Indirect Cost: ¥1,920,000)
Keywordsサンゴ / 褐虫藻 / 共生 / 遺伝子 / ゲノム
Outline of Research at the Start

サンゴ礁は、地球上で最も生物多様性の豊かな生態系の一つである。サンゴ礁を形成する造礁サンゴは、細胞内の共生藻類と密接な相利共生関係を築いている。サンゴと藻類の共生関係の崩壊である白化現象が頻発し、世界中でサンゴ礁が減少を続けている一方、サンゴ礁の基盤となるサンゴ-藻類の共生メカニズムやその成立・維持の分子機構は、未だ多くが謎のままである。本研究は、実際の海の中でのサンゴと藻類の共生関係が、どのように成立・維持機構されているのか、異なる共生様式を持つサンゴの比較ゲノムや自然界のサンゴと藻類の共生関係を反映した実験システム、分子生物学的手法を駆使し、正確に理解することを目指す。

Outline of Final Research Achievements

Reef-building corals (Scleractinia, Anthozoa, Cnidaria) are the keystone organisms of coral reefs, the most diverse marine ecosystems. Reef-building stony corals harbor endosymbiotic photosynthetic dinoflagellates of the family Symbiodiniaceae, which provide the majority of their photosynthetic products to the host corals. Coral bleaching, a breakdown of the mutualism between corals and their symbiotic dinoflagellates, caused mainly by increased ocean temperatures, is one of the major causes of coral reef decline. However, the molecular mechanisms of coral-algal symbiosis are still largely unknown. In this study, we aimed to identify genes involved in symbiosis with native coral symbiontic algae and to develop genomic tools for elucidating the symbiosis mechanisms of corals and other symbiotic marine animals.

Academic Significance and Societal Importance of the Research Achievements

ミドリイシ属サンゴから単離された株を含む、由来の異なる複数の褐虫藻培養株を感染させ、それぞれの株に対するサンゴの遺伝子発現応答を比較することで、本来の共生相手である褐虫藻との共生に関わる遺伝子群を効率的に絞り込むことに成功した。毎世代ごとに環境中から褐虫藻を獲得する水平伝播型と、親から褐虫藻を受け継ぐ垂直伝播型の両方の共生様式を示すサンゴのゲノム解読や、他の海洋共生生物のゲノムを解読し、海洋生物の共生メカニズムを解明するためのゲノム基盤を整備することができた。

Report

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

    (30 results)

All 2024 2023 2022 2021 2020

All Journal Article (16 results) (of which Int'l Joint Research: 4 results,  Peer Reviewed: 16 results,  Open Access: 16 results) Presentation (14 results) (of which Int'l Joint Research: 1 results,  Invited: 1 results)

  • [Journal Article] Genomic Data Reveal Diverse Biological Characteristics of Scleractinian Corals and Promote Effective Coral Reef Conservation2024

    • Author(s)
      Shinzato Chuya、Yoshioka Yuki
    • Journal Title

      Genome Biology and Evolution

      Volume: 16 Issue: 2 Pages: 1-8

    • DOI

      10.1093/gbe/evae014

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Genes possibly related to symbiosis in early life stages of Acropora tenuis inoculated with Symbiodinium microadriaticum2023

    • Author(s)
      Yoshioka Yuki、Chiu Yi-Ling、Uchida Taiga、Yamashita Hiroshi、Suzuki Go、Shinzato Chuya
    • Journal Title

      Communications Biology

      Volume: 6 Issue: 1 Pages: 1-11

    • DOI

      10.1038/s42003-023-05350-8

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Genomic and transcriptomic analyses illuminate the molecular basis of the unique lifestyle of a tubeworm, <i>Lamellibrachia satsuma</i>2023

    • Author(s)
      Uchida Taiga、Yoshioka Yuki、Yoshida Yu、Fujie Manabu、Yamaki Ayuta、Sasaki Akira、Inoue Koji、Shinzato Chuya
    • Journal Title

      DNA Research

      Volume: 30 Issue: 4

    • DOI

      10.1093/dnares/dsad014

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Genomic analysis of a reef‐building coral, <i>Acropora digitifera</i> , reveals complex population structure and a migration network in the Nansei Islands, Japan2022

    • Author(s)
      Tsuchiya Kojin、Zayasu Yuna、Nakajima Yuichi、Arakaki Nana、Suzuki Go、Satoh Noriyuki、Shinzato Chuya
    • Journal Title

      Molecular Ecology

      Volume: 31 Issue: 20 Pages: 5270-5284

    • DOI

      10.1111/mec.16665

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Comparative genomics highlight the importance of lineage-specific gene families in evolutionary divergence of the coral genus, Montipora2022

    • Author(s)
      Yoshioka Yuki、Suzuki Go、Zayasu Yuna、Yamashita Hiroshi、Shinzato Chuya
    • Journal Title

      BMC Ecology and Evolution

      Volume: 22 Issue: 1 Pages: 71-71

    • DOI

      10.1186/s12862-022-02023-8

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Evolutionary History of DMSP Lyase-Like Genes in Animals and Their Possible Involvement in Evolution of the Scleractinian Coral Genus, Acropora2022

    • Author(s)
      Chiu Yi-Ling、Shinzato Chuya
    • Journal Title

      Frontiers in Marine Science

      Volume: 9

    • DOI

      10.3389/fmars.2022.889866

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Larval transcriptomic responses of a stony coral, Acropora tenuis, during initial contact with the native symbiont, Symbiodinium microadriaticum2022

    • Author(s)
      Yoshioka Yuki、Yamashita Hiroshi、Suzuki Go、Shinzato Chuya
    • Journal Title

      Scientific Reports

      Volume: 12 Issue: 1 Pages: 2854-2854

    • DOI

      10.1038/s41598-022-06822-3

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Whole-Genome Sequencing Highlights Conservative Genomic Strategies of a Stress-Tolerant, Long-Lived Scleractinian Coral, Porites australiensis Vaughan, 19182021

    • Author(s)
      Chuya Shinzato, Takeshi Takeuchi, Yuki Yoshioka, Ipputa Tada, Miyuki Kanda, Cedric Broussard, Akira Iguchi, Makoto Kusakabe, Frederic Marin, Noriyuki Satoh, Mayuri Inoue
    • Journal Title

      Genome Biology and Evolution

      Volume: 13 Issue: 12 Pages: 1-16

    • DOI

      10.1093/gbe/evab270

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Color morphs of the coral, <i>Acropora tenuis</i>, show different responses to environmental stress and different expression profiles of fluorescent-protein genes2021

    • Author(s)
      Satoh Noriyuki、Kinjo Koji、Shintaku Kohei、Kezuka Daisuke、Ishimori Hiroo、Yokokura Atsushi、Hagiwara Kazutaka、Hisata Kanako、Kawamitsu Mayumi、Koizumi Koji、Shinzato Chuya、Zayasu Yuna
    • Journal Title

      G3 Genes|Genomes|Genetics

      Volume: 11 Issue: 2

    • DOI

      10.1093/g3journal/jkab018

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Novel Mitochondrial DNA Markers for Scleractinian Corals and Generic-Level Environmental DNA Metabarcoding2021

    • Author(s)
      Shinzato Chuya、Narisoko Haruhi、Nishitsuji Koki、Nagata Tomofumi、Satoh Noriyuki、Inoue Jun
    • Journal Title

      Frontiers in Marine Science

      Volume: 8 Pages: 1-9

    • DOI

      10.3389/fmars.2021.758207

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Can Acropora tenuis larvae attract native Symbiodiniaceae cells by green fluorescence at the initial establishment of symbiosis?2021

    • Author(s)
      Yamashita H, Koike K, Shinzato C, Jimbo M, Suzuki G
    • Journal Title

      PLoS ONE

      Volume: 16 Issue: 6 Pages: e0252514-e0252514

    • DOI

      10.1371/journal.pone.0252514

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] A New Dinoflagellate Genome Illuminates a Conserved Gene Cluster Involved in Sunscreen Biosynthesis2021

    • Author(s)
      Shoguchi Eiichi、Beedessee Girish、Hisata Kanako、Tada Ipputa、Narisoko Haruhi、Satoh Noriyuki、Kawachi Masanobu、Shinzato Chuya
    • Journal Title

      Genome Biology and Evolution

      Volume: 13 Issue: 2

    • DOI

      10.1093/gbe/evaa235

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Correlation between Organelle Genetic Variation and RNA Editing in Dinoflagellates Associated with the Coral Acropora digitifera2020

    • Author(s)
      Shoguchi Eiichi、Yoshioka Yuki、Shinzato Chuya、Arimoto Asuka、Bhattacharya Debashish、Satoh Noriyuki
    • Journal Title

      Genome Biology and Evolution

      Volume: 12 Issue: 3 Pages: 203-209

    • DOI

      10.1093/gbe/evaa042

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] De novo transcriptome assembly from the gonads of a scleractinian coral, Euphyllia ancora: molecular mechanisms underlying scleractinian gametogenesis2020

    • Author(s)
      Chiu Yi-Ling、Shikina Shinya、Yoshioka Yuki、Shinzato Chuya、Chang Ching-Fong
    • Journal Title

      BMC Genomics

      Volume: 21 Issue: 1

    • DOI

      10.1186/s12864-020-07113-9

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Whole-Genome Transcriptome Analyses of Native Symbionts Reveal Host Coral Genomic Novelties for Establishing Coral?Algae Symbioses2020

    • Author(s)
      Yoshioka Yuki、Yamashita Hiroshi、Suzuki Go、Zayasu Yuna、Tada Ipputa、Kanda Miyuki、Satoh Noriyuki、Shoguchi Eiichi、Shinzato Chuya
    • Journal Title

      Genome Biology and Evolution

      Volume: 13 Issue: 1 Pages: 1-18

    • DOI

      10.1093/gbe/evaa240

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Eighteen Coral Genomes Reveal the Evolutionary Origin of Acropora Strategies to Accommodate Environmental Changes2020

    • Author(s)
      Shinzato Chuya、Khalturin Konstantin、Inoue Jun、Zayasu Yuna、Kanda Miyuki、Kawamitsu Mayumi、Yoshioka Yuki、Yamashita Hiroshi、Suzuki Go、Satoh Noriyuki
    • Journal Title

      Molecular Biology and Evolution

      Volume: 38 Issue: 1 Pages: 16-30

    • DOI

      10.1093/molbev/msaa216

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Presentation] シャコガイのゲノム解読と網羅的遺伝子発現解析による共生関連遺伝子の探索2024

    • Author(s)
      内田大賀, 島田剛,山下洋, 藤江学, 將口栄一, 新里宙也
    • Organizer
      日本水産学会春季大会
    • Related Report
      2022 Annual Research Report
  • [Presentation] ウスエダミドリイシの初期生活期における共生関連遺伝子2023

    • Author(s)
      善岡祐輝、Yi-Ling Chiu、内田大賀 、山下洋、鈴木豪、新里宙也
    • Organizer
      日本サンゴ礁学会
    • Related Report
      2022 Annual Research Report
  • [Presentation] Evolutionary strategy of the coral Montipora2023

    • Author(s)
      善岡祐輝、新里宙也
    • Organizer
      第25回日本進化学会
    • Related Report
      2022 Annual Research Report
  • [Presentation] サンゴ-褐虫藻共生系の分子機構:異なる褐虫藻に対する宿主の遺伝子応答から探る2022

    • Author(s)
      善岡祐輝, 新里宙也
    • Organizer
      第81回日本寄生虫学会東日本支部大会・日本共生生物学会第6回大会合同大会
    • Related Report
      2022 Annual Research Report
  • [Presentation] 共生開始時におけるウスエダミドリイシの異なる褐虫藻株に対する遺伝子発現応答の網羅的比較2022

    • Author(s)
      善岡 祐輝,山下 洋,鈴木 豪,新里 宙也
    • Organizer
      日本サンゴ礁学会
    • Related Report
      2022 Annual Research Report
  • [Presentation] ナガレハナサンゴにおける蛍光タンパク質遺伝子の独自進化2022

    • Author(s)
      内田 大賀,識名 信也,新里 宙也
    • Organizer
      日本サンゴ礁学会
    • Related Report
      2022 Annual Research Report
  • [Presentation] サツマハオリムシのゲノム解析と組織別トランスクリプトーム解析による共生関連遺伝子の探索2022

    • Author(s)
      内田大賀, 善岡祐輝, 新里宙也
    • Organizer
      第81回日本寄生虫学会東日本支部大会・日本共生生物学会第6回大会 合同大会
    • Related Report
      2022 Annual Research Report
  • [Presentation] ハマサンゴ,その「コンサバ」なゲノム戦略2021

    • Author(s)
      新里宙也,竹内猛,善岡祐輝,多田一風太,神田美幸,井口亮,日下部誠,佐藤矩行,井上麻夕里
    • Organizer
      日本サンゴ礁学会24回大会
    • Related Report
      2021 Annual Research Report
  • [Presentation] Using genomics to reveal novel insights into coral biology2021

    • Author(s)
      Chuya Shinzato
    • Organizer
      Genome Concept Centennial Conference
    • Related Report
      2020 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] サツマハオリムシの全ゲノム解読と遺伝子予測2021

    • Author(s)
      吉田悠、善岡祐輝、八巻鮎太、佐々木章、井上広滋、新里宙也
    • Organizer
      令和3年度日本水産学会春季大会
    • Related Report
      2020 Annual Research Report
  • [Presentation] 有藻性サンゴ、ミドリイシ属の種判別遺伝子マーカー開発の取組み2021

    • Author(s)
      村山昌、座安佑奈、鈴木豪、新里宙也
    • Organizer
      令和3年度日本水産学会春季大会
    • Related Report
      2020 Annual Research Report
  • [Presentation] 18種のミドリイシ科サンゴの全ゲノム解読が明らかにする,ミドリイシ属の環境適応戦略2020

    • Author(s)
      新里宙也、Konstantin Khalturin 、井上潤、座安佑奈、神田美幸、川満真由美、善岡祐輝、山下洋、鈴木豪、佐藤矩行
    • Organizer
      日本サンゴ礁学会第23回大会
    • Related Report
      2020 Annual Research Report
  • [Presentation] 造礁サンゴ、コユビミドリイシのゲノムワイドSNPを用いた、南西諸島における集団構造解析2020

    • Author(s)
      土屋考人、座安佑奈、中島祐一、鈴木豪、佐藤矩行、新里宙也
    • Organizer
      日本サンゴ礁学会第23回大会
    • Related Report
      2020 Annual Research Report
  • [Presentation] 高精度な比較ゲノムを可能とするミドリイシ科サンゴからの遺伝子モデル構築2020

    • Author(s)
      善岡祐輝、山下洋、鈴木豪、新里宙也
    • Organizer
      日本サンゴ礁学会第23回大会
    • Related Report
      2020 Annual Research Report

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Published: 2020-04-28   Modified: 2025-01-30  

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