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Integrated platform for analyzing the modes of actions of natural products

Research Project

Project/Area Number 21H02073
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Review Section Basic Section 37020:Chemistry and chemical methodology of biomolecules-related
Research InstitutionWaseda University

Principal Investigator

Nakao Yoichi  早稲田大学, 理工学術院, 教授 (60282696)

Co-Investigator(Kenkyū-buntansha) 町田 光史  早稲田大学, 理工学術院, 講師(任期付) (30778163)
松本 健  国立研究開発法人理化学研究所, 環境資源科学研究センター, 専任研究員 (60222311)
新井 大祐  早稲田大学, 理工学術院, 講師(任期付) (20624951)
Project Period (FY) 2021-04-01 – 2024-03-31
Project Status Completed (Fiscal Year 2023)
Budget Amount *help
¥17,420,000 (Direct Cost: ¥13,400,000、Indirect Cost: ¥4,020,000)
Fiscal Year 2023: ¥4,160,000 (Direct Cost: ¥3,200,000、Indirect Cost: ¥960,000)
Fiscal Year 2022: ¥6,890,000 (Direct Cost: ¥5,300,000、Indirect Cost: ¥1,590,000)
Fiscal Year 2021: ¥6,370,000 (Direct Cost: ¥4,900,000、Indirect Cost: ¥1,470,000)
Keywords作用メカニズム解明 / 天然化合物 / 天然小分子 / 作用メカニズム
Outline of Research at the Start

これまでに魅力的な活性を示す天然化合物が多数発見されて来たが、その作用メカニズムの解明は未だに極めて困難な課題である。その大きな原因は、プローブに結合する数多くの候補タンパク質から、化合物の機能発現に関わる真の標的を絞り込む戦略が確立されていないことにある。本研究では多面的なアプローチによって、標的タンパク質や経路を絞り込むためのプラットフォームを構築する。

Outline of Final Research Achievements

The purpose of this research was to establish a platform for identifying target proteins and pathways of action of various natural compounds. For naturally occurring cytotoxic substances, antiprotozoal substances, cardiac differentiation-inducing active substances, neuronal differentiation-inducing active substances, and food-derived functional substances, we conducted multidimensional mechanism of action analysis by (1) Fishing for target proteins using nano-beads, (2) shRNA/CRISPR-Cas9 screening method, (3) RNA sequencing analysis and (4) cell-based histone modification assay.
As a result, we were able to clarify the mechanism of action for several natural compounds, demonstrating the effectiveness of this research approach.

Academic Significance and Societal Importance of the Research Achievements

これまで、天然化合物の幅広い生物活性について、その活性発現メカニズムを一連の流れで解析可能なプラットフォーム構築の試みが成功した例は多くない。本研究では、細胞毒性に限らず、抗原虫活性、細胞分化や遺伝子スイッチング機構であるヒストン修飾への影響など、幅広い生物活性についてメカニズム解明を可能とするプラットフォーム構築に向けた取り組みを行った。この結果、ある程度効果的に作用メカニズムの解明につながる一連の研究を行える体制を整えることができた。このようなプラットフォームは、多くのメカニズム不明の化合物を多く持つ天然物化学者にとって、研究の進展に貢献しうる意義深いものである。

Report

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

    (54 results)

All 2024 2023 2022 2021 Other

All Journal Article (11 results) (of which Int'l Joint Research: 2 results,  Peer Reviewed: 9 results,  Open Access: 8 results) Presentation (38 results) (of which Int'l Joint Research: 17 results,  Invited: 4 results) Book (1 results) Remarks (2 results) Patent(Industrial Property Rights) (2 results) (of which Overseas: 1 results)

  • [Journal Article] Aurantoside L, a New Tetramic Acid Glycoside with Anti-Leishmanial Activity Isolated from the Marine Sponge Siliquariaspongia japonica2024

    • Author(s)
      Oyadomari Yasumoto、Goto Yasuyuki、Suganuma Keisuke、Kawazu Shin-ichiro、Becking Leontine E.、Fusetani Nobuhiro、Nakao Yoichi
    • Journal Title

      Marine Drugs

      Volume: 22 Issue: 4 Pages: 171-171

    • DOI

      10.3390/md22040171

    • Related Report
      2023 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] 春ウコンに含まれるアストロサイト分化誘導促進物質の同定2023

    • Author(s)
      大塚悟史,中尾洋一
    • Journal Title

      KAGAKU TO SEIBUTSU

      Volume: 61 Issue: 1 Pages: 6-8

    • DOI

      10.1271/kagakutoseibutsu.61.6

    • ISSN
      0453-073X, 1883-6852
    • Year and Date
      2023-01-01
    • Related Report
      2022 Annual Research Report
  • [Journal Article] Proliferation of mammalian cells with <i>Chlorococcum littorale</i> algal compounds without serum support2023

    • Author(s)
      Ghosh Jayeesha、Akiyama Yoshikatsu、Haraguchi Yuji、Yamanaka Kumiko、Asahi Toru、Nakao Yoichi、Shimizu Tatsuya
    • Journal Title

      Biotechnology Progress

      Volume: 40 Issue: 1 Pages: 1-1

    • DOI

      10.1002/btpr.3402

    • Related Report
      2023 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Muscle cell proliferation using water-soluble extract from nitrogen-fixing cyanobacteria Anabaena sp. PCC 7120 for sustainable cultured meat production2023

    • Author(s)
      Ghosh Jayeesha、Haraguchi Yuji、Asahi Toru、Nakao Yoichi、Shimizu Tatsuya
    • Journal Title

      Biochemical and Biophysical Research Communications

      Volume: 682 Pages: 316-324

    • DOI

      10.1016/j.bbrc.2023.10.018

    • Related Report
      2023 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Two Onnamide Analogs from the Marine Sponge Theonella conica: Evaluation of Geometric Effects in the Polyene Systems on Biological Activity2023

    • Author(s)
      Nakamura, F.; Kimura, H.; Fusetani, N.; Nakao, Y.
    • Journal Title

      Molecules

      Volume: 28 Issue: 6 Pages: 2524-2524

    • DOI

      10.3390/molecules28062524

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Alotamide B, a New Cyclic Depsipeptide Isolated from Assemblies of Marine Cyanobacteria, Mainly Consisting of Moorena sp.2023

    • Author(s)
      Aihara, K.; Nakamura, F.; Nakao, Y.
    • Journal Title

      Chem. Lett.

      Volume: 52 Issue: 4 Pages: 270-272

    • DOI

      10.1246/cl.230035

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Cultivation of previously uncultured sponge-associated bacteria using advanced cultivation techniques: A perspective on possible key mechanisms.2022

    • Author(s)
      Jung, D.; Machida, K.; Nakao, Y.; Owen, J. S.; He, S.; Kindaichi, T.; Ohashi, A.; Aoi, Y.
    • Journal Title

      Front. Mar. Sci., Sec. Aquatic Microbiology

      Volume: 9 Pages: 963277-963277

    • DOI

      10.3389/fmars.2022.963277

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Coronarin D, a metabolite from the wild turmeric, Curcuma aromatica, promotes the differentiation of neural stem cells into astrocytes.2022

    • Author(s)
      Otsuka, S.; Kawamura, M.; Fujino, S.; Nakamura, F.; Arai, D.; Fusetani, N.; Nakao, Y.
    • Journal Title

      J. Agr. Food Chem.

      Volume: 70 Issue: 10 Pages: 3300-3309

    • DOI

      10.1021/acs.jafc.2c00020

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Preparation and Application of a Chemical Probe for Identifying the Targets of the Marine Cyclic Peptide Kapakahine A.2022

    • Author(s)
      Kamihira, R.; Nakao, Y.
    • Journal Title

      Molecules

      Volume: 27 Issue: 3 Pages: 1072-1072

    • DOI

      10.3390/molecules27031072

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] クローズアップ実験法 BiPoD:正確かつ高効率な両アレルノックイン新手法2022

    • Author(s)
      新井大祐,中尾洋一
    • Journal Title

      実験医学

      Volume: 40 Pages: 459-464

    • Related Report
      2021 Annual Research Report
  • [Journal Article] Efficient biallelic knock-in in mouse embryonic stem cells by in vivo-linearization of donor and transient inhibition of DNA polymerase θ/DNA-PK.2021

    • Author(s)
      Arai, D.; Nakao, Y.
    • Journal Title

      Sci. Rep.

      Volume: 11 Issue: 1 Pages: 18132-18132

    • DOI

      10.1038/s41598-021-97579-8

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access
  • [Presentation] ココアに含まれるテオブロミンの機能2024

    • Author(s)
      中尾洋一
    • Organizer
      第28回 チョコレート・ココア国際栄養シンポジウム
    • Related Report
      2023 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] マレーシア産黒コショウより抽出された、神経幹細胞分化調節活性を有する化合物の探索2024

    • Author(s)
      舩木美穂、玉澤理彩、神平梨絵、中村文彬、中尾洋一
    • Organizer
      第104回日本化学会春季年会
    • Related Report
      2023 Annual Research Report
  • [Presentation] ヒストン修飾調節活性を示すミクロネシア産海綿由来化合物の探索2024

    • Author(s)
      一藁拓真、喜納惟斗、中村文彬、中尾洋一
    • Organizer
      第104回日本化学会春季年会
    • Related Report
      2023 Annual Research Report
  • [Presentation] 大島新曽根産ドレッジ混獲物からの有用海洋天然化合物の探索2024

    • Author(s)
      青柳智也、中村文彬、中尾洋一
    • Organizer
      第104回日本化学会春季年会
    • Related Report
      2023 Annual Research Report
  • [Presentation] 鹿児島県産海綿からのヒストン修飾調節活性成分の探索2024

    • Author(s)
      佐藤圭、喜納惟斗、中尾洋一
    • Organizer
      第104回日本化学会春季年会
    • Related Report
      2023 Annual Research Report
  • [Presentation] Search for Bioactive Natural Products Affecting Neural Stem Cell Differentiation2023

    • Author(s)
      Nakao, Y.
    • Organizer
      IUPAC/13th International Symposium on Bioorganic Chemistry
    • Related Report
      2023 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] A New Tetramic Acid Glycoside with Anti-Leishmanial Activity Isolated from a Japanese Marine Sponge Siliquariaspongia japonica2023

    • Author(s)
      Oyadomari, Y.; Goto Y.; Suganuma, K.; Kawazu, S.; Becking, L. E.; Fusetani, N.; Nakao, Y.
    • Organizer
      IUPAC/13th International Symposium on Bioorganic Chemistry
    • Related Report
      2023 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Anti-trypanosomal Terpenoids from Wild Turmeric, Curcuma aromatica2023

    • Author(s)
      Oeda, K.; Suganuma, K.; Nakamura, F.; Nakao, Y.
    • Organizer
      IUPAC/13th International Symposium on Bioorganic Chemistry
    • Related Report
      2023 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Structure and Biological Activity of a Novel Alkaloid from the Marine Sponge Theonella sp.2023

    • Author(s)
      Akizuki, K.; Suganuma, K.; Ito, S.; Takahashi, R.; Nakamura, F.; Kawazu, S.; Nakao, Y.
    • Organizer
      IUPAC/13th International Symposium on Bioorganic Chemistry
    • Related Report
      2023 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Lanostane-type Triterpenes from Inonotus obliquus Exert Cytotoxicity against Dog Bladder Cancer Organoids2023

    • Author(s)
      Tse, W. L.; Machida, K.; Shinohara, Y.; Elbadawy, M.; Yamamoto, M.; Usui, T.; Sasaki, K.; and Nakao, Y.
    • Organizer
      The 31st International Symposium on the Chemistry of Natural Products and the 11th International Congress on Biodiversity
    • Related Report
      2023 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Two Unreported Onnamide Analogs form the Marine Sponge Theonella conica2023

    • Author(s)
      Nakamura, F.; Kimura H.; Fusetani, N.; Nakao, Y.
    • Organizer
      The 31st International Symposium on the Chemistry of Natural Products and the 11th International Congress on Biodiversity
    • Related Report
      2023 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Preparation of chemical probes from marine cyclic peptides2023

    • Author(s)
      Kamihira R.; Fujii R.; Nakao, Y.
    • Organizer
      The 31st International Symposium on the Chemistry of Natural Products and the 11th International Congress on Biodiversity
    • Related Report
      2023 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Compounds from green coffee beans regulate post-translational histone modifications.2023

    • Author(s)
      Fujii R.; Nakamura F.; Kamihira R.; Nakao Y.
    • Organizer
      The 31st International Symposium on the Chemistry of Natural Products and the 11th International Congress on Biodiversity
    • Related Report
      2023 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Search for Compounds in Japanese Pepper that Have Activity in Regulating Neural Stem Cell Differentiation2023

    • Author(s)
      Kamijima, T.; Nakamura, F.; Nakao, Y.
    • Organizer
      The 31st International Symposium on the Chemistry of Natural Products and the 11th International Congress on Biodiversity
    • Related Report
      2023 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 大島新曽根産海綿に含まれる新規アルカロイドの構造と生物活性2023

    • Author(s)
      秋月孝太、菅沼啓輔、伊藤駿、高橋伶奈、中村文彬、河津信一郎、中尾洋一
    • Organizer
      第65回天然有機化合物討論会
    • Related Report
      2023 Annual Research Report
  • [Presentation] サフランモドキZephyranthes carinataに含まれるヒストン修飾調節活性化合物の探索2023

    • Author(s)
      秋月孝太、藤井怜子、中村文彬、木村宏、中尾洋一
    • Organizer
      第56回天然物化学談話会
    • Related Report
      2023 Annual Research Report
  • [Presentation] 神経幹細胞を用いたオリゴデンドロサイト分化誘導系の検討2023

    • Author(s)
      内田拓也、上島朋音、神平梨絵、中尾洋一
    • Organizer
      第16回日本エピジェネティクス学会年会
    • Related Report
      2023 Annual Research Report
  • [Presentation] サフランモドキZephyranthes carinataに含まれるヒストン修飾調節活性化合物の探索2023

    • Author(s)
      秋月孝太、藤井怜子、中村文彬、木村宏、中尾洋一
    • Organizer
      第16回日本エピジェネティクス研究会年会
    • Related Report
      2023 Annual Research Report
  • [Presentation] 海洋天然化合物 kapakahine 類のプローブ化および作用機序の解析2023

    • Author(s)
      神平梨絵、中尾洋一
    • Organizer
      第15回化学生態学研究会
    • Related Report
      2023 Annual Research Report
  • [Presentation] マウス神経幹細胞に作用する深海生物由来化合物の探索2023

    • Author(s)
      中村文彬、齋藤紗季、中尾洋一
    • Organizer
      第15回化学生態学研究会
    • Related Report
      2023 Annual Research Report
  • [Presentation] Food Ingredients Controlling Cell Differentiation and Histone Modifications2022

    • Author(s)
      Nakao, Y.; Otsuka, S.; Kawamura, M.; Fujino, S.; Nakamura, F.; Arai, D.; Fusetani, N.
    • Organizer
      22nd IUNS-ICN INTERNATIONAL CONGRESS OF NUTRITION IN TOKYO
    • Related Report
      2022 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Changes over time of metabolite profile in the decay process of marine sponge2022

    • Author(s)
      Machida, K.; Chiba, Y.; Nakao, Y.
    • Organizer
      2022 American Society of Pharmacognosy (ASP) Annual Meeting
    • Related Report
      2022 Annual Research Report
    • Int'l Joint Research
  • [Presentation] A New Approach to Maximize Utilization of Unclassified Small Pieces of Marine Organisms2022

    • Author(s)
      Nakamura F.; Nakao, Y.
    • Organizer
      2022 American Society of Pharmacognosy Annual Meeting
    • Related Report
      2022 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 海洋環状ペプチド kapakahine 類のプローブ化および作用機序の解析2022

    • Author(s)
      神平梨絵、新井大祐、中尾洋一
    • Organizer
      第34回 海洋生物活性談話会
    • Related Report
      2022 Annual Research Report
  • [Presentation] コーヒー生豆由来ヒストン修飾調節活性物質の探索2022

    • Author(s)
      藤井怜子,中村文彬,中尾洋一
    • Organizer
      第12回CSJ化学フェスタ2022
    • Related Report
      2022 Annual Research Report
  • [Presentation] サンショウに含まれる神経幹細胞分化調節活性を有する化合物の探索2022

    • Author(s)
      上島朋音,中村文彬,中尾洋一
    • Organizer
      第12回CSJ化学フェスタ2022
    • Related Report
      2022 Annual Research Report
  • [Presentation] ニホンスイセン(Narcisssus tazzeta)由来の細胞毒性物質の探索2022

    • Author(s)
      竹口陸斗,町田光史,中尾洋一
    • Organizer
      第12回CSJ化学フェスタ2022
    • Related Report
      2022 Annual Research Report
  • [Presentation] 春ウコン由来の抗トリパノソーマ活性化合物の探索2022

    • Author(s)
      大枝一喜,菅沼啓輔,中村文彬,中尾洋一
    • Organizer
      第12回CSJ化学フェスタ2022
    • Related Report
      2022 Annual Research Report
  • [Presentation] 海洋環状ペプチド kapakahine 類のプローブ化および作用機序の解析2022

    • Author(s)
      神平梨絵、新井大祐、中尾洋一
    • Organizer
      第64回 天然有機化合物討論会
    • Related Report
      2022 Annual Research Report
  • [Presentation] 春ウコン Curcuma aromatica 由来抗トリパノソーマ活性化合物の探索2022

    • Author(s)
      大枝一喜,菅沼啓介,中尾洋一
    • Organizer
      第91回日本寄生虫学会大会
    • Related Report
      2022 Annual Research Report
  • [Presentation] Histone modification, cell differentiation, and chemical epigenomics of food ingredients2021

    • Author(s)
      Nakao, Y.
    • Organizer
      2021環太平洋国際化学会議(PACIFICHEM2021)
    • Related Report
      2021 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Improvement of homology-directed repair-mediated knock-in efficiency in mouse embryonic stem cells by using small compounds2021

    • Author(s)
      Arai, D.; Nakao, Y.
    • Organizer
      2021環太平洋国際化学会議(PACIFICHEM2021)
    • Related Report
      2021 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Small-scale preparation of chemical probes from marine cyclic peptides, kapakahines A and F2021

    • Author(s)
      Kamihira, R.; Nakao, Y.
    • Organizer
      2021環太平洋国際化学会議(PACIFICHEM2021)
    • Related Report
      2021 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Search for the Marine Natural Compounds from the Mixtures of Deep-Sea Invertebrates2021

    • Author(s)
      Nakamura, F.; Nakao, Y.
    • Organizer
      2021環太平洋国際化学会議(PACIFICHEM2021)
    • Related Report
      2021 Annual Research Report
    • Int'l Joint Research
  • [Presentation] マウスES細胞に対する高効率な両アリルノックイン手法の開発2021

    • Author(s)
      新井大祐,中尾洋一
    • Organizer
      第44回日本分子生物学会年会
    • Related Report
      2021 Annual Research Report
  • [Presentation] 奄美大島産Xestospongia属海綿に含まれるヒストン修飾調節活性を有する化合物の探索2021

    • Author(s)
      相原功志,中尾洋一
    • Organizer
      第11回CSJ化学フェスタ2021
    • Related Report
      2021 Annual Research Report
  • [Presentation] ショウガ由来の神経分化調節活性化合物の探索2021

    • Author(s)
      石塚大樹,中尾洋一
    • Organizer
      第11回CSJ化学フェスタ2021
    • Related Report
      2021 Annual Research Report
  • [Presentation] スリランカ産シナモン由来神経幹細胞分化調節活性物質の探索2021

    • Author(s)
      玉澤理彩,中尾洋一
    • Organizer
      第11回CSJ化学フェスタ2021
    • Related Report
      2021 Annual Research Report
  • [Book] 未培養微生物研究樹の最新動向2023

    • Author(s)
      町田光史、中尾洋一
    • Total Pages
      9
    • Publisher
      シーエムシー出版
    • ISBN
      9784781317328
    • Related Report
      2023 Annual Research Report
  • [Remarks] プレスリリース 春ウコンに含まれる3つの生物活性成分を同定

    • URL

      https://www.waseda.jp/top/news/78918

    • Related Report
      2021 Annual Research Report
  • [Remarks] プレスリリース ノックイン新手法 BiPoD を開発

    • URL

      https://www.waseda.jp/top/news/74930

    • Related Report
      2021 Annual Research Report
  • [Patent(Industrial Property Rights)] 膀胱がん用抗がん剤2024

    • Inventor(s)
      篠原祐太、中尾洋一、町田光史、ツェ・ワイ・ラム、臼井達哉、他
    • Industrial Property Rights Holder
      イスクラ産業株式会社、早稲田大学、東京農工大学
    • Industrial Property Rights Type
      特許
    • Industrial Property Number
      2024-051282
    • Filing Date
      2024
    • Related Report
      2023 Annual Research Report
  • [Patent(Industrial Property Rights)] A novel alkaloid compound with anti-trypanosomal activity from Oshima-shinsone sponge2023

    • Inventor(s)
      中尾洋一、中村文彬、秋月孝太、菅沼啓輔
    • Industrial Property Rights Holder
      学校法人早稲田大学、国立大学法人帯広畜産大学
    • Industrial Property Rights Type
      特許
    • Filing Date
      2023
    • Related Report
      2023 Annual Research Report
    • Overseas

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Published: 2021-04-28   Modified: 2025-01-30  

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