環境DNA分析の技術開発
水中に存在する生物のDNAを効率よく集め、正確に分析するための方法を開発、改良しています。具体的には、ろ過法や保存法、DNA抽出の最適化、分析手法の標準化などです。また、核DNAとミトコンドリアDNAの比率やDNAメチル化状態などを調べることで、生物の分布だけでなく行動や状態も解析できる新しい技術の開発にも力を入れています。
主要な成果
- Hirayama, I. T., Kunimasa, Y., Takeuchi, A., Minamoto, T. (2025) Significant improvement of environmental DNA assay by targeting retrotransposon sequences characteristic to Anguilla eels. Environmental DNA 7, e70197. LINK
- Hirayama, I. T., Wu, L., Minamoto, T. (2024) Stability of environmental DNA methylation and its utility in tracing spawning in fish. Molecular Ecology Resources 24, e14011. LINK
- Wu, L., Wu, Q., Inagawa, T., Okitsu, J., Sakamoto, S., Minamoto, T. (2023) Estimating the spawning activity of fish species using nuclear and mitochondrial environmental DNA concentrations and their ratios. Freshwater Biology 68, 103-114. LINK
- Minamoto, T., Miya, M., Sado, T., Seino, S., Doi, H., Kondoh, M., Nakamura, K., Takahara, T., Yamamoto, S., Yamanaka, H., Araki, H., Iwasaki, W., Kasai, A., Masuda, R., Uchii, K. (2021) An illustrated manual for environmental DNA research: Water sampling guidelines and experimental protocols. Environmental DNA 3, 8-13. LINK
- Sakata, M. K., Yamamoto, S., Gotoh, R. O., Miya, M., Yamanaka, H., Minamoto, T. (2020) Sedimentary eDNA provides different information on timescale and fish species composition compared with aqueous eDNA. Environmental DNA, 2, 505-518. LINK
- Jo, T., Murakami, H., Masuda, R., Sakata, M. K., Yamamoto, S., Minamoto, T. (2017) Rapid degradation of longer DNA fragments enables the improved estimation of distribution and biomass using environmental DNA. Molecular Ecology Resources 17 (6), e25-e33. LINK
希少種や外来種のモニタリング
絶滅の危機にある生物や外来種を早期に発見し、保全や管理につなげる研究です。魚類、両生類をはじめ様々な生物群を対象に、環境DNAを使って効率的に検出する特異的検出法を開発し、最終的には政策や社会への実装を目指しています。
主要な成果
- Hashimoto, N., Iwata, T., Kihara, N., Nakamura, N., Sakata, M. K., Minamoto, T. (2024) Detection of environmental DNA of finless porpoise (Neophocaena asiaeorientalis) in Osaka Bay, Japan. Conservation Genetics Resources 16, 255-261 LINK
- Hidaka, S., Jo, T. S., Yamamoto, S., Katsuhara, K. R., Tomita, S., Miya, M., Ikegami,M., Ushimaru, A., Minamoto, T. (2024) Sensitive and efficient surveillance of Japanese giant salamander (Andrias japonicus) distribution in western Japan using multi-copy nuclear DNA marker. Limnology 25, 189-198. LINK
- Wu, Q., Zhou, J., Komoto, T., Ishikawa, T., Goto, N., Sakata, M. K., Kitazawa, D., Minamoto, T. (2023) Opposite trends in environmental DNA distributions of two freshwater species under climate change. Ecosphere 14, e4651. LINK
- Jo, T., Fukuoka, A., Uchida, K., Ushimaru A., Minamoto, T. (2020) Multiplex real-time PCR enables the simultaneous detection of environmental DNA from freshwater fishes: a case study of three exotic and three threatened native fishes in Japan. Biological Invasions 22 (2), 455-471. LINK
- Sakata, M. K., Maki, N., Sugiyama, H., Minamoto, T. (2017) Identifying a breeding habitat of a critically endangered fish, Acheilognathus typus, in a natural river in Japan. The Science of Nature - Naturwissenschaften 104, 100. LINK
水域の生物多様性モニタリング
河川や湖、沿岸域に生息する魚類などの水生生物の種類や数を把握し、生態系の現状を把握するとともに変化を追跡します。環境DNAメタバーコーディングや環境DNAの定量によって、短期的長的的な生態系モニタリングに役立てています。
主要な成果
- Wu, Q., Nakano, T., Ishida, S., Komai, T., Fujiwara, Y., Yoshida, T., Kawato, M., Oka, S., Fujikura, K., Miya, M., Minamoto, T. (2025) Development of universal PCR primers for the environmental DNA metabarcoding of cephalopod (Mollusca) diversity. Marine Environmental Research 208, 107094. LINK
- Oyabu, A., Wu, L., Matsumoto, T., Kihara, N., Yamanaka, H., Minamoto, T. (2024) The effect of artificial light at night on wild fish community: manipulative field experiment and species composition analysis using environmental DNA. Environmental Advances 15, 100457 LINK
- Wu, L., Osugi, T., Inagawa, T., Okitsu, J., Sakamoto, S., Minamoto, T. (2024) Monitoring of multiple fish species by quantitative environmental DNA metabarcoding surveys over two summer seasons. Molecular Ecology Resources 24, e13875. LINK
- Sakata, M. K., Kawata, M. U., Kurabayashi, A., Kurita, T., Nakamura, M., Shirako, T., Kakehashi R., Nishikawa, K., Hossman, M. Y., Nishijima, T., Kawamoto, J., Miya, M., Minamoto, T. (2022) Development and evaluation of PCR primers for environmental DNA (eDNA) metabarcoding of Amphibia. Metabarcoding and Metagenomics 6, 15-26. LINK
- Hayami, K., Sakata, M. K., Inagawa, T., Okitsu, J., Katano, I., Doi, H., Nakai, K., Ichiyanagi, H., Gotoh, R. O., Miya, M., Sato, H., Yamanaka, H., Minamoto, T. (2020) Effects of sampling seasons and locations on fish environmental DNA metabarcoding in dam reservoirs. Ecology and Evolution 10 (12), 5354-5367. LINK
感染症の生態学
寄生虫や病原菌、魚病ウイルスなどが水環境でどのように分布するかを調べています。環境DNAを使って病原体を検出し、公衆衛生上のリスクを評価することで、感染症の予防や管理に貢献します。また、抗菌薬耐性菌の水系への流入や拡散も重要な研究対象です。
主要な成果
- Matsuo, R., Togetani, A., Adisakwattana, P., Yoonuan, T., Phuphisut, O., Limpanont, Y. Sakata, M. K., Sato, M. O., Sato, M., Minamoto, T. (2024) Improved environmental DNA detection sensitivity of Opisthorchis viverrini using a multi-marker assay. Parasitology Research 123, 419. LINK
- Osawa, R., Jo, T. S., Nakamura, R., Futami, K., Itayama, T., Chadeka, E. A., Ngetich, B., Nagi, S., Kikuchi, M., Njenga, S., Ouma, C., Sonye, G. O., Hamano, S., Minamoto, T. (2024) Methodological assessment for efficient collection of Schistosoma mansoni environmental DNA and improved schistosomiasis surveillance in tropical wetlands. Acta Tropica 260, 107402. LINK
- Hashizume, H., Sato, M., Sato, M. O., Ikeda, S., Yoounan, T., Sanguankiat, S., Pongvongsa, T., Moji, K., Minamoto, T. (2017) Application of environmental DNA analysis for the detection of Opisthorchis viverrini DNA in water samples. Acta Tropica 169, 1-7. LINK
- Minamoto, T., Pu, X., Xie, J., Dong, Y., Wu, D., Kong, H., Yang, X., Takahara, T., Honjo, M. N., Yamanaka, H., Kawabata, Z. (2015) Monitoring of fish pathogenic viruses in natural lakes in Yunnan, China. Limnology 16(1), 69-77. LINK
都市の生態系とウェルビーイング
都市の緑地（グリーンスペース）や水域（ブルールペース）が人々の暮らしやウェルビーイングにどのような恩恵を与えるかを研究しています。生態系サービスと人の幸福感の関係を分析し、自然体験の格差を減らすための政策提案や、里山再生の取り組みを進めています。
主要な成果
- Uchiyama, Y., Kyan, A., Sato, M., Ushimaru, A., Minamoto, T., Kiyono, M., Harada, K., Takakura, M. (2024) Local environment perceived in daily life and urban green and blue space visits: Uncovering key factors for different age groups to access ecosystem services. Journal of Environmental Management 370, 122676. LINK
- Jo, T.*, Sato, M.*, Minamoto, T.*, Ushimaru A.* (2022) Valuing the cultural services from urban blue space ecosystems in Japanese megacities during the COVID-19 pandemic. People and Nature 4, 1176-1189. (*equal contribution) LINK
- Sato, M., Ushimaru, A., Minamoto, T. (2017) The effect of different personal histories on valuation of forest ecosystem services in urban areas: a case study of Mt. Rokko, Kobe, Japan. Urban Forestry & Urban Greening 28, 110-117. LINK
動物の生理生態学
魚類、ホヤ、昆虫類などをモデルに、視覚に関わる遺伝子やタンパク質の仕組み、体内時計のメカニズムなどを解明しています。網膜で働くオプシンやロドプシンの分子構造、時計遺伝子の発現パターンなどを明らかにすることで、生物の環境適応の仕組みを理解します。
主要な成果
- Minamoto, T., Hanai, S., Kadota, K., Oishi, K., Matsumae, H., Fujie, M., Azumi, K., Satoh,N., Satake, M., Ishida, N. (2010) Circadian clock in Ciona intestinalis revealed by microarray analysis and oxygen consumption. Journal of Biochemistry 147, 175–184. LINK
- 源利文, 清水勇 (2005) 魚類の視覚適応の分子的基盤 魚類学雑誌 52, 91–106 LINK
- Minamoto, T., Shimizu, I. (2005) Molecular cloning of cone opsin genes and their expression in the retina of a smelt, Ayu (Plecoglossus altivelis, Teleostei). Comparative Biochemistry and Physiology Part B: Biochemistry and Molecular Biology 140, 197–205. LINK
- Minamoto, T., Shimizu, I. (2003) Molecular cloning and characterization of rhodopsin in a teleost (Plecoglossus altivelis, Osmeridae). Comparative Biochemistry and Physiology Part B: Biochemistry and Molecular Biology 134, 559–570. LINK
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