Squalomix プロジェクト
当研究室では、軟骨魚類について、ゲノム情報をはじめとする分子レベルの包括的な情報を読み取り（オミクス）、生物学的な研究に活用するための取り組み（Squalomixプロジェクト）を水族館等と連携して進めています。このプロジェクトは、多様な生物のゲノム情報の解読の動きを束ねる世界規模の取り組みであるEBP（Earth Biogenome Project)に加盟しています。初期の活動については、板鰓類研究会会報第57号(2021年12月発行)に掲載された記事で紹介しています。
紹介動画（2026年2月制作）
出版論文
Tracing genome size dynamics in sharks and rays with inclusive sequence analysis by the Squalomix Consortium
S. Kuraku, Y. W. Kawaguchi, T. Niwa, R. Misawa, Y. Ogawa, M. Kadota, K. Saito, W. Godo, T. Sakamoto, W. Takagi, S. Isobe, K. Shirasawa, A. Kawaguchi.
Genome Research 2026. https://genome.cshlp.org/content/early/2026/06/16/gr.281149.125
Improved genome assembly of whale shark, the world’s biggest fish: revealing intragenomic heterogeneity in molecular evolution
Y. W. Kawaguchi, R. Matsumoto, S. Kuraku.
GigaScience, Volume 15, 2026, giag014, https://doi.org/10.1093/gigascience/giag014
Sharks and rays have the oldest vertebrate sex chromosome with unique sex determination mechanisms
T. Niwa, Y. Uno, Y. Ohishi, M. Kadota, N. Aburatani, I. Kiyatake, D. Katooka, M. Yorozu, N. Tsuzuki, A. Toyoda, W. Takagi, M. Nakamura, S. Kuraku.
Proc Natl Acad Sci U S A. 2025. 122:e2513676122. doi: 10.1073/pnas.2513676122 [Press release: Japanese]
Elasmobranch genome sequencing reveals evolutionary trends of vertebrate karyotypic organization
K. Yamaguchi, Y. Uno, M. Kadota, O. Nishimura, R. Nozu, K. Murakumo, R. Matsumoto, K. Sato, S. Kuraku.
Genome Research 2023. 33:1527-1540 doi: 10.1101/gr.276840.122
Whale shark rhodopsin adapted to deep-sea lifestyle by a substitution associated with human disease
K. Yamaguchi, M. Koyanagi, K. Sato, A. Terakita, S. Kuraku.
Proc Natl Acad Sci U S A. 2023. 120:e2220728120. [Press release: Japanese ]
Cell culture-based shark karyotyping as a resource for chromosome-scale genome analysis
Y. Uno, R. Nozu, I. Kiyatake, N. Higashiguchi, S. Sodeyama, K. Murakumo, K. Sato, S. Kuraku.
Communications Biology 2020. 3(1): 652.
Shark genomes provide insights into elasmobranch evolution and the origin of vertebrates
Y. Hara, K. Yamaguchi, K. Onimaru, M. Kadota, M. Koyanagi, S. D. Keeley, K. Tatsumi, K. Tanaka, F. Motone, Y. Kageyama, R. Nozu, N. Adachi, O. Nishimura, R. Nakagawa, C. Tanegashima, I. Kiyatake, R. Matsumoto, K. Murakumo, K. Nishida, A. Terakita, S. Kuratani, K. Sato, S. Hyodo, S. Kuraku.
Nature Ecology and Evolution, 2018. 2: 1761-1771. [ Press release: Japanese / English ]
総説
Visual and non-visual opsin genes of sharks and other non-osteichthyan vertebrates: genomic exploration of underwater photoreception.
Kazuaki Yamaguchi, Mitsumasa Koyanagi,Shigehiro Kuraku.
Journal of Evolutionary Biology 2020. accpeted.
Shark and ray genomics for disentangling their morphological diversity and vertebrate evolution
Shigehiro Kuraku
Developmental Biology 2021. 477: 262-272
その他
Squalomix: shark and ray genome analysis consortium and its data sharing platform [version 1; peer review: awaiting peer review].
Nishimura O, Rozewicki J, Yamaguchi K et al.
F1000Research 2022, 11:1077
The Earth BioGenome Project 2020: Starting the clock.
H. A. Lewin et al.
Proc. Natl. Acad. Sci. U.S.A. 2022. 119: e2115635118.