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Faculty of Agriculture Region of Marine Life Science |
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Professor |
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FUKAMI Hironobu
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Degree 【 display / non-display 】
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Doctor (Fisheries) ( 2000.3 Tokyo University of Fisheries )
Research Interests 【 display / non-display 】
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Invertebrate zoology: phylogeny and ecology of Cnidaria
Research Areas 【 display / non-display 】
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Life Science / Biodiversity and systematics
Papers 【 display / non-display 】
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An eDNA metabarcoding system for detecting scleractinian corals to the generic level along the Japanese coast Reviewed
Hisata Kanako, Nagata Tomofumi, Kanai Megumi, Sinniger Frederic, Nagata Fumihiko, Suwa Mayuki, Yoshioka Yuki, Harii Saki, Nonaka Masanori, Fukami Hironobu, Arakaki Seiji, Fujie Manabu, Arakaki Nana, Zayasu Yuna, Narisoko Haruhi, Noda Takeshi, Koseki Aya, Nishitsuji Koki, Inoue Jun, Shinzato Chuya, Satoh Noriyuki
Galaxea, Journal of Coral Reef Studies 27 ( 1 ) 13 - 29 2025
Language：English Publishing type：Research paper (scientific journal) Publisher：日本サンゴ礁学会
Coral reefs possess the highest biodiversity of all marine ecosystems and zooxanthellate scleractinian corals, the keystone organisms of these reefs, are in crisis due to climate change and anthropogenic activities. Future reef conservation requires comprehensive understanding of the present status of scleractinian taxa in each region. Environmental DNA metabarcoding (eDNA-M) is a method to meet such requirements. Still, it requires optimized primers for PCR amplification of eDNA and complete genomic sequence information for bioinformatic analyses. Coral reefs of Japan reportedly host 85 scleractinian genera. Our previous study developed a primer set that can be used to amplify scleractinian mitochondrial 12S rDNA for eDNA-M analysis. However, at present, the NCBI nucleotide database contains only ~60 genera with available 12S rDNA sequences, indicating that nearly 25 genera that should be detected by this system have no sequence information. To overcome this problem and to establish a nearly complete eDNA-M system for generic level detection of Japanese scleractinians, we collected 22 scleractinian genera and sequenced their mitochondrial genomes. In addition, species of another 12 genera were re-sequenced to avoid sequence differences caused by geographic variation. Incorporation of these data into a newly constructed informatic pipeline resulted in an eDNA-M system that can detect 83 of the 85 genera. This provides a tool for comprehensive, generic level detection of scleractinian corals in Japanese waters.
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Isomura N., Inoha K., Shimura A., Yasuda N., Kikuchi T., Iwao K., Kitanobo S., Ohki S., Morita M., Fukami H.
Coral Reefs 43 ( 5 ) 1497 - 1509 2024.10
Authorship：Last author Language：English Publishing type：Research paper (scientific journal) Publisher：Coral Reefs
Hybridisation is an evolutionary process that generates genetic diversity in organisms. However, the relationship between reproductive features, such as spawning synchronisation and gamete compatibility, and the degree of introgression leading to hybridisation are poorly understood. The reef-building coral Acropora spp. have a complex evolutionary history, and the link between their ecology, life-history traits, and potential to hybridise is disputed. Here, we examined the relationship among the reproductive features involved in the intercrossing of three species, Acropora florida, Acropora gemmifera, and Acropora intermedia, at two sites: Akajima and the Sesoko islands in southern Japan. Although the examined species showed synchronous spawning and high rates of gamete compatibility, spawning synchronisation and gamete compatibility were less strongly associated with high rates of interbreeding among the three species. Model-based genetic clustering and site-pattern frequency-based tests with single nucleotide polymorphisms supported genetic admixture among the three species in each location. Demographic analyses using fastsimcoal implied that the admixture among the three species in each location might have occurred in the past (> 2,000 generations) and recently (< 50 generations). Furthermore, the recent admixture of these three species is potentially associated with heavy bleaching events and population declines. The principal component analysis, structure, and fastsimcoal showed that the extensive admixture of A. intermedia and A. gemmifera on Sesoko Island occurred recently. Therefore, gamete interactions that lead to hybridisation in the field must be clarified. Furthermore, the connectivity between the two locations needs to be identified; however, our results implied that population fluctuations could be associated with introgression.
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Kishi D., Nomura K., Nozawa Y., Arakaki S., Fukami H.
ZooKeys 1205 205 - 222 2024.6
Authorship：Corresponding author Language：English Publishing type：Research paper (scientific journal) Publisher：ZooKeys
A new zooxanthellate scleractinian coral, Paragoniastrea variabilis Kishi, Nomura & Fu-kami, sp. nov. (Scleractinia, Merulinidae), is described from non-coral reef regions of Japan and northern Taiwan. This new species was previously recognized as a morphological variant of Paragoniastrea deformis (Veron, 1990) and can be morphologically distinguished from that species by lacking groove-and-tube structures on corallite wall joints, and by having larger calices, numerous septa, and up to three corallites in one valley. The new species also formed an independent clade from its congeners, P. australensis (Milne Edwards & Haime, 1857), P. deformis and P. russelli (Wells, 1954), in the molecular phylogeny based on the mitochondrial intergenic region and nuclear ribosom-al internal transcribed spacers.
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A new species of Sympodium (Octocorallia, Xeniidae) from Miyazaki, Japan Reviewed
Koido T., Imahara Y., Fukami H.
Zootaxa 5443 ( 2 ) 186 - 204 2024.4
Authorship：Last author Language：English Publishing type：Research paper (scientific journal) Publisher：Zootaxa
In this study, a new soft coral species, Sympodium omasum sp. nov. (Malacalcyonacea, Xeniidae), is described from a warm-temperate region in Miyazaki, Japan. This new species has double-heads and platelet sclerites, and the platelets are covered with sinuous rodlets, which are fused and form many nodules at the sclerites surface. Sympodium omasum sp. nov. can be distinguished morphologically from a congeneric species by the double-head sclerites and unique platelet surface architecture.
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Seasonal variation of grazing scars on massive <i>Porites</i> corals in Sekisei Lagoon, Okinawa, Japan Reviewed
Ikeuchi Eri, Iguchi Akira, Nakamura Takashi, Fukami Hironobu
Galaxea, Journal of Coral Reef Studies 26 ( 1 ) 3 - 8 2024.3
Authorship：Last author Language：English Publishing type：Research paper (scientific journal) Publisher：日本サンゴ礁学会
Coral reef ecosystems have high biodiversity and unique species interactions. One example is predation on corals by parrotfish species, known for their grazing on surfaces of massive <i>Porites</i> stony corals. However, factors causing variations of grazing scars on <i>Porites</i> colonies remain largely unknown. In this study, we investigated the relationship between ocean depth of <i>Porites</i> colonies, grazing scar ratios, and photosynthetic efficiency, reflecting the health of coral-zooxanthellae symbiosis in Sekisei Lagoon, the largest coral reef in Japan, with distinct seasonality. We documented seasonal variation in photosynthetic efficiency of symbiotic algae and the frequency of grazing scars. Our results suggest that during the cooler season, <i>Porites</i> colonies with higher photosynthetic efficiency may recover from grazing more quickly than colonies with lower photosynthetic efficiency. We also suggest that fish-coral interactions may vary seasonally, possibly in relation to coral reproductive stages and environmental conditions. Further research is needed to understand the complex dynamics of these interactions in coral reefs.
Books 【 display / non-display 】
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深見 裕伸, 佐々木 圭一, 磯村 尚子, 北野 裕子, 藤井 琢磨（ Role： Joint editor）
特定非営利活動法人喜界島サンゴ礁科学研究所 2022.7 （ ISBN:9784991155017 ）
Language：Japanese Book type：Scholarly book
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Zooxanthellate corals of Kikaijima Island
（ Role： Joint editor）
2020.8
Total pages：67 Responsible for pages：全ページ Language：Japanese Book type：Scholarly book
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サンゴの白化ー失われるサンゴ礁の海とそのメカニズム
深見裕伸 (2章)（ Role： Contributor）
成山堂書店 2020.2
Total pages：178 Responsible for pages：32-53 Language：Japanese Book type：Scholarly book
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Coral Reefs of the World
Naoko Isomura, Hironobu Fukami（ Role： Joint author , Coral Reproduction in Japan）
Springer 2018.2
Total pages：179 Responsible for pages：95-110 Language：English Book type：Scholarly book
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新・付着生物研究法
深見裕伸・野村恵一（ Role： Joint author , イシサンゴ類）
恒星社厚生閣 2017.4
Total pages：278 Responsible for pages：35-52 Language：Japanese Book type：Scholarly book
MISC 【 display / non-display 】
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分類と系統：有藻性イシサンゴ類における分類体系改変の現状2015 Invited Reviewed
深見裕伸
生物科学 67 ( 4 ) 201 - 215 2016.7
Language：Japanese Publishing type：Article, review, commentary, editorial, etc. (scientific journal)
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喜界島の有藻性イシサンゴ類の種組成について Invited Reviewed
深見裕伸・北野裕子・立川浩之
月刊海洋 号外 ( 56 ) 94 - 102 2016.5
Language：Japanese Publishing type：Article, review, commentary, editorial, etc. (scientific journal)
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Regional specific approach is a next step for setting evolutionary‐based conservation priorities in the scleractinian corals.
H. Fukami
Animal Conservation 4 318 - 319 2015.8
Language：English Publishing type：Article, review, commentary, editorial, etc. (scientific journal) Publisher：The Zoological Society of London
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Fukami H.
Animal Conservation 18 ( 4 ) 318 - 319 2015.8
Language：Japanese Publishing type：Article, review, commentary, editorial, etc. (bulletin of university, research institution) Publisher：Animal Conservation
DOI： 10.1111/acv.12224
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阿嘉島におけるミドリイシ属サンゴの種分化
磯村尚子, 深見裕伸
みどりいし ( 26 ) 15 - 19 2015.3
Language：Japanese Publishing type：Article, review, commentary, editorial, etc. (scientific journal) Publisher：阿嘉島臨海研究所
Presentations 【 display / non-display 】
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タカクキクメイシ Favites valenciennesii に対する形態多型の カテゴライズ化と分類学的実態
岸大悟・深見裕伸
日本サンゴ礁学会第27回大会 2024.11.29
Event date： 2024.11.28 - 2024.12.1
Language：Japanese Presentation type：Poster presentation
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180年間形態多型とされてきたFavites valenciennesii（タカクキクメイシ）に対する形態多型のカテゴライズ化と分類学的実態
岸大悟・深見裕伸
日本動物分類学会 鳥取大会 2024.6.15
Event date： 2024.6.15 - 2024.6.16
Language：Japanese Presentation type：Poster presentation
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日本で新たに発見されたサザナミサンゴ科の種の紹介
深見裕伸
日本サンゴ礁学会第26回大会 2023.11.24
Event date： 2023.11.23 - 2023.11.26
Language：Japanese Presentation type：Oral presentation (general)
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エダミドリイシ (Acropora pruinosa) の形態多様性
福留翔太・深見裕伸
日本サンゴ礁学会第26回大会 2023.11.26
Event date： 2023.11.23 - 2023.11.26
Presentation type：Poster presentation
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3 つの形態多型から検討する Favites valenciennesii ( タカクキ クメイシ ) の分類学的実態
岸大悟・深見裕伸
日本サンゴ礁学会第26回大会 2023.11.26
Event date： 2023.11.23 - 2023.11.26
Presentation type：Poster presentation
Awards 【 display / non-display 】
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日本サンゴ礁学会 川口奨励賞
2007.11 日本サンゴ礁学会
深見裕伸
Award type：Award from Japanese society, conference, symposium, etc. Country：Japan
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日本サンゴ礁学会ベストプレゼンテーション賞
1999.10 日本サンゴ礁学会
深見裕伸
Award type：Award from Japanese society, conference, symposium, etc. Country：Japan
Grant-in-Aid for Scientific Research 【 display / non-display 】
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過去の気候変動から読み解くミドリイシ属サンゴの適応
Grant number：23K23634 2024.04 - 2026.03
独立行政法人日本学術振興会 科学研究費基金 基盤研究(B)
Authorship：Coinvestigator(s)
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造礁サンゴ類の見えない多様性-その可視化と成因推定および将来予測
Grant number：23H00529 2023.04 - 2026.03
独立行政法人日本学術振興会 科学研究費補助金 基盤研究(A)
Authorship：Coinvestigator(s)
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過去の気候変動から読み解くミドリイシ属サンゴの適応
Grant number：22H02369 2022.04 - 2026.03
独立行政法人日本学術振興会 科学研究費補助金 基盤研究(B)
Authorship：Coinvestigator(s)
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日本の温帯域に生息する造礁サンゴの固有性と起源を探る
Grant number：18K06423 2018.04 - 2022.03
科学研究費補助金 基盤研究(C)
Authorship：Principal investigator
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造礁サンゴ「種分類」の新機軸とその体系化－分子細胞遺伝学的アプローチ－
Grant number：17H03861 2017.04 - 2020.03
科学研究費補助金 基盤研究(B)
Authorship：Coinvestigator(s)
Other external funds procured 【 display / non-display 】
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Reproductive timing of scleractinian corals at Co To Marine Protected Area, North Vietnam: Toward better management and restoration of coral reef International coauthorship
Grant number：2020-1 2020.12 - 2022.12
NEF Commemorative Grant Fund
Grant type：Competitive
