189) Kengo Takemoto, Hideyuki Doi*, Tatsuya Saito, Hiroaki Ui, Tomoko Doei & Hiroshi Doei (2024) Establishment of environmental DNA method for detecting invasive African-clawed frogs in Japan. Limnology available online DOI:10.1007/s10201-023-00739-0 LINK

 *Corresponding author

 

188) Yoriko Sugiyama, Shunsuke Matsuoka, Yoshito Shimono, Masayuki Ushio, and Hideyuki Doi (2024) Does water fungal environmental DNA assemblage reflect the surrounding terrestrial sporocarp community? Fungal Ecology 67: 101311 DOI:10.1016/j.funeco.2023.101311 LINK

 

187) Izumi Katano, Hideyuki Doi, Junjiro N. Negishi, Tomoko Minagawa, and Yuichi Kayaba (2024) Tributary mitigates river discontinuity by dam depending on the distance from dam to the tributary confluence. River Research and Applications 40:163-176 DOI: 10.1002/rra.4221 LINK

 

 

186) Aki Tanaka, Izumi Katano*, Hideyuki Doi*, Mami Iguchi, and Shohei Koike (2023) Applicability of environmental DNA metabarcoding for the hyporheic zone of a stream bed. Environmental DNA, 5:1667-1678 DOI:10.1002/edn3.484  LINK

*Corresponding author

 

185) Grayson P. Huston, Mark Louie D. Lopez, Yuanyu Cheng, Leighton King, Lucinda C. Duxbury, Maïlys Picard, Georgia Thomson-Laing, Erika Myler, Caren C. Helbing, Michael T. Kinnison, Jasmine E. Saros, Irene Gregory-Eaves, Marie-Eve Monchamp, Susanna A. Wood, Linda Armbrecht, Gentile Francesco Ficetola, Lenka Kurte, Jordan Von Eggers, Janice Brahney, Genevieve Parent, Masayuki K. Sakata, Hideyuki Doi, and Eric Capo (2023) Detection of fish sedimentary DNA in aquatic systems: A review of methodological challenges and future opportunities. Environmental DNA, 5:1449-1472 DOI:10.1002/edn3.467 LINK

  

184) Hideyuki Doi and Ryan P. Kelly (2023) Ethical Considerations for Human Sequences in Environmental DNA. Nature Ecology and Evolution, 7:1334-1335 DOI:10.1038/s41559-023-02124-7 LINK

 

183) Alexander K. Yurlov, Natalia I. Yurlova*, Maria Yu. Garyushkina, Marina A. Selivanova, and Hideyuki Doi*(2023) Long-term series of measurements of eggs and chicks of Caspian terns (Hydroprogne caspia) breeding in Lake Chany, Western Siberia, Russia, during 1985 and 2011. Ecological Research, 38:708-713 DOI:10.1111/1440-1703.12407 LINK

*Co-corresponding authors  (Alexander K. Yurlov deceased).

 

182) Mariko Nagano, Masaki Sakamoto, Kwang-Hyeon Chang, and Hideyuki Doi (2023) Predator-induced plasticity in relation to prey body size: a meta-analysis of Daphnia experiments. Freshwater Biology, 68:1293-1302 DOI:10.1111/fwb.14108 LINK

 

181) Hideyuki Doi*†, Shunsuke Matsuoka†, Shin-ichiro S. Matsuzaki†, Mariko Nagano, Hirotoshi Sato, Hiroki Yamanaka, Saeko Matsuhashi, Satoshi Yamamoto, Toshifumi Minamoto, Hitoshi Araki, Kousuke Ikeda, Atsuko Kato, Kouichi Kumei, Nobutaka Maki, Takashi Mitsuzuka, Teruhiko Takahara, Kimihito Toki, Natsuki Ueda, Takeshi Watanabe, Kanji Yamazoe, and Masaki Miya (2023) Species traits and ecosystem characteristics affect species detection by eDNA metabarcoding in lake fish communities. Freshwater Biology, 68:1346-1358 DOI:10.1111/fwb.14107 LINK

*Corresponding author, †These authors equally contributed.  

 

180) Takashi Fukuzawa*, Hiromi Shirakura, Naofumi Nishizawa, Hisao Nagata, Yuichi Kameda, and Hideyuki Doi*(2023) Environmental DNA extraction method from water for a high and consistent DNA yield. Environmental DNA, 5: 627-633 DOI:10.1002/edn3.406 LINK

*Co-corresponding authors

 

179) Kai Nakane, Xin Liu, Hideyuki Doi, Gaël Dur, Michinobu Kuwae, Syuhei Ban, and Narumi Tsugeki (2023) Sedimentary DNA can reveal past pelagic copepod population dynamics.Freshwater Biology, 68: 1917-1928 DOI:10.1111/fwb.14096 LINK

 

178) Hideyuki Doi*, Yuko Ishida, and Yasuhiro Takemon (2023) Canopy cover influences food resources for stream grazers and filter feeders on a reach scale. Hydrobiologia, 851:299-311 DOI:10.1007/s10750-023-05213-7 LINK

 

177) Rio Souma*, Izumi Katano*, Hideyuki Doi*, Teruhiko Takahara, and Toshifumi Minamoto (2023) Comparing environmental DNA with whole pond survey to estimate the total biomass of fish species in ponds. Freshwater Biology, 68:727-736 DOI:10.1111/fwb.14059 LINK

*Co-corresponding authors

 

176) Hideyuki Doi*and Keigo Nakamura* (2023) Dominant barriers and the solutions to the social application of environmental DNA. Landscape and Ecological Engineering, 19: 305–312 DOI:10.1007/s11355-023-00549-7 LINK

pages 

*Co-corresponding authors

 

175) Hideyuki Doi* and Keigo Nakamura* (2023) Special issue: Environmental DNA as a practical tool for aquatic conservation and restoration (Preface). Landscape and Ecological Engineering, 19:1-2. DOI:10.1007/s11355-022-00534-6 LINK

 

*Co-corresponding authors

  

174) Teruhiko Takahara, Hideyuki Doi, Toshihiro Kosuge, Nanae Nomura, Nobutaka Maki, Toshifumi Minamoto, and Katsutoshi Watanabe (2023) Effective environmental DNA collection for an endangered catfish species: testing for habitat and daily periodicity. Ichthyological Research, online available DOI:10.1007/s10228-022-00900-2 LINK

 

171) Nao Shiozuka, Izumi Katano*, Hideyuki Doi*, Masatoshi Nakamura, Tomoyasu Shirako, and Hidetaka Ichiyanagi (2023) Diurnal detection of environmental DNA of the semi‐aquatic water shrew Chimarrogale platycephala using 25‐h water sampling in streams. Landscape and Ecological Engineering 19:69-77 DOI:10.1007/s11355-022-00526-6 LINK

 

 

172) Michinobu Kuwae, Bruce P. Finney, Zhiyuan Shi, Aya Sakaguchi, Narumi Tsugeki, Takayuki Omori, Tetsuro Agusa, Yoshiaki Suzuki, Yusuke Yokoyama, Hirofumi Hinata, Yoshio Hatada, Jun Inoue, Kazumi Matsuoka,Misaki Shimada, Hikaru Takahara,Shin Takahashi, Daisuke Ueno, Atsuko Amano, Jun Tsutsumi, Masanobu Yamamoto, Keiji Takemura, Keitaro Yamada,Ken Ikehara, Tsuyoshi Haraguchi, Stephen Tims, Michaela Froehlich, L Keith Fifield, Takahiro Aze, Kimikazu Sasa, Tsutomu Takahashi, Masumi Matsumura, Yukinori Tani, Peter R Leavitt, Hideyuki Doi, Tomohisa Irino, Kazuyoshi Moriya, Akira Hayashida, Kotaro Hirose, Hidekazu Suzuki, and Yoshiki Saito (2022) Beppu Bay, Japan, as a candidate Global Boundaries Stratotype Section and Point for an Anthropocene series. The Anthropocene Review online first DOI:10.1177/2053019622113507 LINK

 

171) Moriaki Yasuhara, Huai-Hsuan May Huang, Markus Reuter, Skye Yunshu Tian, Jonathan D. Cybulski, Aaron O’Dea, Briony L. Mamo, Laura J. Cotton, Emanuela Di Martino, Ran Feng, Clay R. Tabor, Gabriel Reygondeau, Qianshuo Zhao, Mark T. Warne, Kyawt K. T. Aye, Jingwen Zhang, Anne Chao, Chih-Lin Wei, Fabien L. Condamine, Adam T. Kocsis, Wolfgang Kiessling, Mark J. Costello, Derek P. Tittensor., Chhaya Chaudhary, Marina C. Rillo, Hideyuki Doi, Yun-wei Dong, Thomas M. Cronin, Erin E. Saupe, Heike K. Lotze, Kenneth G. Johnson, Willem Renema, John M. Pandolfi, Mathias Harzhauser, Jeremy B. C. Jackson, Yuanyuan Hong (2022) Hotspots of Cenozoic tropical marine biodiversity. Oceanography and Marine Biology: An Annual Review, 60: 243-300. DOI: 10.1201/9781003288602-5 LINK

 

170) Fumiya Hirama, Jotaro Urabe*, Hideyuki Doi, Takehiro Kazama, Takumi Noguchi, Tyler H. Tappenbeck, Izumi Katano,  Masato Yamamichi, Takehito Yoshida, and  James J. Elser (2022) Terrigenous subsidies in lakes support zooplankton production mainly via a green food chain and not the brown food chain. Frontiers in Ecology and Evolution 10:956819 DOI:10.3389/fevo.2022.956819 LINK

 *Corresponding author

 

169) Pritam Banerjee,  Kathryn A Stewart,  Gobinda Dey,  Caterina M Antognazza, Raju Kumar Sharma,  Jyoti Prakash Maity,  Santanu Saha,  Hideyuki Doi, Natasha de Vere,  Michael W Y Chan,  Pin-Yun Lin,  Hung-Chun Chao, and Chien-Yen Chen (2022) Environmental DNA analysis as an emerging non-destructive method for plant biodiversity monitoring: a review. AoB Plants 14:1-14 DOI:10.1093/aobpla/plac031 LINK

 

168) Takashi Fukuzawa*, Yuichi Kameda, Hisao Nagata, Naofumi Nishizawa, and Hideyuki Doi*(2022) Filtration extraction method using microfluidic channel for measuring environmental DNA. Molecular Ecology Resources 22: 2651-2661 DOI:10.1111/1755-0998.13657 LINK

*Corresponding authors

 

167) Shigeki Ogata, Hideyuki Doi, Takeshi Igawa, Shohei Komaki, and Teruhiko Takahara (2022) Environmental DNA methods for detecting two invasive alien species (American bullfrog and red swamp crayfish) in Japanese ponds. Ecological Research 37:701-710 DOI:10.1111/1440-1703.12341 LINK

 

166) Pritam Banerjee, Kathryn A. Stewart, Caterina M. Antognazza, Ingrid V. Bunholi, Kristy Deiner, Matthew A. Barnes, Santanu Saha, Héloïse Verdier, Hideyuki Doi, Jyoti Prakash Maity, Michael W. Y. Chan, and Chien Yen Chen (2022) Plant–animal interactions in the era of environmental DNA (eDNA)—A review. Environmental DNA 4:987-999 DOI: 10.1002/edn3.308 LINK

 

165) Shunsuke Matsuoka, Yoriko Sugiyama, Mariko Nagano, and Hideyuki Doi (2022) Influence of DNA extraction kits on the fungal DNA metabarcoding for freshwater environmental DNA. PeerJ 10:e13477 DOI:10.7717/peerj.13477 LINK

 

164) Alexander K. Yurlov*, Natalia I. Yurlova*, Maria Yu. Garyushkina, Marina A. Selivanova, and Hideyuki Doi* (2022) Long-term observation of the egg and chick size in the nests of Larus ichthyaetus in Lake Chany, Russia. Scientific Data 9:372 DOI:10.1038/s41597-022-01454-8 LINK 

*Co-corresponding authors  (Alexander K. Yurlov deceased).

 

163) Teruhiko Takahara, Katsuya Fukui, Daisuke Hiramatsu, Hideyuki Doi, Masato Fujii, and Toshifumi Minamoto (2022) Development of primer-probe sets for environmental DNA-based monitoring of pond smelt Hypomesus nipponensis and Japanese icefish Salangichthys microdon. Landscape and Ecological Engineering 19:11-19 DOI:10.1007/s11355-022-00507-9 LINK

 

162) Narumi Tsugeki, Kai Nakane, Hideyuki Doi, Natsuki Ochi, and Michinobu Kuwae (2022) Reconstruction of 100-year dynamics in Daphnia spawning activity revealed by sedimentary DNA. Scientific Reports 12: 1741 DOI:10.1038/s41598-021-03899-0 LINK

161) Hideyuki Doi†, Takeshi Osawa†, and Narumasa Tsutsumida† (2022) Assessing the potential repercussions of the COVID-19 pandemic on global SDG attainment. Discover Sustainability 3:2 DOI:10.1007/s43621-021-00067-2 LINK

†These authors equally contributed.

 

 

160) Hideyuki Doi† and Tomoki Hirai† (2021) Estimation of deracinated trees area in temperate forest with satellite images employing machine learning methods. PeerJ Computer Science 7:e648 DOI:10.7717/peerj-cs.648 LINK

†These authors equally contributed.

 

159) Ryohei Nakao, Ryutei Inui, Yoshihisa Akamatsu, Masuji Goto, Hideyuki Doi and Shunsuke Matsuoka 

 (2021) Illumina iSeq 100 and MiSeq exhibit similar performance in freshwater fish environmental DNA metabarcoding  Scientific Reports 11:15763 DOI:10.1038/s41598-021-95360-5 LINK

 

158) Shunsuke Matsuoka, Yoriko Sugiyama, Yoshito Shimono, Masayuki Ushio, and Hideyuki Doi (2021) Evaluation of seasonal dynamics of fungal DNA assemblages in a flow-regulated stream in a restored forest using eDNA metabarcoding. Environmental Microbiology 23:4797-4806 DOI:10.1111/1462-2920.15669 LINK

 

157) Hideyuki Doi*† , Moriaki Yasuhara*†  and Masayuki Ushio*† (2021) Causal analysis of the temperature impact on deep-sea biodiversity. Biology Letters 17: 20200666. DOI:10.1098/rsbl.2020.0666 LINK

†These authors equally contributed. *Corresponding authors

 

156) Hideyuki Doi, Takeshi Watanabe, Naofumi Nishizawa, Tatsuya Saito, Hisao Nagata, Yuichi Kameda, Nobutaka Maki, Kousuke Ikeda, and Takashi Fukuzawa (2021) On-site environmental DNA detection of species using ultra-rapid mobile PCR. Molecular Ecology Resources 21:2364-2368 DOI:10.1111/1755-0998.13448 LINK

 

155) Naiara Rodriguez-Ezpeleta, Olivier Morissette, Colin W. Bean, Shivakumara Manu, Pritam Banerjee, Anaïs Lacoursière-Roussel, Kingsly C. Beng, S. Elizabeth Alter, Fabian Roger, Luke E. Holman, Kathryn A. Stewart, Michael T. Monaghan, Quentin Mauvisseau, Luca Mirimin, Owen S. Wangensteen, Caterina M. Antognazza, Sarah J. Helyar, Hugo de Boer, Marie-Eve Monchamp, Reindert Nijland, Cathryn L. Abbott, Hideyuki Doi, Matthew A. Barnes, Matthieu Leray, Pascal I. Hablützel, Kristy Deiner (2021) Trade-offs between reducing complex terminology and producing accurate interpretations from environmental DNA: Comment on “Environmental DNA: What's behind the term?” by Pawlowski et al., (2020). Molecular Ecology 30:4601-4605 DOI:10.1111/mec.15942 LINK

  

154) Hideyuki Doi and Randy Nathaniel Mulia (2021) Future land use for insect meat production among countries: a global classification. Frontiers in Nutrition, 8:661056 DOI:10.3389/fnut.2021.661056 LINK

 

153) Kazuto Takasaki, Hiroki Aihara ,Takanobu Imanaka ,Takahiro Matsudaira, Keita Tsukahara, Atsuko Usui, Sora Osaki, and Hideyuki Doi* (2021) Water pre-filtration methods to improve environmental DNA detection by real-time PCR and metabarcoding. PLOS ONE 16: e0250162. DOI:10.1371/journal.pone.0250162 LINK

 *Corresponding authors

 

152) Hideyuki Doi†, Hiroyoshi Higuchi†, Hiromi Kobori†, Sangdon Lee† and Richard B. Primack† (2021) Declining phenology observations by the Japan Meteorological Agency. Nature Ecology and Evolution 5: 886-887 DOI:10.1038/s41559-021-01459-3 LINK

†These authors equally contributed.

 

151) Izumi Katano, Junjiro N. Negishi, Tomoko Minagawa, Hideyuki Doi, Yôichi Kawaguchi, and Yuichi Kayaba (2021) Effects of sediment replenishment on riverbed environments and macroinvertebrate assemblages downstream of a dam. Scientific Reports,11: 7525 DOI: 10.1038/s41598-021-86278-z LINK

*Featured by University Journal Online

 

150) Hideyuki Doi†, Ryutei Inui†, Shunsuke Matsuoka†, Yoshihisa Akamatsu, Masuji Goto, and Takanori Kono (2021) Estimation of biodiversity metrics by environmental DNA metabarcoding compared with visual and capture surveys of river fish communities. Freshwater Biology 66:1257-1266 DOI:10.1111/fwb.13714 LINK

†These authors equally contributed.

 

149) Tatsuya Saito and Hideyuki Doi (2021) Degradation modeling of water environmental DNA: Experiments on multiple DNA sources in pond and seawater. Environmental DNA, 3: 850-860. DOI:10.1002/edn3.192 LINK

 

148) Shunsuke Matsuoka, Hideyuki Doi, Shota Masumoto, Ryo Kitagawa, Keita Nishizawa, Kaho Tanaka, Motohiro Hasegawa, Satoru Hobara, Takashi Osono, Akira S. Mori, Masaki Uchida (2021) Taxonomic, functional, and phylogenetic diversity of fungi in a forest-tundra ecotone in Québec. Polar Science, 27:100594 DOI:10.1016/j.polar.2020.100594 LINK

 

147) Hideyuki Doi†, Toshifumi Minamoto†, Teruhiko Takahara, Satsuki Tsuji, Kimiko Uchii, Satoshi Yamamoto, Izumi Katano and Hiroki Yamanaka (2021) Compilation of real-time PCR conditions toward the standardization of eDNA methods. Ecological Research 36:379-388. DOI:10.1111/1440-1703.12217 LINK 

†The both authors equally contributed.

 

146) Tatsuya Saito and Hideyuki Doi (2021) A model and simulation of the influence of temperature and amplicon length on environmental DNA degradation rates: A meta-analysis approach. Frontiers in Ecology and Evolution 9:623831 Doi: 10.3389/fevo.2021.623831 LINK

 

145) Tatsuhiko Hoshino, Ryohei Nakao, Hideyuki Doi, and Toshifumi Minamoto (2021) Simultaneous absolute quantification and sequencing of fish environmental DNA in a mesocosm by quantitative sequencing technique. Scientific Reports 11:4372. DOI:10.1038/s41598-021-83318-6 LINK

 

144) Hideyuki Doi†, Remigiusz Gałęcki†, and Randy Nathaniel Mulia (2021) The merits of entomophagy in the post COVID-19 world. Trends in Food Science & Technology 110:849-854. DOI:10.1016/j.tifs.2021.01.067 LINK

†The both authors equally contributed.

*Featured by Mainichi-Shinbun.

 

143) Toshiaki Jo, Saki Ikeda, Arisa Fukuoka, Takashi Inagawa, Jiro Okitsu, Izumi Katano, Hideyuki Doi, Katsuki Nakai, Hidetaka Ichiyanagi, and Toshifumi Minamoto (2021) Utility of environmental DNA analysis for effective monitoring of invasive fish species in reservoirs. Ecosphere 12:e03643 DOI:10.1002/ecs2.3643 LINK

 

142) Takehiro Kazama, Jotaro Urabe, Masato Yamamichi, Kotaro Tokita, Xuwang Yin, Izumi Katano, Hideyuki Doi, Takehito Yoshida and Nelson G. Hairston Jr. (2021) A unified framework for herbivore-to-producer biomass ratio reveals the relative influence of four ecological factors. Communications Biology 4:49 DOI:10.1038/s42003-020-01587-9 LINK

 

141) Shin-ichiro Oka, Hideyuki Doi, Kei Miyamoto, Nozomi Hanahara, Tetsuya Sado, and Masaki Miya (2021) Environmental DNA metabarcoding for biodiversity monitoring of a highly-diverse tropical fish community in a coral-reef lagoon: Estimation of species richness and detection of habitat segregation. Environmental DNA 3:55-69. DOI:10.1002/edn3.132 LINK

*Featured by Okinawa-times, Ryukyu-Shinpo.

 

140) Toshifumi Minamoto, Masaki Miya, Tetsuya Sado, Satoquo Seino, Hideyuki Doi, Michio Kondoh, Keigo Nakamura, Teruhiko Takahara, Satoshi Yamamoto, Hiroki Yamanaka, Hitoshi Araki, Wataru Iwasaki, Akihide Kasai, Reiji Masuda, and Kimiko Uchii (2021)  An illustrated manual for environmental DNA research: Water sampling guidelines and experimental protocols. Environmental DNA 3:8-13. DOI:10.1002/edn3.121 LINK

 

 

*Corresponding authors

*Featured by Kyodo-Tsushin, Kochi Shinbun, Kobe Shinbun, NHK Kochi, Yahoo News, 47 News and others

*Awarded "Deep Life Paper" Awards 2020, International Center for deep life investigation.

 

138) Toshifumi Wada†, Hideyuki Doi†*, Daisuke Togaki, Ryotaro Kaida, Mariko Nagano, Izumi Katano, Masami Suzuki, Tetsuya Ohtani and Hiromune Mitsuhashi (2020) Exploring a legendary giant squid: An environmental DNA approach. Marine Biology 167:160 DOI:10.1007/s00227-020-03773-z LINK

†The both authors equally contributed (Toshifumi Wada deceased in 2018). *Corresponding author

*Featured by Hakai Magazine

 

137) Hideyuki Doi†, Yoshihisa Akamatsu†, Masuji Goto, Ryutei Inui, Takashi Komuro, Mariko Nagano, and Toshifumi Minamoto (2021) Broad-scale detection of environmental DNA for an invasive macrophyte and the relationship between DNA concentration and coverage in rivers. Biological Invasions 23: 507-520. DOI: 10.1007/s10530-020-02380-9 LINK

†The both authors equally contributed.

 

136) Michinobu Kuwae†, Hiromichi Tamai, Hideyuki Doi†, Masayuki K. Sakata, Toshifumi Minamoto, and Yoshiaki Suzuki (2020) Sedimentary DNA tracks decadal-centennial changes in fish abundance. Communications Biology 3:558 DOI:10.1038/s42003-020-01282-9 LINK

†The both authors equally contributed. 

*Featured by Sankei-Tsushin, Eurekalert

 

135) Shunsuke Matsuoka, Hideyuki Doi, Shota Masumoto, Ryo Kitagawa, Keita Nishizawa, Kaho Tanaka, Motohiro Hasegawa, Satoru Hobara, Takashi Osono, Akira S. Mori, and Masaki Uchida (2020) Taxonomic, functional, and phylogenetic diversity of fungi in a forest-tundra ecotone in Quebec. Polar Science 27:100594 DOI:10.1016/j.polar.2020.100594 LINK

 

134) Moriaki Yasuhara, Huai-Hsuan May Huang, Pincelli Hull, Marina C. Rillo, Fabien L. Condamine, Derek P. Tittensor, Michal Kučera, Mark J. Costello, Seth Finnegan, Aaron O’Dea, Yuanyuan Hong, Timothy C. Bonebrake, N. Ryan McKenzie, Hideyuki Doi, Chih-Lin Wei, Yasuhiro Kubota, Erin E. Saupe (2020) Time machine biology: Cross-timescale integration of ecology, evolution, and oceanography. Oceanography, 33:16-28. DOI:10.5670/oceanog.2020.225. LINK 

 

133) Mariko Nagano and Hideyuki Doi (2020) Ecological and evolutionary factors of intraspecific variation in inducible defenses: insights gained from Daphnia experiments. Ecology and Evolution 10:8554-8562 DOI:10.1002/ece3.6599 LINK

 

132) Teruhiko Takahara, Junya Taguchi, Satoshi Yamagishi, Hideyuki Doi, Shigeki Ogata, Hiroki Yamanaka, and Toshifumi Minamoto (2020) Suppression of eDNA degradation in water samples associated with different storage temperature and period using benzalkonium chloride. Limnology and Oceanography: Methods 18:437-445. DOI:10.1002/lom3.10374 LINK

 

131) Hideyuki Doi (2020) Idea paper: Community‐interaction analyses contribute to improving the performance of microbial fuel cells. Ecological Research 35:583-585. DOI:10.1111/1440-1703.12134 LINK

 

130) Kana Hayami, Masayuki K. Sakata, Takashi Inagawa, Jiro Okitsu, Izumi Katano, Hideyuki Doi, Katsuki Nakai, Hidetaka Ichiyanagi, Ryo O. Goth, Masaki Miya, Hirotoshi Sato, Hiroki Yamanaka, and Toshifumi Minamoto (2020) Effects of sampling seasons and locations on fish environmental DNA metabarcoding in dam reservoirs. Ecology and Evolution 10:5354-5367. DOI:10.1002/ece3.6279 LINK

129) Takashi Shirouzu, Shunsuke Matsuoka, Hideyuki Doi, Nobuaki Nagata, Masayuki Ushio, and Kentaro Hosaka (2020) Complementary molecular methods reveal a comprehensive phylogenetic diversity with integrating invisible lineages of early-diverged mushrooms. Scientific Reports 10:3057. DOI:10.1038/s41598-020-59620-0 LINK

 

128) Daisuke Togaki†, Hideyuki Doi†, and Izumi Katano (2020) Detection of freshwater mussels (Sinanodonta spp.) in artificial ponds through environmental DNA: a comparison with traditional hand collection methods. Limnology 21:59–65. DOI:10.1007/s10201-019-00584-0 LINK 

†The both authors equally contributed. 

 

 

127) Aozora Kakuda, Hideyuki Doi*, Rio Souma, Mariko Nagano, Toshifumi Minamoto, and Izumi Katano* (2019) Environmental DNA detection and quantification of invasive red-eared sliders, Trachemy scripta elegans, in ponds and the influence of water quality. PeerJ 7:e8155. DOI:10.7717/peerj.8155 LINK

*Corresponding authors

 

126) Shunsuke Matsuoka, Takaya Iwasaki, Yoriko Sugiyama, Eri Kawaguchi, Hideyuki Doi and Takashi Osono (2019) Biogeographic patterns of ectomycorrhizal fungal communities associated with Castanopsis sieboldii across the Japanese archipelago. Frontiers in Microbiology 10:2656. DOI:10.3389/fmicb.2019.02656 LINK

 

125) Randy Nathaniel Mulia and Hideyuki Doi* (2019) Global simulation of insect meat production under climate change. Frontiers in Sustainable Food Systems  3:91. DOI:10.3389/fsufs.2019.00091 LINK

*Corresponding author

 

124) Hideyuki Doi, Eisuke Kikuchi, Shigeto Takagi, and Shuichi Shikano (2019) Spatio-temporal stable isotope variation of a benthic primary consumer in a simple food web in a strongly acidic lake. PeerJ 7:e7890. DOI:10.7717/peerj.7890 LINK

 

123) Kimiko Uchii, Hideyuki Doi, Teruyuki Okahashi, Izumi Katano, Hiroki Yamanaka, Masayuki K. Sakata, and Toshifumi Minamoto (2019) Comparison of inhibition resistance among PCR reagents for detection and quantification of environmental DNA. Environmental DNA 1:359-367. DOI:10.1002/edn3.37  LINK

 

122) Kousuke Ikeda, Hideyuki Doi, Shigeharu Terui, Atsuko Kato, Takashi Mitsuzuka, Tadashi Kawai, and Junjiro N. Negishi (2019) Estimating native and invasive crayfish distributions in relation to culvert barriers with environmental DNA. Freshwater Science 38:654–660. DOI:10.1086/704998 LINK

*Featured by Asahi-Shinbun

 

121) Saeko Matsuhashi, Toshifumi Minamoto, and Hideyuki Doi (2019) Seasonal change in environmental DNA concentration of a submerged aquatic plant species. Freshwater Science 38:629–641. DOI:10.1086/704996 LINK

 

120) Viktoriia Radchuk, Thomas Reed, Céline Teplitsky, Martijn van de Pol, Anne Charmantier, Christopher Hassall, Peter Adamík, Frank Adriaensen, Markus Ahola, Peter Arcese, Jesús Miguel Avilés, Javier Balbontin, Wolf Blanckenhorn, Antoni Borras, Sarah Burthe, Jean Clobert, Nina Dehnhard, Florentino de Lope, André A. Dhondt, Niels J. Dingemanse, Hideyuki Doi, and 44 authors (2019) Adaptive responses of animals to climate change are most likely insufficient. Nature Communications 10:3109. DOI:10.1038/s41467-019-10924-4 LINK 

*Featured by  F1000, Nature Research Ecology and Evolution Community, Nikkei-Shinbun, Eurekalert, BBC, Gigagine, and others

 

119) Shunsuke Matsuoka, Yoriko Sugiyama, Hirotoshi Sato,Izumi Katano, Ken Harada, and Hideyuki Doi (2019) Spatial structures of fungal DNA assemblages revealed with eDNA metabarcoding in a forest river network in western Japan. Metabarcoding and Metagenomics 3:e36335. DOI:10.3897/mbmg.3.36335 LINK 

 

118) Satsuki Tsuji, Teruhiko Takahara, Hideyuki Doi, Naoki Shibata, and Hiroki Yamanaka (2019) The detection of aquatic macroorganisms using environmental DNA analysis –a review of methods for collection, extraction, and detection. Environmental DNA 1:99-108. DOI:10.1002/edn3.21 LINK

 

117) Izumi Katano, and Hideyuki Doi (2019) Effects of stream grazers with different functional traits on the spatial heterogeneity of periphyton mats. PeerJ 7:e6747. DOI:10.7717/peerj.6747  LINK

 

116) Teruhiko Takahara, Takashi Ikebuchi, Hideyuki Doi, and Toshifumi Minamoto (2019) Using environmental DNA to estimate the seasonal distribution and habitat preferences of a Japanese basket clam in Lake Shinji, Japan. Estuarine, Coastal and Shelf Science 221:15-20. DOI:10.1016/j.ecss.2019.02.022 LINK 

*Featured by Sanin-Chuo Shinbun

 

115) Hideyuki Doi†, Keiichi Fukaya†, Shin-ichiro Oka, Keiichi Sato, Michio Kondoh, and Masaki Miya* (2019) Evaluation of detection probabilities at the water-filtering and initial PCR steps in environmental DNA metabarcoding using a multispecies site occupancy model. Scientific Reports 9:3581.  DOI: 10.1038/s41598-019-40233-1 LINK

†The both authors equally contributed. *Corresponding author 

*Featured as Top-100 Ecology paper in Scientific Reports

 

114) Kazuya Fujii†, Hideyuki Doi†*, Shunsuke Matsuoka, Mariko Nagano, Hirotoshi Sato, and Hiroki Yamanaka (2019) Environmental DNA metabarcoding for fish community analysis in backwater lakes: A comparison of capture methods. PLOS ONE 14: e0210357. DOI: 10.1371/journal.pone.0210357 LINK

†The both authors equally contributed. *Corresponding author 

 

113) Hideyuki Doi and Helmut Hillebrand (2019) Historical contingency and productivity effects on food-chain length. Communications Biology 2:40. DOI:10.1038/s42003-019-0287-8 LINK

 

 

112) Hideyuki Doi, Kwang-Hyeon Chang and Shin-ichi Nakano (2018) Trophic niche breadth of pond zooplankton species using stable isotope analysis and the relationship with the abiotic and biotic factors. Royal Society Open Science 6:180917. DOI: 10.1098/rsos.180917 LINK

 

111) Naoto F. Ishikawa†, Hideyuki Doi†, and Jacques C. Finlay (2018) Global dataset for carbon and nitrogen stable isotope ratios of lotic periphyton. (Data paper) Ecological Research 33:1089–1089. †The both authors equally contributed. DOI: 10.1007/s11284-018-1623-z LINK

  

110) Mariko Nagano and Hideyuki Doi (2018) Degree of high phenotypic plasticity in wild populations of Daphnia in early spring. Journal of Limnology 77:309-315. DOI:10.4081/jlimnol.2018.1709 LINK

 

109) Masato Yamamichi Takehiro Kazama, Kotaro Tokita, Izumi Katano, Hideyuki Doi, Takehito Yoshida, Nelson G. Hairston Jr., and Jotaro Urabe (2018) A shady phytoplankton paradox: When phytoplankton increases under low light. Proceedings of the Royal Society B: Biological Sciences 285: 20181067 DOI:10.1098/rspb.2018.1067 LINK

*Featured by Sankei-Shinbun, and ESJ web site

 

108) Thierry Chambert, David S. Pilliod, Caren S. Goldberg, Hideyuki Doi, and Teruhiko Takahara (2018) An analytical framework for estimating aquatic species density from environmental DNA. Ecology and Evolution 8:3468–3477 DOI:10.1002/ece3.3764 LINK

 

 

107) Hirotoshi Sato, Yuki Sogo, Hideyuki Doi, and Hiroki Yamanaka (2017) Usefulness and limitations of sample pooling for environmental DNA metabarcoding of freshwater fish communities. Scientific Reports 7:14860 DOI:10.1038/s41598-017-14978-6 LINK

 

106) Hideyuki Doi*, Yoshihisa Akamatsu*, Yutaka Watanabe*, Masuji Goto, Ryutei Inui, Izumi Katano, Mariko Nagano, Teruhiko Takahara, and Toshifumi Minamoto (2017) Water sampling for environmental DNA surveys by using an unmanned aerial vehicle. Limnology and Oceanography Methods 15:939-944. DOI:10.1002/lom3.10214 LINK *These authors equally contributed.

*Featured by Asahi-Shinbun, Kobe-Shinbun, Kankyo Tenboudai, Yahoo News

 

105) Kimiko Uchii, Hideyuki Doi, Hiroki Yamanaka, and Toshifumi Minamoto (2017) Distinct seasonal migration patterns of Japanese native and non-native genotypes of common carp estimated by environmental DNA. Ecology and Evolution 7:8512-8522 available  DOI:10.1002/ece3.3346 LINK

 

104) Hideyuki Doi, Fumikazu Akamatsu, and Angélica L. González (2017) Starvation effects on nitrogen and carbon stable isotopes of animals: an insight from meta-analysis of fasting experiments. Royal Society Open Science  4:170633. DOI:10.1098/rsos.170633 LINK 

103) Hideyuki Doi†, Izumi Katano†, Yusuke Sakata, Rio Souma, Toshihiro Kosuge, Mariko Nagano, Kousuke Ikeda, Koki Yano, and Koji Tojo (2017) Detection of an endangered aquatic heteropteran using environmental DNA in a wetland ecosystem. Royal Society Open Science 4:170568 DOI: 10.1098/rsos.170568  LINK 

†The both authors equally contributed.

102) Hideyuki Doi, Oscar Gordo, Terutaka Mori, and Mayumi T. Kubo (2017) A macroecological perspective for phenological research under climate change. Ecological Research 32:633-641. DOI:10.1007/s11284-017-1480-1 LINK

101) Izumi Katano*, Ken Harada*, Hideyuki Doi*, Rio Souma, and Toshifumi Minamoto (2017) Environmental DNA method for estimating salamander distribution in headwater streams, and a comparison of water sampling methods. PLOS ONE  12:e0176541 DOI:10.1371/journal.pone.0176541 LINK *These authors equally contributed. 

*Featured by Yomiuri-Shinbun

 

100) Izumi Katano, Hiromune Mitsuhashi, Hideyuki Doi, Yu Isobe, and Tadashi Oishi (2017) Distribution and drift dispersal dynamics of a caddisfly grazer in response to resource abundance and its ontogeny. Royal Society Open Science 4:160732 DOI:10.1098/rsos.160732 LINK

 

99) Hideyuki Doi, Kimiko Uchii, Saeko Matsuhashi, Teruhiko Takahara, Hiroki Yamanaka, and Toshifumi Minamoto (2017) Isopropanol precipitation method for collecting fish environmental DNA. Limnology and Oceanography: Methods 15:212-218 DOI:10.1002/lom3.10161 LINK

 

98) Toshifumi Minamoto, Kimiko Uchii, Teruhiko Takahara, Takumi Kitayoshi, Satsuki Tsuji, Hiroki Yamanaka, and Hideyuki Doi (2017) Nuclear internal transcribed spacer-1 as a sensitive genetic marker for environmental DNA studies in common carp Cyprinus carpio. Molecular Ecology Resources 17: 324-333 DOI:10.1111/1755-0998.12586 LINK

 

97) Hideyuki Doi†, Ryutei Inui†, Yoshihisa Akamatsu, Kazuki Kanno, Hiroki Yamanaka, Teruhiko Takahara, and Toshifumi Minamoto (2017) Environmental DNA analysis for estimating the abundance and biomass of stream fish. Freshwater Biology 62:30-39. DOI:10.1111/fwb.12846 LINK 

†The both authors equally contributed.

*Featured by Sankei-Shinbun, Chugoku-Shinbun, Ube-Nippou, MyNavi news

 

 

96) Masaki Miya, Toshifumi Minamoto, Hiroki Yamanaka, Shin-ichiro Oka, Keiichi Sato, Satoshi Yamamoto, Tatsuya Sado, and Hideyuki Doi (2016) Use of a filter cartridge for filtration of water samples and extraction of environmental DNA. Journal of Visualized Experiments 117:e54741 DOI: 10.3791/54741 LINK (with Video instruction)

 

95)  Kousuke Ikeda†, Hideyuki Doi†, Kazunori Tanaka, Tadashi Kawai, and Junior N. Negishi (2016) Using environmental DNA to detect an endangered crayfish Cambaroides japonicus in streams. Conservation Genetics Resources 8: 231-234. DOI:10.1007/s12686-016-0541-z 

†The both authors equally contributed. LINK

*Featured by Asahi-Shinbun (Digital), Mainichi-Shinbun, Nikkei-Shinbun, Shinano Mainichi-Shinbun, Hokkaido Kensetsu-Shinbun, Hokkaido Tsushin, Nikkei Asian Review, Kobe-Shinbun Next news, Yahoo! news, 47News, ITmedia, MyNavi news, etc

 

94) Hideyuki Doi, and Teruhiko Takahara (2016) Global patterns of conservation research importance in different countries of the world. PeerJ 4:e2173 DOI:10.7717/peerj2173 LINK

 

93)  Saeko Matsuhashi, Hideyuki Doi, Ayaka Fujiwara, Sonoko Watanabe, and Toshifumi Minamoto (2016) Evaluation of the environmental DNA method for estimating distribution and biomass of submerged aquatic plants. PLOS ONE 11:e0156217 DOI:10.1371/journal.pone.0156217 LINK

 

92) Moriaki Yasuhara†, Hideyuki Doi†, Chih-Lin Wei†, Roberto Danovaro, and Sarah E. Myhre (2016) Biodiversity-ecosystem functioning relationships in long-term time series and paleoecological records: deep sea as a test bed. Philosophical Transactions of the Royal Society B: Biological Sciences 371:20150282 DOI:10.1098/rstb.2015.0282. 

†These authors equally contributed.  LINK

 

91) Ayaka Fujiwara, Saeko Matsuhashi, Hideyuki Doi, Satoshi Yamamoto, and Toshifumi Minamoto (2016) Use of environmental DNA to survey the distribution of an invasive submerged plant in ponds. Freshwater Science 35: 748-754. DOI:10.1086/685882 LINK

 

90) Takeshi Miki, and Hideyuki Doi* (2016) Leaf phenological shifts and plant-microbe-soil interactions can determine forest productivity and nutrient cycling under climate change in an ecosystem model. Ecological Research 31:263-274. DOI:10.1007/s11284-016-1333-3 LINK *Corresponding author

 

89) Kimiko Uchii, Hideyuki Doi, and Toshifumi Minamoto (2016) A novel environmental DNA approach to quantify the cryptic invasion of non-native genotypes. Molecular Ecology Resources 16:415-422. DOI:10.1111/1755-0998.12460 LINK

*Featured by ScienceDaily, Eurekalert, Science Newsline, Phys.org, Helpinus

 

 

88) Izumi Katano, Hideyuki Doi*, Britas Klemens Eriksson, and Helmut Hillebrand (2015) A cross-system meta-analysis reveals coupled predation effects on prey biomass and diversity. Oikos 124:1427-1435. DOI:10.1111/oik.02430 LINK *Corresponding author 

*Featured by Oikos Editor's Choice

 

87) Susanne Menden-Deuer, Laura Bristow, Hideyuki Doi, Christopher Filstrup, Andrea Johnson, Kevin Rose, Xiao Xi, Amy Burgess, and Grace Wilkinson (2015) Big data on important issues: Assessing the needs of student and early career aquatic scientists. Limnology and Oceanography Bulletin 24:77-79. DOI:10.1002/lob.10052 LINK 

 

86) Noriyuki Koizumi, Teruhiko Takahara, Toshifumi Minamoto, Hideyuki Doi, Atsushi Mori, Keiji Watanabe, and Takeshi Takemura (2015) Preliminary experiment for detection method of fish inhabiting agricultural drainage canals using environmental DNA. IDRE Journal 297: IV_7-IV_8. DOI:10.11408/jsidre.83.IV_7 LINK 

 

85) Hideyuki Doi†, Teruhiko Takahara†, Toshifumi Minamoto, Saeko Matsuhashi, Kimiko Uchii, and Hiroki Yamanaka (2015) Droplet digital polymerase chain reaction (PCR) outperforms real-time PCR in the detection of environmental DNA from an invasive fish species. Environmental Science & Technology 49:5601-5608. DOI:10.1021/acs.est.5b00253 LINK 

†The both authors equally contributed.

 

84) Hideyuki Doi, Kimiko Uchii, Teruhiko Takahara, Saeko Matsuhashi, Hiroki Yamanaka, and Toshifumi Minamoto (2015) Use of droplet digital PCR for estimation of fish abundance and biomass in environmental DNA surveys. PLOS ONE 10:e0122763  DOI:10.1371/journal.pone.0122763 LINK

*Featured by ScienceDaily, Phys.org,DNA barcoding Blog,Science Newsline

 

83) Teruhiko Takahara, Satoru Endo, Momo Takada, Yurika Oba, Wim Ikbal Nursal, Takeshi Igawa, Hideyuki Doi, Toshihiro Yamada, and Toshinori Okuda (2015) Radiocesium accumulation in the anuran frog, Rana tagoi tagoi, in forest ecosystems after the Fukushima Nuclear Power Plant accident. Environmental Pollution 199:89-94. DOI:10.1016/j.envpol.2015.01.018 LINK

 

82) Teruhiko Takahara, Toshifumi Minamoto, and Hideyuki Doi  (2015) Effects of sample processing on the detection rate of environmental DNA from the Common Carp (Cyprinus carpio). Biological Conservation 183:64-69. DOI:10.1016/j.biocon.2014.11.014 LINK

 

  

81) Kwang-Hyeon Chang, Hideyuki Doi, Yuichiro Nishibe, Gui-Sook Nam and Shin-ichi Nakano (2014) Feeding behavior of the copepod Temora turbinata: clearance rate and prey preference on the diatom and microbial food web components in coastal area. Journal of Ecology and Environment 37: 225-229. DOI:10.5141/ecoenv.2014.027 LINK

  

80) Izumi Katano, and Hideyuki Doi (2014) Stream grazers determine their crawling direction on the basis of chemical and particulate microalgal cues. PeerJ 2:e503 DOI:10.7717/peerj.503 LINK

 

79) Teruhiko Takahara, Mie N. Honjo, Kimiko Uchii, Toshifumi Minamoto, Hideyuki Doi, Takafumi Ito, and Zen’ichiro Kawabata (2014) Effects of daily temperature fluctuation on the survival of carp infected with Cyprinid herpesvirus 3. Aquaculture 433:208-213. DOI:10.1016/j.aquaculture.2014.06.001 LINK

 

78) Teruhiko Takahara, Toshifumi Minamoto, Hideyuki Doi, Takafumi Ito, and Zen’ichiro Kawabata (2014) Differences between domesticated Eurasian and Japanese indigenous strains of the common carp (Cyprinus carpio) in cortisol release following acute stressor. Ichthyological Research 61:165-168. DOI:10.1007/s10228-013-0385-4 LINK

 

77) Hideyuki Doi, Alexandre Heeren and Pierre Maurage (2014) Scientific activity is a better predictor of Nobel award chances than dietary habits and economic factors. PLOS ONE 9:e92612 DOI:10.1371/journal.pone.0092612 LINK

*Featured by Xjentifika, Soylent NEWS

 

 

76) Hideyuki Doi, Elena I. Zuykova, Shuichi Shikano, Eisuke Kikuchi, Hiroshi Ota, Natalia I. Yurlova, and Elena Yadrenkina (2013) Isotopic evidence for the spatial heterogeneity of the planktonic food webs in the transition zone between river and lake ecosystems. PeerJ 1:e222 DOI:10.7717/peerj.222 LINK

*Featured by PeerJ Blog

 

75) Hideyuki Doi (2013) The “four-color issue” in ecology for considering ecosystem boundaries. Web Ecology 13:91-93. DOI:10.5194/we-13-91-2013 LINK

 

74) Hideyuki Doi, Izumi Katano, Junjiro N. Negishi, Seiji Sanada, and Yuichi Kayaba (2013) Effects of biodiversity, habitat structure, and water quality on human recreational use of rivers. Ecosphere 4:102 DOI:10.1890/ES12-00305.1 LINK

*Featured by Kobe-Shinbun, Chugoku-Shinbun, Mynavi news, Yahoo! news, etc

 

73) Hideyuki Doi, Kwang-Hyeon Chang, Yuichiro Nishibe, Hiroyuki Imai, and Shin-ichi Nakano (2013) Lack of congruence in species diversity indices and community structures of planktonic groups based on local environmental factors. PLOS ONE 8:e69594 DOI:10.1371/journal.pone.0069594 LINK

 

72) Teruhiko Takahara, Toshifumi Minamoto, and Hideyuki Doi (2013) Using environmental DNA to estimate the distribution of an invasive fish species in ponds. PLOS ONE 8:e56584 DOI:10.1371/journal.pone.0056584 LINK

*Featured by Asahi-Shinbun, Yomiuri-Shinbun, Mainichi-Shinbun, Sankei-Shinbun, Chugoku-Shinbun, Nikkei-Shinbun, Tokyo-Shinbun, Kyodonews, 47News, etc. 

 

71) Hideyuki Doi, and Terutaka Mori (2013) The discovery of species-abundance distribution in an ecological community. Oikos 122:179-182. DOI:10.1111/j.1600-0706.2012.00068.x LINK 

*Appendix (English translation of Motomura (1932) ): LINK

*Featured by Faculty of Science, Tohoku University, Oikos Blog 

 

70) Teruhiko Takahara, Hideyuki Doi, Yukihiro Kohmatsu, and Ryohei Yamaoka (2013) Different chemical cues

originating from a shared predator induce common defense response in two prey species. Animal Cognition 16:147-153. DOI:10.1007/s10071-012-0565-z LINK 

 

 

69) Oscar Gordo and Hideyuki Doi* (2012) Drivers of population variability in phenological responses to climate change in Japanese birds. Climate Research 54:95-112. DOI:10.3354/cr01099 LINK 

*Corresponding author

 

68) Naoto F. Ishikawa†, Hideyuki Doi†, and Jacques C. Finlay (2012) Global meta-analysis for controlling factors on carbon stable isotope ratio of lotic periphyton. Oecologia 170:541-549. DOI:10.1007/s00442-012-2308-x LINK 

†Both authors contributed equally to the paper.

 

67) Hideyuki Doi (2012) Response of the Morus bombycis growing season to temperature and its latitudinal pattern in Japan. International Journal of Biometeorology 56:895-902. DOI:10.1007/s00484-011-0495-5 LINK

 

66) Teruhiko Takahara, Yukihiro Kohmatsu, Atsushi Maruyama, Hideyuki Doi, Hiroki Yamanaka, and Ryohei Yamaoka (2012) Inducible defense behavior of an anuran tadpole: cue-detection range and cue types against predator. Behavioral Ecology 23:863-868. DOI:10.1093/beheco/ars044 LINK

 

65) Hideyuki Doi, M. Jake Vander Zanden, and Helmut Hillebrand (2012) Shorter food-chain lengths in ancient lakes:Evidence from a global synthesis. PLoS ONE 7:e37856. DOI:10.1371/journal.pone.0037856 LINK

*Recommended by Faculty of 1000,  Featured by Chugoku-Shinbun

 

64) Hideyuki Doi (2012) Resource productivity and availability impacts for food-chain length. Ecological Research 27:521-527. DOI:10.1007/s11284-012-0941-9 LINK 

*Denzaburo Miyadi Award review

 

63) Oscar Gordo and Hideyuki Doi* (2012) Spring phenology delays in an insular semitropical songbird: Is response to climate change constrained by population size? Journal of Ornithology 153:355-366. DOI:10.1007/s10336-011-0750-x LINK *Corresponding author

 

62) Teruhiko Takahara, Toshifumi Minamoto, Hiroki Yamanaka, Hideyuki Doi, and Zen’ichiro Kawabata (2012) Estimation of fish biomass using environmental DNA. PLoS ONE 7:e35868 DOI:10.1371/journal.pone.0035868 LINK

*Featured by TV-ShinHiroshima news, Yomiuri-Shinbun, Mainichi-Shinbun, Chugoku-Shinbun, Nikkei-Shinbun

 

61) Takefumi Nakazawa and Hideyuki Doi* (2012) A perspective on match/mismatch of phenology in community contexts. Oikos 121:489–495. DOI:10.1111/j.1600-0706.2011.20171.x LINK 

*Corresponding author

 

60) Hideyuki Doi, Teruhiko Takahara and Kazuya Tanaka (2012) Trophic position and metabolic rate predict long-term decay process on radioactive cesium in fish: A meta-analysis. PLoS ONE 7:e29295 DOI:10.1371/journal.pone.0029295 LINK

*Featured by NHK E-TV “Science Zero”, NHK-TV Hiroshima news, NHK Online, Yomiuri-Shinbun, Mainichi-Shinbun, Chugoku-Shinbun, Nikkei-Shinbun, Tokyo-Shinbun, Kyodonews, Yahoo! news, 47News, etc

 

 

59) Seiko Mizuta, Maiko Kusaba, Hiroyuki Imai, Kwang-Hyeon Chang, Hideyuki Doi, Yuichiro Nishibe and Shin-ichi Nakano (2011) Grazing on Microcystis (Cyanophyceae) by testate amoebae with special reference to cyanobacterial abundance and physiological state. Limnology 12:205-211. DOI:10.1007/s10201-010-0341-1 LINK

 

58) Yoshito Chikaraishi, Nanako O. Ogawa, Hideyuki Doi, and Naohiko Ohkouchi (2011) 15N/14N ratio of amino acids as a tool for studying terrestrial food webs: a case study of the terrestrial insects (bee, wasp, and hornet). Ecological Research 26:835-844. DOI:10.1007/s11284-011-0844-1 LINK 

*Awarded the 12th Ecological Research Award

 

57) Hideyuki Doi†, and Natalia I. Yurlova† (2011) Host-parasite interactions and global climate oscillations. Parasitology 138:1022-1028. DOI:10.1017/S0031182011000655 LINK 

†Both authors contributed equally to this paper.

 

56) Hideyuki Doi†, and Natalia I. Yurlova† (2011) Consequent effects of parasitism on population dynamics, food web and human health under climate change. Ambio 40:332-334. DOI:10.1007/s13280-010-0068-6 LINK 

†Both authors contributed equally to this paper.

 

55) Kwang-Hyeon Chang, Masaki Sakamoto, Jin-Yong Ha, Yuichi Miyabara, Tomoki Murakami, Shin-ichi Nakano, Hideyuki Doi, and Takayuki Hanazato (2011) Response of plankton community in eutrophicated system to herbicide application (triazine herbicide, simetryn): short-term exposure experiment using microcosms. Limnology 12:11-16 DOI:10.1007/s10201-010-0317-1 LINK

 

54) Junjiro N. Negishi, Hideyuki Doi, Izumi Katano, and Yuichi Kayaba (2011) Seasonally tracking vertical and horizontal distribution of unionid mussels (Pronodularia japanensis): Implications for agricultural drainage management. Aquatic Conservation: Marine and Freshwater Environments 21:49-56. DOI:10.1002/aqc.1153 LINK

 

53) Hideyuki Doi, Kwang-Hyeon Chang, and Shin-ichi Nakano (2011) Nitrogen and carbon isotope fractionations of zooplankton consumers in ponds: Potential effect of seston stoichiometry. Marine and Freshwater Research 62:66-71.DOI:10.1071/MF10090 LINK

 

 

52) Hideyuki Doi, Toru Kobari, Kayoko Fukumori, Yuichiro Nishibe and Shin-ichi Nakano (2010) Trophic niche breadth variability differs among three Neocalanus species in the subarctic Pacific Ocean. Journal of Plankton Research 32:1733-1737. DOI:10.1093/plankt/fbq083 LINK

  

51) Hideyuki Doi, Natalia I. Yurlova, Eisuke Kikuchi, Shuichi Shikano, Elena Yadrenkina, and Elena I. Zuykova (2010) Stable isotopes indicate individual level trophic diversity in a freshwater model Gastropod, Lymnaea stagnalis. Journal of Molluscan Studies 76:384-388. DOI:10.1093/mollus/eyq020 LINK

 

50) Hideyuki Doi, Kwang-Hyeon Chang, and Shin-ichi Nakano (2010) Dispersal, connectivity, and local conditions determine zooplankton community in artificially connected ponds. Aquatic Biology 10:47-55. DOI:10.3354/ab00262 LINK

 

49) Kwang-Hyeon Chang, Hideyuki Doi, Yuichiro Nishibe, and Shin-ichi Nakano (2010) Feeding habit of omnivorous Asplanchna: comparison of diet composition among Asplanchna herricki, A. priodonta and A. girodi in pond ecosystems. Journal of Limnology 69:209-216. DOI:10.4081/jlimnol.2010.209 LINK

 

48) Hideyuki Doi, Eisuke Kikuchi, Shigeto Takagi, and Shuichi Shikano (2010) Differences in nitrogen and carbon stable isotopes between planktonic and benthic microalgae. Limnology 11:185-192. DOI:10.1007/s10201-009-0297-1 LINK

 

47) Hideyuki Doi†, Natalia I. Yurlova†, Svetlana N. Vodyanitskaya, Gen Kanaya, Shuichi Shikano and Eisuke Kikuchi  (2010) Estimating isotope fractionations between cercariae and host snail using isotope measurements designed for very small organism. Journal of Parasitology 96:314-317. DOI:10.1645/GE-2245.1 LINK 

†Both authors contributed equally to this paper.

 

46) Hideyuki Doi, Mehdi Cherif, Tsubasa Iwabuchi, Izumi Katano, James C. Stegen, and Maren Striebel (2010) Integrating elements and energy through the metabolic dependencies of gross growth efficiency and the threshold elemental ratio. Oikos 119:752-765. DOI: 10.1111/j.1600-0706.2009.18540.x LINK 

†All authors contributed equally to the paper.

 

45) Hideyuki Doi, Kwang-Hyeon Chang, Takamitsu Ando, Hiroyuki Imai, and Shin-ichi Nakano (2010) Shoreline bank construction modifies benthic-pelagic coupling of food webs. Ecological Engineering 36:601-604. DOI:10.1016/j.ecoleng.2009.12.017 LINK

 

44) Hideyuki Doi, Mayumi Takahashi and Izumi Katano (2010) Genetic diversity increases regional variations in phenological responses to climate change. Global Change Biology 16:373-379. DOI:10.1111/j.1365-2486.2009.01993.x LINK

*Featured by the cover photo of the issue: Japanese cherry flower (Prunus x yedoensis, Someiyoshino)

81.  

     

43) Gen Kanaya, Elena N. Yadrenkina, Elena I. Zuykova, Eisuke Kikuchi, Shuichi Shikano, Chitoshi Mizota, Hideyuki Doi, and Nataliya I. Yurlova (2009) Contribution of organic matter sources to cyprinid fishes in the Chany Lake-Kargat River estuary, western Siberia. Marine and Freshwater Research 60:510-518. DOI: 10.1071/MF08108 LINK

 

42) Izumi Katano, Hideyuki Doi, and Tadashi Oishi (2009) Upstream resource abundance determines the food searching behavior of a stream grazer: Effect of microalgal cues. Limnology and Oceanography 54:1162-1166. DOI:10.4319/lo.2009.54.4.1162 LINK

 

41) Hideyuki Doi, and Eisuke Kikuchi (2009) Conservation and research in extreme environments. Frontiers in Ecology and the Environment 7:239. DOI:10.1890/09.WB.014 LINK

 

 

40) Izumi Katano, Junjiro N. Negishi, Tomoko Minagawa, Hideyuki Doi, Yôichi Kawaguchi, and Yuichi Kayaba (2009) Longitudinal macroinvertebrate organization over contrasting discontinuities: effects of a dam and a tributary. Journal of the North American Benthological Society 28:331-351. DOI:10.1899/08-010.1 LINK

 

39) Kwang-Hyeon Chang, Hideyuki Doi, Yuichiro Nishibe, Yumiko Obayashi, and Shin-ichi Nakano (2009) Spatial and temporal distribution of zooplankton communities of coastal marine waters receiving different human activities (fish and pearl oyster farmings). The Open Marine Biology Journal 3:83-88. DOI: 10.2174/1874450800903010083 LINK

 

38) Hideyuki Doi, Masatoshi Matsumasa, Mamoru Fujikawa, Keiichi Kanou, Takao Suzuki, and Eisuke Kikuchi (2009) Macroalgae and seagrass contribution to gastropods in sub-tropic and temperate tidal flats. Journal of Marine Biological Association of the United Kingdom 89:399-404. DOI:10.1017/S0025315408002683 LINK

 

37) Chitoshi Mizota, Hideyuki Doi, Eisuke Kikuchi, Shuichi Shikano, Takeshi Kakegawa, Natalia I. Yurlova, and A. I. Yurlova (2009) Stable isotopic characterization of fluids from Lake Chany Complex, western Siberia, Russia. Applied Geochemistry 24:319-327. DOI:10.1016/j.apgeochem.2008.10.009 LINK

 

36) Hideyuki Doi (2009) Spatial patterns of autochthonous and allochthonous resources in aquatic food webs. Population Ecology 51:57-64. DOI:10.1007/s10144-008-0127-z LINK

 

35) Hideyuki Doi, Kwang-Hyeon Chang, Takamitsu Ando, Hiroyuki Imai, Ippei Ninomiya, and Shin-ichi Nakano (2009) Resource availability and ecosystem size predict food-chain lengths in pond ecosystems. Oikos 118:138-144. DOI:10.1111/j.1600-0706.2008.17171.x LINK

 

 

34) Motomi Genkai-Kato, Miyuki Onishi, Hideyuki Doi, Kentaro Nozaki, Hitoshi Miyasaka, and Koji Omori (2008) Photosynthetic property of phytoplankton and their primary production on a sublittoral sand bank off Hojo, Ehime. Ecological Research 23:1025-1032. DOI:10.1007/s12601-009-0017-0 LINK

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33) Kwang-Hyeon Chang, Hideyuki Doi, Hiroyuki Imai, Fusako Gunji, and Shin-ichi Nakano (2008) Longitudinal changes in zooplankton distribution below a reservoir outfall with reference to river planktivory. Limnology 9:125-133. DOI:10.1007/s10201-008-0244-6 LINK

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32) Hideyuki Doi (2008) Delayed phenological timing of dragonfly emergence in Japan over five decades. Biology Letters 4:388-391. DOI:10.1098/rsbl.2008.0234 LINK

 

31) Hideyuki Doi, Oscar Gordo, and Izumi Katano (2008) Heterogeneous intra-annual climatic changes drive different phenological responses in two trophic levels. Climate Research 36:181-190. DOI:10.3354/cr00741 LINK

 

30) Kayoko Fukumori, Misa Oi, Hideyuki Doi, Daisuke Takahashi, Noboru Okuda, Todd W. Miller, Michinobu Kuwae, Hitoshi Miyasaka, Motomi Genkai-Kato, Yoshitsugu Koizumi, Koji Omori, and Hidetaka Takeoka (2008) Bivalve tissue as a carbon and nitrogen isotope baseline indicator in coastal ecosystems. Estuarine, Costal and Shelf Science 79:45-50. DOI:10.1016/j.ecss.2008.03.004 LINK

 

29) Hideyuki Doi, and Mayumi Takahashi (2008) Latitudinal patterns in phenological responses of leaf colouring and leaf fall to climate change in Japan. Global Ecology and Biogeography 17:556-561. DOI:10.1111/j.1466-8238.2008.00398.x LINK

*Featured by BBC Earth

 

28) Hideyuki Doi, Kwang-Hyeon Chang, Takamitsu Ando, Hiroyuki Imai, Shin-ichi Nakano, Akio Kajimoto, and Izumi Katano (2008) Drifting plankton from a reservoir subsidize downstream food webs and alter community structure. Oecologia 156: 363-371. DOI:10.1007/s00442-008-0988-z LINK

 

27) Hideyuki Doi, and Izumi Katano (2008) Distribution patterns of stream grazers and relationships between grazers and periphyton at multiple spatial scales. Journal of the North American Benthological Society 27:295–303. DOI:10.1899/07-067.1 LINK

 

26) Hitoshi Miyasaka, Motomi Genkai-Kato, Yo Miyake, Daisuke Kishi, Izumi Katano, Hideyuki Doi, Shin-ya Ohba, and Naotoshi Kuhara (2008) Relationships between length and weight of freshwater macroinvertebrates in Japan. Limnology 9:75-80. DOI: 10.1007/s10201-008-0238-4 LINK

 

25) Hideyuki Doi, and Izumi Katano (2008) Phenological timing of leaf budburst with climate change in Japan. Agricultural and Forest Meteorology 148:512-516. DOI:10.1016/j.agrformet.2007.10.002 LINK

 

24) Hideyuki Doi, Natalia I. Yurlova, Svetlana N. Vodyanitskaya, Eisuke Kikuchi, Shuichi Shikano, Elena I. Zuykova, and Elena N. Yadrenkina (2008) Parasite-induced changes in nitrogen isotope signatures of host tissues. Journal of Parasitology 94:292-295. DOI:10.1645/GE-1228.1 LINK

 

23) Hideyuki Doi, Kwang-Hyeon Chang, Yumiko Obayashi, Mizuho Yoshihara, Mary Shime, Takako Yamamoto, Yuichiro Nishibe, and Shin-ichi Nakano (2008) Attached microalgae contribute to planktonic food webs in bays with fish and pearl oyster farms. Marine Ecology Progress Series 354:123-132. DOI:10.3354/meps07202 LINK 

 

22) Kayoko Fukumori, Misa Oi, Hideyuki Doi, Noboru Okuda, Hitomi Yamaguchi, Michinobu Kuwae, Hitoshi Miyasaka, Kenji Yoshino, Yoshitsugu Koizumi, Koji Omori, and Hidetaka Takeoka (2008) Food sources of the pearl oyster in coastal ecosystems of Japan: Evidence from diet and stable isotope analysis. Estuarine, Coastal and Shelf Science 76:704-709. DOI:10.1016/j.ecss.2007.07.046 LINK

 

 

21) Izumi Katano*, Hideyuki Doi, Akiko Houki, Yu Isobe, and Tadashi Oishi (2007) Changes in periphyton abundance and community structure with the dispersal of a caddisfly grazer, Micrasema quadriloba. Limnology 8:219-226. DOI:10.1007/s10201-007-0211-7 LINK

*Awarded the Yoshimura Award of Japanese Society of Limnology

 

20) Hideyuki Doi, Yasuhiro Takemon, Taichi Ohta, Yuko Ishida and Eisuke Kikuchi (2007) Effects of reach scale canopy cover on trophic pathways of caddisfly larvae in a Japanese mountain stream. Marine and Freshwater Research 58:811–817. DOI:10.1071/MF07067 LINK 

*Featured as back-cover photo of the issue

 

19) Hideyuki Doi (2007) Winter flowering phenology of Japanese apricot Prunus mume reflects climate change across Japan. Climate Research 34:99-104. DOI: 10.3354/cr03409 LINK

*Featured by BBC Earth

 

18) Hideyuki Doi, Atsushi Takagi, and Eisuke Kikuchi (2007) Stream macroinvertebrate community affected by point-source metal pollution. International Review of Hydrobiology 92:258-266. DOI:10.1002/iroh.200610923 LINK

 

17) Hideyuki Doi, Eisuke Kikuchi, Shigeto Takagi, and Shuichi Shikano (2007) Changes in carbon and nitrogen stable isotopes of chironomid larvae during growth, starvation and metamorphosis. Rapid Communications in Mass Spectrometry 21:997-1002. DOI:10.1002/rcm.2925 LINK

 

 

16) Hideyuki Doi, Atsushi Takagi, Chitoshi Mizota, Jun-ichi Okano, Shin-ichi Nakano and Eisuke Kikuchi (2006) Contribution of chemoautotrophic productions to freshwater macroinvertebrates in a headwater stream using multiple stable isotopes. International Review of Hydrobiology 91:501-508. DOI: 10.1002/iroh.200610898 LINK

 

15) Hideyuki Doi, Elena Zuykova, Eisuke Kikuchi, Shuichi Shikano, Keiichi Kanou, Natalia Yurlova, and Elena Yadrenkina (2006) Spatial changes in carbon and nitrogen stable isotope of the plankton food web in a saline lake ecosystem. Hydrobiologia 571:395-400. DOI:10.1007/s10750-006-0205-1 LINK

 

14) Elena I. Zuykova, Hideyuki Doi, Eisuke Kikuchi, Shuichi Shikano, and Natalia Yurlova (2006) The zooplankton of Lake Chany, West Siberia, Russia. Journal of Freshwater Ecology 21:181-182. DOI:10.1080/02705060.2006.9664112  LINK

 

13) Hideyuki Doi, Eisuke Kikuchi, Shigeto Takagi, and Shuichi Shikano (2006) Selective assimilation by deposit feeders: Experimental evidence using stable isotope ratios. Basic and Applied Ecology 7:159-166. DOI:10.1016/j.baae.2005.04.011 LINK

 

12) Hideyuki Doi, Izumi Katano, and Eisuke Kikuchi (2006) The use of algal-mat habitat by aquatic insect grazers: effects of microalgal cue. Basic and Applied Ecology 7:153-158. DOI:10.1016/j.baae.2005.04.009 LINK

 

 

11) Shuichi Shikano, Eisuke Kikuchi, Shigeto Takagi, and Hideyuki Doi (2005) Interannual variations of limnological and ecological characteristics in acidic Lake Katanuma. Korean Journal of Limnology (Special Issue) 38: 435-438. LINK

 

10) Shigeto Takagi, Eisuke Kikuchi, Hideyuki Doi, and Shuichi Shikano (2005)  Swimming behavior of Chironomus acerbiphilus larvae in Lake Katanuma. Hydrobiologia 548:153-165. DOI: 10.1007/s10750-005-5196-9 LINK  

 

9) Hideyuki Doi, Masatoshi Matsumasa, Terumasa Toya, Nobuya Satoh, Chitoshi Mizota, Yonosuke Maki, and Eisuke Kikuchi (2005) Spatial shifts in food sources for macrozoobenthos in an estuarine ecosystem: Carbon and nitrogen stable isotope analyses. Estuarine, Coastal and Shelf Science 64:316-322. DOI:10.1016/j.ecss.2005.02.028 LINK

 

8) Hideyuki Doi, Eisuke Kikuchi, Shigeto Takagi, and Shuichi Shikano (2005) Carbon stable isotope ratios of phytoplankton and benthic diatoms in Lake Katanuma with reference to those of other lakes. Korean Journal of Limnology (Special Issue) 38:8-11. LINK

 

 

7) Hideyuki Doi, Eisuke Kikuchi, Chitoshi Mizota, Nobuya Satoh, Shuichi Shikano, Natalia Yurlova, Elena Zuykova, and Elena Yadrenkina (2004) Carbon, nitrogen, and sulfur isotope changes and hydro-geological processes in a saline lake chain. Hydrobiologia 529:225-235. DOI:10.1007/s10750-004-6418-2 LINK 

 

6) Shuichi Shikano, Eisuke Kikuchi, Shigeto Takagi, and Hideyuki Doi (2004) Volcanic heat flux and short-term holomixis during the summer stratification period in a crater lake. Limnology and Oceanography 49:2287-2292.

DOI:10.4319/lo.2004.49.6.2287 LINK

 

5) Hideyuki Doi, Eisuke Kikuchi, Shuichi Shikano, and Shigeto Takagi (2004) A study of nitrogen stable isotope dynamics of phytoplankton in a simple natural ecosystem. Aquatic Microbial Ecology 36:285-291. DOI:10.3354/ame036285 LINK

 

 

 

4) Hideyuki Doi, Eisuke Kikuchi, Shuji Hino, Takeru Itoh, Shigeto Takagi, and Shuichi Shikano (2003) Seasonal dynamics of carbon stable isotope ratios of particulate organic matter and benthic diatoms in strongly acidic Lake Katanuma. Aquatic Microbial Ecology 33:87-94.  DOI:10.3354/ame033087  LINK

 

3) Hideyuki Doi, Eisuke Kikuchi, Shuji Hino, Takeru Itoh, Shigeto Takagi, and Shuichi Shikano (2003) Isotopic (δ13C) evidence for autochthonous origin of sediment organic matter in small, acidic Lake Katanuma, Japan. Marine and Freshwater Research 54:253-257. DOI:10.1071/MF02035 LINK

 

 

2) Hideyuki Doi, and Eisuke Kikuchi (2002) Analysis of food sources for Chironomus acerbiphilus larvae in strongly acidic Lake Katanuma. Japanese Journal of Limnology 63:160-162. DOI: 10.3739/rikusui.63.155 (in Japanese) LINK

 

 

1) Hideyuki Doi*, Eisuke Kikuchi, and Shuichi Shikano (2001) Carbon and nitrogen stable isotope ratios analysis of food sources for Chironomus acerbiphilus larvae (Diptera Chironomidae) in strongly acidic Lake Katanuma. Radioisotopes  50:601-610. DOI: 10.3769/radioisotopes.50.12_601 LINK

*Awarded Radioisotopes Journal award

 

B7) Hideyuki Doi (2022) Real-time and Digital PCR for environmental DNA methods estimating aquatic organisms' distributions.(in Japanese)

土居秀幸　リアルタイムPCR・デジタルPCRを用いた環境DNAによる 水生生物の生息把握

北條浩彦 編 リアルタイム・デジタルPCR実験スタンダード 

実験の原理から検出・定量・診断まで、現場で生きる完全マニュアル

羊土社　2022年 LINK

 

B6) Hideyuki Doi and Michio Kondoh (eds.) (2021) Environmental DNA: Revealing the Nature of Ecosystem, Kyoritsu Press (in Japanese)

土居秀幸・近藤倫生　編　（一般社団法人環境DNA学会 企画）環境DNA：生態系の真の姿を読み解く

共立出版　2021年　LINK

 

B5) Hideyuki Doi,Naoto F. Ishikawa and Tamihisa Ohta (2019) Stable isotope analysis

Field and analytical methods in stream ecology,  Koudansya (in Japanese)

土居秀幸・石川尚人・太田民久 「安定同位体分析」

加賀谷隆・土居秀幸　「外来性有機物」

井上 幹生・中村 太士 編 河川生態系の調査・分析方法

講談社  2019年　LINK

 

B4) Hideyuki Doi, Izumi Katano and Kouji Tojo (2018) Environmental DNA analysis for aquatic Hemiptera

Biology of aquatic Hemiptera ,  Hokuryukan  (in Japanese)

土居秀幸・片野泉・東城幸治 「水生半翅類調査への環境DNAの適用」

大庭伸也 編 環境Eco選書(13)「水生半翅類の生物学」

北隆館　2018年　LINK

 

B3) Hideyuki Doi, Fujio Hyodo and Naoto Ishikawa (2016) Analysis of Diets and Food Webs Using Stable Isotopes. Handbook of Methods in Ecological Research 6,  Kyoritsu Press   (in Japanese)

土居秀幸・兵藤不二夫・石川尚人「安定同位体を用いた餌資源・食物網調査法」

占部城太郎・日浦勉・辻和希　編　生態学フィールド調査法シリーズ　第６巻　

共立出版 2016年 LINK

 

B2) Hideyuki Doi, and Izumi Katano (2012) Chapter 6, Ecology Series 9,  Kyoritsu Press (in Japanese)

土居秀幸・片野泉　第6章「河川生態系の被食ー捕食関係と食物網」

シリーズ現代の生態学　第９巻 「淡水生態学のフロンティア」　吉田丈人・鏡味麻衣子・加藤元海 編　

共立出版 2012年 LINK

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B1) Hideyuki Doi (2008) Chapter 2, Community Ecology Series 4,  Kyoto University Press (in Japanese)

土居秀幸　第２章「生物群集が支える湖沼生態系の物質循環」

シリーズ群集生態学４ 「生態系と群集をむすぶ」　大串隆之・近藤倫生・仲岡雅裕 編

京都大学学術出版会 2008年 LINK