辻 寛之

原著論文（査読付き）

  • Takai, T., Taniguchi, Y., Takahashi, M., Nagasaki, H., Yamamoto, E., Hirose, S., Hara, N., Akashi, H., Ito, J., Arai-Sanoh, Y., Hori, K., Fukuoka, S., Sakai, H., Tokida, T., Usui, Y., Nakamura, H., Kawamura, K., Asai, H., Ishizaki, T., Maruyama, K., Mochida, K., Kobayashi, N., Kondo, M., Tsuji, H., Tsujimoto, Y., Hasegawa, T., Uga, Y. (2023). MORE PANICLES 3, a natural allele of OsTB1/FC1, impacts rice yield in paddy fields at elevated CO2 levels. Plant J. https://doi.org/10.1111/tpj.16143
  • Taoka, K., Kawahara, I., Shinya, S., Harada, K.-i., Yamashita, E., Shimatani, Z., Furuita, K., Muranaka, T., Oyama, T., Terada, R., Nakagawa, A., Fujiwara, T., *Tsuji, H., *Kojima, C. (2022) Multifunctional chemical inhibitors of the florigen activation complex discovered by structure-based high-throughput screening. Plant J. 112, 1337-1349 *Corresponding authors
  • Harada, Ki., Furuita, K., Yamashita, E. Taoka, K., Tsuji, H., Fujiwara T., Nakagawa, A., Kojima, C. (2022) Crystal structure of potato 14-3-3 protein St14f revealed the importance of helix I in StFDL1 recognition. Sci. Rep. 12, 11596
  • Kawai, T., Akahoshi, R., Shelley, I.J., Kojima, T., Sato, M., Tsuji, H., Inukai, Y. (2022) Auxin Distribution in Lateral Root Primordium Development Affects the Size and Lateral Root Diameter of Rice. Front. Plant Sci. 13. 834378.
  • Sakamoto, Y., Ishimoto, A., Sakai, Y., Sato, M., Nishihama, R., Abe, K., Sano, Y., Furuichi, T., Tsuji, H., Kohchi, T., Matsunaga, S. (2022) Improved clearing method contributes to deep imaging of plant organs. Commun. Biol. 5. 22.
  • Sato, M., Akashi, H., Sakamoto, Y., Matsunaga, S., Tsuji, H. (2022) Whole-Tissue Three-Dimensional Imaging of Rice at Single-Cell Resolution. Int. J. Mol. Sci. 23, 40.
  • Yoshida, A., Taoka, K.-I., Hosaka, A., Tanaka, K., Kobayashi, H., Muranaka, T., Toyooka, K., Oyama, T., Tsuji, H. (2021) Characterization of Frond and Flower Development and Identification of FT and FD Genes From Duckweed Lemna aequinoctialis Nd. Front. Plant Sci. 12: 2088.
  • Rattanawong, K., Koiso, N., Toda, E., Kinoshita, A., Tanaka, M., Tsuji, H., Okamoto, T. (2021) Regulatory functions of ROS dynamics via glutathione metabolism and glutathione peroxidase activity in developing rice zygote. Plant J. 108,1097–1115.
  • Taoka, K., Tsuji, H., Anzawa, S., Enomoto, M., Koizumi, Y., Nakamura, J., Tanaka, M., Fujita, A., Furuita, K., Kodama, T.S., Fujimoto, M., Kurokawa, K., Okamoto, T., Fujiwara T., Nakano, A., Kojima, C. (2021) Liquid-liquid phase separation of florigen activation complex induces flowering bioRxiv https://doi.org/10.1101/2021.08.19.456992
  • Behnam B, Higo A, Yamaguchi K, Tokunaga H, Utsumi, Y, Selvaraj MG, Seki M, Ishitani M, Becerra Lopez-Lavalle LA, Tsuji H. (2021) Field‐transcriptome analyses reveal developmental transitions during flowering in cassava (Manihot esculenta Crantz). Plant Mol. Biol. 106: 285-296.
  • Taoka K, Shimatani Z, Yamaguchi K, Ogawa M, Saitoh H, Ikeda Y, Akashi H, Terada R, Kawasaki T, Tsuji H. (2021) Novel assays to monitor gene expression and protein-protein interactions in rice using the bioluminescent protein, NanoLuc. Plant Biotechnol. 38: 89-99.
  • Hasegawa T, Lucob-Agustin N, Yasufuku K, Kojima T, Nishiuchi S, Ogawa A, Takahashi-Nosaka M, Kano-Nakata M, Inari-Ikeda M, Sato M, Tsuji H, Wainaina CM, Yamauchi A, Inukai Y. (2021) Mutation of OUR1/OsbZIP1, which encodes a member of the basic leucine zipper transcription factor family, promotes root development in rice through repressing auxin signaling. Plant Sci. 306: 110861.
  • Higo A, Saihara N, Miura F, Higashi Y, Yamada M, Tamaki S, Ito T, Tarutani Y, Sakamoto T, Fujiwara M, Kurata T, Fukao Y, Moritoh S, Terada S, Kinoshita T, Ito T, Kakutani T, Shimamoto K, Tsuji H. (2020) DNA methylation is reconfigured at the onset of reproduction in rice shoot apical meristem. Nat. Commun. 11: 4079.
  • Walkowiak S, Gao L, Monat C, Haberer G, Kassa MT, Brinton J, Ramirez-Gonzalez RH, Kolodziej MC, Delorean E, Thambugala D, Klymiuk V, Byrns B, Gundlach H, Bandi V, Siri N, Nilsen K, Aquino C, Himmelbach A, Copetti D, Ban T, Venturini L, Bevan M, Clavijo B, Koo DH, Ens J, Wiebe K, N’Daiye A, Fritz AK, Gutwin C, Fiebig A, Fosker C, Fu BX, Accinelli GG, Gardner KA, Fradgley N, Gutierrez-Gonzalez J, Halstead-Nussloch G, Hatakeyama M, Koh CS, Deek J, Costamagna AC, Fobert P, Heavens D, Kanamori K, Kawaura K, Kobayashi F, Krasileva K, Kuo T, McKenzie N, Murata K, Nabeka Y, Paape T, Padmarasu S, Percival-Alwyn L, Kagale S, Scholz W, Sese J, Juliana P, Singh R, Shimizu-Inatsugi R, Swarbreck D, Cockram J, Budak H, Tameshige T, Tanaka T, Tsuji H, Wright J, Wu J, Steuernagel B, Small I, Cloutier S, Keeble- Gagnere G, Muehlbauer G, Tibbets J, Nasuda S, Melonek J, Hucl PJ, Sharpe A, Clark M, Legg E, Bharti A, Langridge P, Hall A, Uauy C, Mascher M, Krattinger SG, Handa H, Shimizu KK, Distelfeld A, Chalmers K, Keller B, Mayer KFX, Poland J, Stein N, McCartney CA, Spannagl M, Wicker T, Pozniak CJ. (2020) Multiple wheat genomes reveal global variation in modern breeding. Nature 588: 277-283.
  • Shimizu KK, Copetti D, Okada M, Wicker T, Tameshige T, Hatakeyama M, Shimizu-Inatsugi R, Aquino C, Nishimura K, Kobayashi F, Murata K, Kuo T, Delorean E, Poland J, Haberer G, Spannagl M, Mayer KFX, Gutierrez-Gonzalez J, Muehlbauer GJ, Monat C, Himmelbach A, Padmarasu S, Mascher M, Walkowiak S, Nakazaki T, Ban T, Kawaura K, Tsuji H, Pozniak C, Stein N, Sese J, Nasuda S, Handa H. (2020) De novo genome assembly of the Japanese wheat cultivar Norin 61 highlights functional variation in flowering time and Fusarium-resistance genes in East Asian genotypes. Plant Cell Physiol. 62: 8-27.
  • Nagai K, Mori Y, Ishikawa S, Furuta T, Gamuyao R, Niimi Y, Hobo T, Fukuda M, Kojima M, Takebayashi Y, Fukushima A, Himuro Y, Kobayashi M, Ackley W, Hisano H, Sato K, Yoshida A, Wu J, Sakakibara H, Sato Y, Tsuji H, Akagi T, Ashikari M. (2020) Antagonistic regulation of the gibberellic acid response during stem growth in rice. Nature 584: 109-114.
  • Tokunaga H, Quynh D.T.N, Anh N.H, Nhan P.T, Matsui A,Takahashi S, Tanaka M, Anh N.M, Van D.G, Ham L.H, Higo A, Hoa T.M, Ishitani M, Minh N.B.N, Hy N.H, Srean P, Thu V.A, Tung N.B, Vu N.A, Yamaguchi K, Tsuji H, Utsumi Y, Seki M. (2020) Field transcriptome analysis reveals a molecular mechanism for cassava-flowering in a mountainous environment in Southeast Asia. Plant Mol. Biol.
    doi:10.1007/s11103-020-01057-0.
  • Hirayama T, Saisho D, Matsuura T, Okada S, Takahagi K, Kanatani A, Ito J, Tsuji H, Ikeda Y, Mochida K. (2020) Life-course monitoring of endogenous phytohormone levels under field conditions reveals diversity of physiological states among barley accessions. Plant Cell Physiol. 61: 1438-1448.
  • Toda Y, Okura F, Ito J, Okada S, Kinoshita T, Tsuji H, Saisho D. (2020) Training instance segmentation neural network with synthetic datasets for crop seed phenotyping. Commun. Biol. 3: 173.
  • Lucob-Agustina N, Kawai T, Takahashi-Nosaka M, Kano-Nakata M, Wainaina CM, Hasegawa T, Inari-Ikeda M, Sato M, Tsuji H, Yamauchi A, Inukai Y. (2020) WEG1, which encodes a cell wall hydroxyproline-rich glycoprotein, is essential for parental root elongation controlling lateral root formation in rice. Physiol Plant. 169: 214-227.
  • Aoki S, Toh S, Nakamichi N, Hayashi Y, Wang Y, Suzuki T, Tsuji H, Kinoshita T. (2019) Regulation of stomatal opening and histone modification by photoperiod in Arabidopsis thaliana. Sci. Rep. 9: 10054.
  • Behnam B, Bohorquez‐Chaux　A, Castaneda‐Mendez OF, Tsuji H, Ishitani H, Lopez‐Lavalle LAB. (2019) An optimized isolation protocol yields high‐quality RNA from cassava tissues (Manihot esculenta Crantz). FEBS Open Bio. 9: 814-825.
  • Kaneko-Suzuki M, Ishikawa　R, Terakawa C, Kojima C, Fujiwara M, Ohki I, Tsuji H, Shimamoto K, Taoka K. (2018) TFL1-like proteins in rice antagonize rice FT-like protein in inflorescence development by competition for complex formation with 14-3-3 and FD. Plant Cell Physiol. 59: 458-468.
  • Purwestri YA, Susanto FA, Tsuji H. (2017) Hd3a florigen recruits different proteins to reveal its function in plant growth and development. Plant Engineering 49-67.
  • Tsuji H. (2017) Molecular function of florigen. Breed. Sci. 67: 327-332.
  • Saihara N, Tsuji H. (2017) Imaging florigen distribution in vivo. Plant Morphol. 29: 27-31.
  • Tamaki S, Tsuji H, Matsumoto A, Fujita A, Shimatani Z, Terada R, Sakamoto T, Kurata T, Shimamoto K. (2015) FT-like proteins induce transposon silencing in the shoot apex during floral induction in rice. Proc. Natl. Acad. Sci. USA. 112: E901-911.
  • Tylewicz, S, Tsuji H, Miskoloczi P, Petterle A, Azeez A, Jonsson K, Shimamoto K, Bhalerao RP. (2015) Dual role of tree florigen activation complex component FD in photoperiodic growth control and adaptive response pathways. Proc. Natl. Acad. Sci. USA. 112: 3140-3145.
  • Tsuji H, Tachibana C, Tamaki S, Taoka K, Kyozuka J, Shimamoto K. (2015) Hd3a promotes lateral branching in rice. Plant J. 82: 256-266.
  • Ishida T, Tabata R, Yamada M, Aida M, Mitsumasu K, Fujiwara M, Yamaguchi K, Shigenobu S, Higuchi M, Tsuji H, Shimamoto K, Hasebe M, Fukuda H, Sawa S. (2015) Heterotrimeric G proteins control stem cell proliferation through CLAVATA signaling in Arabidopsis. EMBO Rep. 17: 1236-1236.
  • Fujikawa Y, Nakanishi T, Kawakami H, Yamasaki K, Sato HM, Tsuji H, Matsuoka M, Kato N. (2014) Split luciferase complementation assay to detect regulated protein-protein interactions in rice protoplasts in a large-scale format. Rice 7:11.
  • Tsuji H, Nakamura H, Taoka K, Shimamoto K. (2013) Functional diversification of FD transcription factors in rice, components of florigen activation complexes. Plant Cell Physiol. 54: 385-397.
  • Taoka K, Ohki I, Tsuji H, Furuita K, Hayashi K, Yanase T, Yamaguchi M, Nakashima C, Purwestri YA, Tamaki S, Ogaki Y, Shimada C, Nakagawa A, Kojima C, Shimamoto K. (2011) 14-3-3 proteins act as intracellular receptors for rice Hd3a florigen. Nature 476: 332-335.
  • Hirano K, Asano K, Tsuji H, Kawamura M, Mori M, Kitano H, Ueguchi-Tanaka M, Matsuoka M. (2010) Characterization of the molecular mechanism underlying gibberellin perception complex formation in rice. Plant Cell 22: 2680-2696.

総説・解説等

  • Tsuji H, Taoka K. (2014) Florigen signaling. The Enzymes 35: 113-144.
  • Tsuji H, Taoka K, Shimamoto K. (2013) Florigen in rice: complex gene network for florigen transcription, florigen activation complex, and multiple functions. Curr. Opin. Plant Biol. 15: 228-235.
  • Taoka K, Ohki I, Tsuji H, Kojima C, Shimamoto K. (2013) Structure and function of florigen and the receptor complex. Trends Plant Sci. 18: 287-294.
  • Tsuji H, Taoka K, Shimamoto K. (2011) Regulation of flowering in rice: two florigen genes, a complex gene network, and natural variation. Curr. Opin. Plant Biol. 14: 45-52.
  • 辻寛之 (2021) 花成ホルモン・フロリゲンの分子機能. アグリバイオ 5: 457-460.
  • 辻寛之 (2019) 花成ホルモン・フロリゲンが花芽をつくるメカニズム. アグリバイオ 3: 72-74.
  • 辻寛之 (2017) 現代農業に革命の予感!花を咲かせるフロリゲンとは? 化学 72: 41-48.
  • 辻寛之, 田岡健一郎 (2016) フロリゲン受容体の発見とその後. 化学と生物 54: 358-364
  • 辻寛之 (2014)フロリゲン複合体のイメージング. 植物の生長調節 49: 112-121.
  • 辻寛之, 田岡健一郎, 島本 功 (2013)花成ホルモン“フロリゲン”の構造と機能. 領域融合レビュー2: e004.
  • 辻寛之, 田岡健一郎, 島本功 (2012) 花咲かホルモン(フロリゲン). 植調 46: 179-186.
  • 田岡健一郎, 大木出, 辻寛之, 児嶋長次郎, 島本功 (2012) 花成ホルモンフロリゲンとその受容体の構造解析からみえてきたフロリゲン機能の分子基盤. 化学と生物 50: 654-659.
  • 田岡健一郎, 大木出, 辻寛之, 児嶋長次郎, 島本功 (2011) 14-3-3タンパク質はフロリゲンの細胞内受容体としてはたらく. ライフサイエンス新着論文レビュー

著書

  • 辻寛之 (2014)「花芽形成とフロリゲン」高校生物解説書・植物編 (監修 町田泰則・岡田 清孝・山本興太郎) p60-63 講談社.
  • 辻寛之, 島本 功 (2012)「フロリゲンが花を咲かせるメカニズム」農業技術大系 花卉編 32: 2-9. 農文協.

山内 卓樹

原著論文（査読付き）

  • Li J., Nakazono M., Yamauchi T. (2025) Candidates for regulating cytosolic Ca2+ influx during inducible aerenchyma formation under low-oxygen conditions. Plant Cell Reports, in press.
  • Yamauchi T., Li J., Sumi K. (2025) A rapid staining method for the detection of suberin lamellae in the root endodermis and exodermis. Plant Biotechnology, in press.
  • Wang F., Tanoi K., Yamauchi T., Naito K. (2025) Multi-layered apoplastic barrier underlying the ability of Na+ exclusion in Vigna marina. Plant & Cell Physiology, pcaf005.
  • Li J., Ishii T., Yoshioka M., Hino Y., Nomoto M., Tada Y., Yoshioka H., Takahashi H., Yamauchi T., Nakazono M. (2025) CDPK5 and CDPK13 play key roles in acclimation to low oxygen through the control of RBOH-mediated ROS production in rice. Plant Physiology, 197(1), kiae293.
  • Yamauchi T., Tanaka A., Nakazono M., Inukai Y. (2024) Age-dependent analysis dissects the stepwise control of auxin-mediated lateral root development in rice. Plant Physiology, 194(2). 819—831.
  • Yamauchi T., Sumi K., Morishita H., Nomura Y. (2024) Root anatomical plasticity contributes to the different adaptive responses of two Phragmites species to water-deficit and low-oxygen conditions. Functional Plant Biology, 51. FP23231.
  • Nomura Y., Arima S., Kyogoku D., Yamauchi T., Tominaga T. (2024) Strong plastic responses in aerenchyma formation in F1 hybrids of Imperata cylindrica under different soil moisture conditions. Plant Biology, 26(3). 446—456.
  • Ning J., Yamauchi T., Takahashi H., Omori F., Mano Y., Nakazono M. (2023) Asymmetric auxin distribution establishes a contrasting pattern of aerenchyma formation in the nodal roots of Zea nicaraguensis during gravistimulation. Frontiers in Plant Science, 14. 1133009.
  • Yamauchi T., Nakazono M. (2022) Modeling-based age-dependent analysis reveals the net patterns of ethylene-dependent and -independent aerenchyma formation in rice and maize roots. Plant Science, 321. 111340.
  • Yamauchi T., Pedersen, O., Nakazono M., Tsutsumi N. (2021) Key root traits of Poaceae respond to gradients in soil water. New Phytologist.229(6). 3133—3140.
  • Arimura S., Ayabe H., Sugaya H., Okuno M., Tamura Y., Tsuruta Y., Watari Y., Yanase, S, Yamauchi T., Itoh T., Toyoda, A., Takanashi H., Tsutsumi N. (2020) Targeted gene disruption of ATP synthases 6-1 and 6-2 in the mitochondrial genome of Arabidopsis thaliana by mitoTALENs. The Plant Journal. 104(6). 1459—1471.
  • Yamauchi T., Tanaka A., Tsutsumi N., Inukai Y., Nakazono M. (2020) Distance-to-time conversion by using the Gompertz model reveals the age-dependent aerenchyma formation in rice roots. Plant Physiology.183(4). 1424—1427.
  •  Yamauchi T., Tanaka, A., Tsutsumi N., Inukai Y., Nakazono M. (2020) A role for auxin in ethylene-dependent inducible aerenchyma formation in rice roots. Plants.9(5). 610.
  • Yamauchi T., Tanaka A, Inahashi H, Nishizawa NK, Tsutsumi N, Inukai Y, Nakazono M. (2019) Fine control of aerenchyma and lateral root development through AUX/IAA- and ARF-dependent auxin signaling. Proceedings of the National Academy of Sciences of the USA, 116: 20770−20775.
  • Yamauchi T., Abe F, Tsutsumi N, Nakazono M. (2019) Root cortex provides a venue for gas-space formation and is essential for plant adaptation to waterlogging. Frontiers in Plant Science, 10: 259.
  • Inahashi H, Shelly IJ, Yamauchi T., Nishiuchi S, Takahashi-Nosaka M, Matsunami M, Ogawa A, Noda Y, Inukai Y. (2018) OsPIN2, which encodes a member of the auxin efflux carrier proteins, is involved in root elongation growth and lateral root formation patterns via the regulation of auxin distribution in rice. Physiologia Plantarum, 164: 216−225.
  • Yamauchi T., Yoshioka M, Fukazawa A, Mori H, Nishizawa NK, Tsutsumi N, Yoshioka H, Nakazono M. (2017) An NADPH oxidase RBOH functions in rice roots during lysigenous aerenchyma formation under oxygen-deficient conditions. The Plant Cell, 29: 775−790.
  • Yamauchi T., Fukazawa A, Nakazono M. (2017) METALLOTHIONEIN genes encoding ROS scavenging enzymes are down-regulated in the root cortex during inducible aerenchyma formation in rice. Plant Signaling &qmp; Behavior, 12: e1388976.
  • Yamauchi T., Tanaka A, Mori H, Takamure I, Kato K, Nakazono M. (2016) Ethylene-dependent aerenchyma formation in adventitious roots is regulated differently in rice and maize. Plant, Cell & Environment, 39: 2145−2157.
  • Yamauchi T., Shiono K, Nagano M, Fukazawa A, Ando M, Takamure I, Mori H, Nishizawa NK, Kawai-Yamada M, Tsutsumi N, Kato K, Nakazono M. (2015) Ethylene biosynthesis is promoted by very-long-chain fatty acids during lysigenous aerenchyma formation in rice roots. Plant Physiology, 169: 180−193.
  • Takahashi H, Yamauchi T., Rajhi I, Nishizawa NK, Nakazono M. (2015) Transcript profiles in cortical cells of maize primary root during ethylene-induced lysigenous aerenchyma formation under aerobic conditions. Annals of Botany, 115: 879−894.
  • Takano S, Matsuda S, Funabiki A, Furukawa J, Yamauchi T., Tokuji Y, Nakazono M, Shinohara Y, Takamure I, Kato K. (2015) The rice RCN11 gene encodes β1,2-xylosyltransferase and is required for plant responses to abiotic stresses and phytohormones. Plant Science. 236: 75−88.
  • Cartagena JA, Seki M, Tanaka M, Yamauchi T., Sato S, Hirakawa H, Tsuge T. (2015) Gene expression profiles in Jatropha under drought stress and during recovery. Plant Molecular Biology Reporter, 33: 1075−1087.
  • Kulichikhin K, Yamauchi T., Watanabe K, Nakazono M. (2014) Biochemical and molecular characterization of rice (Oryza sativa L.) roots forming a barrier to radial oxygen loss. Plant, Cell & Environment, 37: 2406−2420.
  • Shiono K, Yamauchi T., Yamazaki S, Mohanty B, Malik AI, Nagamura Y, Nishizawa NK, Tsutsumi N, Colmer TD, Nakazono M. (2014) Microarray analysis of laser-microdissected tissues indicates the biosynthesis of suberin in the outer part of roots during formation of a barrier to radial oxygen loss in rice (Oryza sativa). Journal of Experimental Botany, 65: 4795−4806.
  • Yamauchi T., Abe F, Kawaguchi K, Oyanagi A, Nakazono M. (2014) Adventitious roots of wheat seedlings that emerge in oxygen-deficient conditions have increased root diameters with highly developed lysigenous aerenchyma. Plant Signaling & Behavior, 9: e28506.
  • Yamauchi T., Johzuka-Hisatomi Y, Terada R, Nakamura I, Iida S. (2014) The MET1b gene encoding a maintenance DNA methyltransferase is indispensable for normal development in rice. Plant Molecular Biology, 85: 219−232.
  • Hu Z, Yamauchi T., Yang J, Jikumaru Y, Tsuchida-Mayama T, Ichikawa H, Takamure I, Nagamura Y, Tsutsumi N, Yamaguchi S, Kyozuka J, Nakazono M. (2014) Strigolactone and cytokinin act antagonistically in regulating rice mesocotyl elongation in darkness. Plant and Cell Physiology, 55: 30−41.
  • Yamauchi T., Watanabe K, Fukazawa A, Mori H, Abe F, Kawaguchi K, Oyanagi A, Nakazono M. (2014) Ethylene and reactive oxygen species are involved in root aerenchyma formation and adaptation of wheat seedlings to oxygen-deficient conditions. Journal of Experimental Botany, 65: 261−273.
  • Abiko T, Obara M, Abe F, Kawaguchi K, Oyanagi A, Yamauchi T., Nakazono M. (2012) Screening of candidate genes associated with constitutive aerenchyma formation in adventitious roots of the teosinte Zea nicaraguensis. Plant Root, 6: 19−27.
  • Rajhi I, Yamauchi T., Takahashi H, Nishiuchi S, Shiono K, Watanabe R, Mliki A, Nagamura Y, Tsutsumi N, Nishizawa NK, Nakazono M. (2011) Identification of genes expressed in maize root cortical cells during lysigenous aerenchyma formation using laser microdissection and microarray analyses. New Phytologist, 190: 351−368.
  • Yamauchi T., Johzuka-Hisatomi Y, Fukada-Tanaka S, Terada R, Nakamura I, Iida S. (2009) Homologous recombination-mediated knock-in targeting of the MET1a gene for a maintenance DNA methyltransferase reproducibly reveals dosage-dependent spatiotemporal gene expression in rice. The Plant Journal, 60: 386−396.

総説・解説等

  • 山内卓樹. (2024) 植物の成長と環境適応を支える根の解剖学的形質の理解に向けて. 作物研究 69, 21−25.
  • 山内卓樹. (2024) トウモロコシの乾燥ストレス耐性の総合的な評価系の確立. メイワフォーシス株式会社, LIC・STV ホワイトペーパー 9.
  • Tanaka W., Yamauchi T., Tsuda K. (2023) Genetic basis controlling rice plant architecture and its modification for breeding. Breeding Science, 73(1). 3—45.
  • Yamauchi T., Nakazono M. (2022) Mechanisms of lysigenous aerenchyma formation under abiotic stress. Trends in Plant Science. 27(1). 13—15.
  • 宮下智貴, 江尻真斗, 島村聡, 山内卓樹, 塩野克宏. (2022) 植物組織の空隙率測定方法―2. アルキメデス法―. 根の研究. 30(2). 41-45.
  • 野村康之, 塩野克宏, 島村聡, 山内卓樹. (2022) 植物組織の空隙率測定方法―3. 切片法―. 根の研究. 30(3). 76-82.
  • 島村聡, 宮下智貴, 江尻真斗, 塩野克宏, 野村康之, 山内卓樹 (2022) 植物組織の空隙率測定方法―4. 各測定方法の特徴と選択―. 根の研究. 30(4). 124-128.
  • Yamauchi T., Noshita K, Tsutsumi N. (2021) Climate-smart crops: key root anatomical traits that confer flooding tolerance. Breeding Science, 71(1). 51—61.
  • 島村聡, 塩野克宏, 山内卓樹. (2021) 植物組織の空隙率測定方法―1.比重瓶法―. 根の研究. 30(1). 8-12.
  • Yamauchi T., Colmer TD, Pedersen O, Nakazono M. (2018) Regulation of root traits for internal aeration and tolerance to soil waterlogging-flooding stress. Plant Physiology, 176: 1118−1130.
  • 山内卓樹, 星野敦. (2016) 遺伝子のノックアウトとノックダウン. 植物学の百科事典, 日本植物学会編, 丸善出版, 608−609.
  • 山内卓樹, 中園幹生. (2015) イネ科植物の根における過湿環境への形態的な応答・適応機構. 根の研究, 24: 23−35.
  • 山内卓樹, 中園幹生. (2014) イネ科作物の過湿環境への応答を制御する分子機構. 水田転作圃場における湿害対策, 農業および園芸, 養賢堂, 89: 1023−1029.
  • Yamauchi T., Shimamura S, Nakazono M, Mochizuki T. (2013) Aerenchyma formation in crop species: a review. Field Crops Research, 152: 8−16.
  • Nishiuchi S, Yamauchi T., Takahashi H, Kotula L, Nakazono M. (2012) Mechanisms for coping with submergence and waterlogging in rice. Rice, 5: 2.
  • 山内卓樹, 西内俊策, 中園幹生. (2012) 植物の通気組織形成過程におけるメタロチオネインの組織特異的な発現制御. 生化学, 84: 857−862.
  • Yamauchi T., Rajhi I, Nakazono M. (2011) Lysigenous aerenchyma formation in maize root is confined to cortical cells by regulation of genes related to generation and scavenging of reactive oxygen species. Plant Signaling & Behavior, 6: 759−761.
  • 定塚(久富)恵世, 山内卓樹, 飯田滋. (2011) メンデルの法則における不完全優性と植物の遺伝子量効果. 生化学, 83: 638−642.

著書

  • 山内卓樹. (2024) イネ科 －イネ　水稲と陸稲／ムギ／トウモロコシ－. 図解でわかる根のきほん, 誠文堂新光社, 50−57.
  • Yamauchi T. (2024) Regulation of root tissue size and adaptations to hypoxia. In Responses of Plants to Soil Flooding, Springer, 65−76.
  • 山内卓樹. (2020) イネが水田で生育するしくみ―根の解剖学的観点から. イネ大事典, 農文協, 上巻, 442−462.
  • 山内卓樹. (2020) イネが水田で生育するしくみ―根の解剖学的観点から. 農業技術大系・作物編（追録41号）, 農文協, 1巻, 246: 147-2−147-22.
  • 山内卓樹. (2016) イネの過湿土壌への適応に貢献する根の解剖学的特徴. 最新農業技術 作物, 農文協, 9巻, 225−240.
  • 山内卓樹. (2016) イネの過湿土壌への適応に貢献する根の解剖学的特徴. 農業技術大系・作物編（追録38号）, 農文協, 1巻, 147-2−147-17.
  • Yamauchi T., Iida S. (2015) Gene targeting in crop species with effective selection systems. In Advances in New Technology for Targeted Modification of Plant Genomes, Springer, 91−111.
  • Takahashi H, Yamauchi T., Colmer TD, Nakazono M. (2014) Aerenchyma formation in plants. In Low-oxygen stress in plants: Oxygen sensing and adaptive responses to hypoxia, Springer, 247−265.

佐塚 隆志

原著論文（査読付き）

  • Elkasaby T, Hanh DD, Kahar P, Kawaguchi H, Sazuka T, Kondo A, Ogino C. (2024) Utilization of sweet sorghum juice as a carbon source for enhancement of itaconic acid production in engineered Corynebacterium glutamicum. Enzyme Microb Tech. 172: 110345. Doi: 10.1016/j.enzmictec.2023.110345
  • Kawaguchi H, Masuo, S. Wakai, K. Takaya, N. Hasunuma, T. Kaneko, T. Okada, S. Sazuka, T. Ogino, C. Kondo A.（2023） Metabolic engineering for 4-aminophenylalanine production from lignocellulosic biomass by recombinant Escherichia coli. RSC Sustainability. 1(4): 1043-1054. DOI: 10.1039/d3su00053b
  • Hashimoto S, Okada S, Araki-Nakamura S, Ohmae-Shinohara K, Miura K, Kawaguchi H, Ogino C, Kasuga S, Sazuka T. (2023) An analysis of sugary endosperm in sorghum: Characterization of mutant phenotypes depending on alleles of the corresponding starch debranching enzyme. Front Plant Sci. 14: 1114935.
  • Kawaguchi H, Hasunuma T, Ohnishi Y, Sazuka T, Kondo A, Ogino C (2021) Enhanced production of γ-amino acid 3-amino-4-hydroxybenzoic acid by recombinant Corynebacterium glutamicum under oxygen limitation, Microb. Cell Factories, 20: 228.
  • Hashimoto S., Wake T, Nakamura H., Minamiyama M., Araki-Nakamura S., Ohmae-Shinohara K., Koketsu E., Okamura S., Miura K., Kawaguchi H., Kasuga S., Sazuka T. (2021) The dominance model for heterosis explains culm length genetics in a hybrid sorghum variety. Sci Rep 11, 4532.
  • Kawaguchi H., Sazuka T., Kondo A. (2020) Complete and Draft Genome Sequences of Amino Acid-Producing Corynebacterium glutamicum Strains ATCC 21799 and ATCC 31831 and Their Genomic Islands. Microbiol Resour Announc. 9 (32):　e00430-20. Aug 6. doi:10.1128/MRA.00430-20.
  • Fujimoto M, Sazuka T, Oda Y, Kawahigashi H, Wu J, Takanashi H, Ohnishi T, Yoneda JI, Ishimori M, Kajiya-Kanegae H, Hibara KI, Ishizuna F, Ebine K, Ueda T, Tokunaga T, Iwata H, Matsumoto T, Kasuga S, Yonemaru, JI, Tsutsumi N. (2018) Transcriptional switch for programmed cell death in pith parenchyma of sorghum stems. Proc Natl Acad Sci USA. 115: E8783-E8792.
  • Wijaya H, Sasaki K, Kahar P, Yopi Y, Kawaguchi H, Sazuka T, Ogino C, Prasetya B, Kondo A. (2018) Repeated ethanol fermentation from membrane-concentrated sweet sorghum juice using the flocculating yeast Saccharomyces cerevisiae F118 strain. Bioresour Technol. 265: 542-547.
  • Teramura H, Sasaki K, Oshima T, Kawaguchi H, Ogino C, Sazuka T, Kondo A. (2018) Effective usage of sorghum bagasse: optimization of organosolv pretreatment using 25% v/v 1-butanol and subsequent nanofiltration membrane separation. Bioresour Technol. 252: 157-164.
  • Teramura H, Sasaki K, Kawaguchi H, Matsuda F, Kikuchi J, Shirai T, Sazuka T, Yamasaki M, Takumi S, Ogino C, Kondo A. (2017) Differences in glucose yield of residues from among varieties of rice, wheat, and sorghum after dilute acid pretreatment. Biosci Biotech Biochem. 81: 1650-1656.
  • Kobayashi M, Ohyanagi H, Takanashi H, Asano S, Kudo T, Kajiya-Kanegae H, Nagano AJ, Tainaka H, Tokunaga T, Sazuka T, Iwata H, Tsutsumi N, Yano K. (2017) Heap: a highly sensitive and accurate SNP detection tool for low-coverage high-throughput sequencing data. DNA Res. 24: 397-405.
  • Sasaki K, Tsuge Y, Kawaguchi H, Yasukawa M, Sasaki D, Sazuka T, Kamio E, Ogino C, Matsuyama H, Kondo A. (2017) Sucrose purification and repeated ethanol production from sugars remaining in sweet sorghum juice subjected to a membrane separation process. App Micbio Biotech. 101: 6007-6014.
  • Hirano K, Masuda R, Takase W, Morinaka Y, Kawamura M, Takeuchi Y, Takagi H, Yaegashi H, Natsume S, Terauchi R, Kotake T, Matsushita Y, Sazuka T. (2017) Screening of rice mutants with improved saccharification efficiency results in the identification of CONSTITUTIVE PHOTOMORPHOGENIC 1 and GOLD HULL AND INTERNODE 1. Planta. 246: 61-74.
  • Hirano K, Kawamura M, Araki-Nakamura S, Fujimoto H, Ohmae-Shinohara K, Yamaguchi M, Fujii A, Sasaki H, Kasuga S, Sazuka T. (2017) Sorghum DW1 positively regulates brassinosteroid signaling by inhibiting the nuclear localization of BRASSINOSTEROID INSENSITIVE 2. Sci Rep. 7: 126.
  • Yamaguchi M, Fujimoto H, Hirano K, Araki-Nakamura S, Ohmae-Shinohara K, Fujii A, Tsunashima M, Song XJ, Ito Y, Nagae R, Wu J, Mizuno H, Yonemaru J, Matsumoto T, Kitano H, Matsuoka M, Kasuga S, Sazuka T. (2016) Sorghum Dw1, an agronomically important gene for lodging resistance, encodes a novel protein involved in cell proliferation. Sci Rep. 6: 28366.
  • Teramura H, Sasaki K, Oshima T, Matsuda F, Okamoto M, Shirai T, Kawaguchi H, Ogino C, Hirano K, Sazuka T, Kitano H, Kikuchi J, Kondo A. (2016) Organosolv pretreatment of sorghum bagasse using a low concentration of hydrophobic solvents such as 1-butanol or 1-pentanol. Biotechnol Biofuels. 9: 27.
  • Tazoe Y, Sazuka T, Yamaguchi M, Saito C, Ikeuchi M, Kanno K, Kojima S, Hirano K, Kitano H, Kasuga S, Endo T, Fukuda H, Makino A. (2016) Growth Properties and Biomass Production in the Hybrid C4 Crop Sorghum bicolor. Plant Cell Physiol. 57: 944-952.
  • Sasaki K, Hara KY, Kawaguchi H, Sazuka T, Ogino C, Kondo A. (2016) Nanofiltration concentration of extracellular glutathione produced by engineered Saccharomyces cerevisiae. J Biosci Bioeng. 121: 96-100.
  • Kawaguchi H, Sasaki K, Uematsu K, Tsuge Y, Teramura H, Okai N, Nakamura-Tsuruta S, Katsuyama Y, Sugai Y, Ohnishi Y, Hirano K, Sazuka T, Ogino C, Kondo A. (2015) 3-Amino-4-hydroxybenzoic acid production from sweet sorghum juice by recombinant Corynebacterium glutamicum. Bioresour Technol. 198: 410-417.
  • Sasaki K, Tsuge Y, Sasaki D, Kawaguchi H, Sazuka T, Ogino C, Kondo A. (2015) Repeated ethanol production from sweet sorghum juice concentrated by membrane separation. Bioresour Technol. 186: 351-355.
  • Kawaguchi H, Teramura H, Uematsu K, Hara KY, Hasunuma T, Hirano K, Sazuka T, Kitano H, Tsuge Y, Kahar P, Niimi-Nakamura S, Oinuma K, Takaya N, Kasuga S, Ogino C, Kondo A. (2015) Phenyllactic acid production by simultaneous saccharification and fermentation of pretreated sorghum bagasse. Bioresour Technol. 182: 169-178.
  • Sasaki K, Tsuge Y, Sasaki D, Teramura H, Wakai S, Kawaguchi H, Sazuka T, Ogino C, Kondo A. (2014) Increased ethanol production from sweet sorghum juice concentrated by a membrane separation process. Bioresour Technol. 169: 821-825.
  • Ordonio RL, Ito Y, Hatakeyama A, Ohmae-Shinohara K, Kasuga S, Tokunaga T, Mizuno H, Kitano H, Matsuoka M, Sazuka T. (2014) Gibberellin deficiency pleiotropically induces culm bending in sorghum: an insight into sorghum semi-dwarf breeding. Sci Rep. 4: 5287.
  • Ueoka-Nakanishi H, Sazuka T, Nakanishi Y, Maeshima M, Mori H, Hisabori T. (2013) Thioredoxin h regulates calcium dependent protein kinases in plasma membranes. FEBS J. 280: 3220-3231.
  • Yamamoto Y, Inukai Y, Kitano H, Sazuka T, Matsuoka M. (2010) Characterization and mapping of the CROWN ROOTLESS2 gene, CRL2, in rice. Rice Gen Newslet. 25: 25-26.
  • Imamura K, Nagato Y, Matsuoka M, Kitano H, Sazuka T. (2010) Mapping and characterization of the rice gene, CLUB-SHAPED EMBRYO3, CLE3. Rice Gen Newslet. 25: 27-29.
  • Sazuka T. Kamiya N, Nishimura T, Ohmae K, Sato Y, Imamura K, Nagato Y, Koshiba T, Nagamura Y, Ashikari M, Kitano H, Matsuoka M. (2009) A rice tryptophan deficient dwarf mutant, tdd1, contains a reduced level of indole acetic acid and develops abnormal flowers and organless embryos. Plant J. 60: 227-241.
  • Sazuka T, Kamiya N, Nishimura T, Ohmae K, Sato Y, Imamura K, Nagato Y, Koshiba T, Nagamura Y, Ashikari M, Kitano H, Matsuoka M. (2009) A rice tryptophan deficient dwarf mutant, tdd1, contains a reduced level of indole acetic acid and develops abnormal flowers and organless embryos. Plant J. 60: 227-241.

総説・解説等

  • 矢野昌裕, 米丸淳一, 佐塚隆志, 小松晃, 木下俊則, 吉川直樹. (2024). DAC 農業の実現にむけた作物改良と評価. 育種学研究, 26(1), 54-60.
  • 佐塚隆志 脱炭素社会構築に貢献する草本バイオマスの可能性. アグリバイオ　(2023) 、北隆館、7; 6、6-7.
  • 橋本舜平、佐塚隆志 ソルガムの雑種強勢メカニズムとバイオマスデザイニング. アグリバイオ　(2023)、北隆館、7; 6、8-12.
  • 橋本舜平、佐塚隆志 脱炭素社会構築への貢献を目標とした新しい作物育種. 作物研究（2022）、近畿作物・育種研究会、67, 89-92.
  • Ordonio RL, Ito, Y. Morinaka Y. Sazuka T, Matsuoka M. (2016) Molecular breeding of Sorghum bicolor: A Novel Energy Crop. Int Rev Cell Mol Biol. 321: 221-257. Elsevier. (review)

著書

  • Kawaguchi H, Sazuka T, Hanh DD. Biorefinery: Microbial Production of Building Blocks from Plant Resources for the Synthesis of Bioplastics. Photo-switched Biodegradation of Bioplastics in Marine Environments. (2023) Tatsuo Kaneko ed., Springer Nature Singapore Pte Ltd., pp. 19-30.
  • 佐塚隆志 (2019) 作物育種で持続可能社会を創り出す. 農業および園芸、養賢堂、95、pp14-18.
  • Saito C, Kobae Y, Sazuka T. (2014) Chloroplast and mitochondria in Sorghum bundle sheath cells. Atlas of Plant Cell Structure. (Noguchi, T, Kawano, S, Tsukaya H. Matsunaga S. Sakai A. Karahara I. Hayashi Y. eds.) p. 64-65. Springer.
  • 佐塚隆志、岩田洋佳 (2014) ゲノムから育種へ: ソルガムのゲノム育種の挑戦. 日本エネルギー学会誌. 93: 429-435.
  • 佐塚隆志 (2014) 高バイオマス性と高糖性を併せ持つバイオリファイナリー用ソルガムの育種開発. バイオインダストリー. 31: 37-44. シーエムシー出版.
  • 佐塚隆志 他 (2009) 植物ゲノム科学事典（駒嶺穆、斉藤和季、田畑哲之、藤村達人、町田泰則、三位正洋編）. 朝倉書店.（項目執筆）

岡田 聡史

原著論文（査読付き）

  • Yoshida H.*, Okada S.*, Wang F.*, Shiota S., Mori M., Kawamura M., Zhao X., Wang Y., Nishigaki N., Kobayashi A., Miura K., Yoshida S., Ikegami M., Ito A., Huang L., Hsing Y., Yamagata Y., Morinaka Y., Yamasaki M., Kotake T., Yamamoto E., Sun J., Hirano K., Matsuoka M. (2023) Integrated genome-wide differentiation and association analyses identify causal genes underlying breeding-selected grain quality traits in japonica rice. Mol. Plant 6, 1460–1477. *: Equally contributed authors.
  • Fekih R., Ishimaru Y., Okada S., Maeda M., Miyagi R., Obana T., Suzuki K., Inamori M., Enoki H., Yamasaki M. (2023) High-density linkage maps from Japanese rice japonica recombinant inbred lines using genotyping by Random Amplicon Sequencing-Direct (GRAS-Di). Plants (Basel, Switzerland) 12(4), 929
  • Hashimoto S., Okada S., Araki-Nakamura S., Ohmae-Shinohara K., Miura K., Kawaguchi H., Ogino C., Kasuga S., Sazuka T. (2023) An analysis of sugary endosperm in sorghum: Characterization of mutant phenotypes depending on alleles of the corresponding starch debranching enzyme.
    Front Plant Sci 14, 1114935.
  • Okada S., Lei G.J, Yamaji N., Huang S., Ma J.F, Mochida K., Hirayama T. (2022) FE UPTAKE-INDUCING PEPTIDE1 maintains Fe translocation by controlling Fe deficiency response genes in the vascular tissue of Arabidopsis. Plant, cell & environment 45(11), 3322-3337
  • Toda Y., Okura F., Ito J., Okada S., Kinoshita T., Tsuji H., Saisho D. (2020) Training instance segmentation neural network with synthetic datasets for crop seed phenotyping. Commun Biol. 3: 173.
  • Hirayama T., Saisho D., Matsuura T., Okada S., Takahagi K., Kanatani A., Ito J., Tsuji H., Ikeda Y., Mochida K. (2020) Life-course monitoring of endogenous phytohormone levels under field conditions reveals diversity of physiological states among barley accessions. Plant Cell Physiol. 61: 1438-1448.
  • Okada S., Iijima K., Hori K., Yamasaki M. (2020) Genetic and epistatic effects for grain quality and yield of three grain-size QTLs identified in brewing rice (Oryza sativa L.). Mol Breed. 40: 88.
  • Okada S., Yamasaki M. (2019) Validation of a quantitative trait locus for the white-core expression rate of grain on chromosome 6 in a brewing rice cultivar and development of DNA markers for marker-assisted selection. Breed Sci. 69: 401-409.
  • Okada S., Sasaki M., Yamasaki M. (2018) A novel rice QTL qOPW11 associated with panicle weight affects panicle and plant architecture. Rice. 11: 53.
  • Okada S., Onogi A., Iijima K., Hori K., Iwata H., Yokoyama W., Suehiro M., Yamasaki M. (2018) Identification of QTLs for rice grain size using a novel set of chromosomal segment substitution lines derived from Yamadanishiki against a Koshihikari genetic background. Breed Sci. 68: 210-218.
  • Okada S., Suehiro M., Ebana K., Hori K., Onogi A., Iwata H., Yamasaki M. (2017) Genetic dissection of grain traits in Yamadanishiki, an excellent sake-brewing rice cultivar. Theor Appl Genet. 130: 2567-2585.
  • 岡田聡史、Arturo Garcia、合田喬、前田道弘、片岡知守、末廣美紀、山崎将紀 (2014) 表現形質評価管理システム「FieldBook」によるイネ出穂期計測の効率化．育種学研究16: 32-36.

芦苅 基行

原著論文（査読付き）

  • Nagai K, Niimi Y, Ohsato M, Ashikari M. (2025) Developmental Dynamics of Intercalary Meristem and Pith Cavity in Rice Stems. Rice, 18.
  • Ha QT, Moe S, Reyes V, Doi K, Miura K, Mizushima M, Maeno A, Tsuda K, Nagai K, Ashikari M. (2024) Detection of QTLs regulating the second internode length in rice dwarf mutant d1. Breeding Science, 74(5).
  • Jiménez JdlC, Noorrohmah S, Suresh K, Zeisler-Diehl VV, Peralta Ogorek LL, Herzog M, Pellegrini E, Nagai K, Ashikari M, Takahashi H, Pedersen O, Schreiber L, Nakazono M. (2024) Leaf Gas Film 1 promotes glycerol ester accumulation and formation of a tight root barrier to radial O2 loss in rice. Plant Physiology, 196(4): 2437-2449.
  • Agata A, Ashikari M, Sato Y, Kitano H, Hobo T. (2023) Designing rice panicle architecture via developmental regulatory genes. Breeding Science, 73(1): 86-94.
  • Kikuta M, Makori Menge D, Waringa Gichuhi E, Tomita R, Kimani JM, Musila RN, Doi K, Ashikari M, Angeles-Shim R, Jena KK, Makihara D. (2023) Contribution of genes related to grain number (Gn1a and WFP) introgressed into NERICA 1 to grain yield under tropical highland conditions in central Kenya. Plant Production Science, 309-319.
  • Furuta T, Yamamoto T, Ashikari M. (2023) GBScleanR: robust genotyping error correction using a hidden Markov model with error pattern recognition. Genetics, 224(2): iyad055.
  • Bessho-Uehara K., Masuda K., Wang DR., Shim R., Obara K., Nagai K., Murase R., Aoki S., Furuta T., Miura K., Wu J., Yamagata Y., Yasui H., Kantar M., Yoshimura A., Kamura T., McCouch SR., Ashikari M. (2023) REGULATOR OF AWN ELONGATION 3 is responsible for loss of awns during African rice domestication. PNAS.
  • Niimi Y., Nagai K., Ashikari M., Mizuta Y. (2022) Deep Fluorescence Observation in Rice Shoots via Clearing Technology. Journal of Visualized Experiments, 184.
  • Reyes V., Shim R., Merlyn M., Manuel M., Lapis R., Shim J., Sunohara H., Nishiuchi S., Kikuta M., Makihara D., Jena K., Ashikari M., Doi K. (2021) Marker-Assisted Introgression and Stacking of Major QTLs Controlling Grain Number (Gn1a) and Number of Primary Branching (WFP) to NERICA Cultivars. Plants, 10(5): 844.
  • Yin Y.G., Mori Y., Suzui N., Kurita K., Yamaguchi M., Miyoshi Y., Nagao Y., Ashikari M., Nagai K., Kawachi N. (2021) Noninvasive imaging of hollow structures and gas movement revealed the gas partial-pressure-gradient-driven long-distance gas movement in the aerenchyma along the leaf blade to submerged organs in rice. New Phytologist, 232(5): 1974.
  • Nagai K., Kurokawa Y., Mori Y., Minami A., Reuscher S, Wu J., Matsumoto T., Ashikari M. (2022) SNORKEL Genes Relating to Flood Tolerance Were Pseudogenized in Normal Cultivated Rice. Plants, 11(3): 376.
  • Bessho-Uehara K., Yamagata Y., Takashi T., Makino T., Yasui H., Yoshimura A., Ashikari M. (2021) Exploring the Loci Responsible for Awn Development in Rice through Comparative Analysis of All AA Genome Species. Plants, 10(4): 725
  • Cheng P., Cao L. J., Bai C., Ashikari M., Song X. J. (2021) Fine mapping and characterization of two novel quantitative trait loci for early seedling growth in rice. Planta volume 253, Article number: 56.
  • Nagai K., Mori Y., Ishikawa S., Furuta T., Gamuyao R., Niimi Y., Hobo T., Fukuda M., Kojima M., Takebayashi Y., Fukushima A., Himuro Y., Kobayashi M., Ackley W., Hisano H., Sato K., Yoshida A., Wu J., Sakakibara H., Sato Y., Tsuji H., Akagi T. and Ashikari M. (2020) Antagonistic regulation of the gibberellic acid response during stem growth in rice. Nature, 584: 109–114.
  • Agata A., Ando K., Ota S., Kojima M., Takebayashi Y., Takehara S., Doi K., Ueguchi-Tanaka M., Suzuki T., Sakakibara H., Matsuoka M., Ashikari M., Inukai Y., Kitano H., Hobo T. (2020) Diverse panicle architecture results from various combinations ofPrl5/GA20ox4 and Pbl6/APO1alleles. COMMUNICATIONS BIOLOGY.
  • Fukushima A., Kuroha T., Nagai K., Hattori Y., Kobayashi M., Nishizawa T., Kojima M., Utsumi Y., Oikawa A., Seki M., Sakakibara H., Saito K., Ashikari M. and Kusano M. (2020) Metabolite and Phytohormone Profiling Illustrates Metabolic Reprogramming as an Escape Strategy of Deepwater Rice during Partially Submerged Stress. Metabolites, 10(2): 68.
  • Yamada S., Kurokawa Y., Nagai K., Shim R., Yasui H., Furuya N., Yoshimura A., Doi K., Ashikari M., Sunohara H. (2020) Evaluation of Backcrossed Pyramiding Lines of the Yield-related Gene and the Bacterial Leaf Blight Resistant Genes. J Intl Cooper Agric, 18: 18–28.
  • Shim R., Reyes V., Valle M, Lapis R., Shim J., Sunohara H., Jena K. K., Ashikari M., Doi K. (2020) Marker-assisted Introgression of the Quantitative Resistance Gene pi21 Confers Broad Spectrum Resistance of Rice to Blast. Rice Science, 27(2): 113−123.
  • Fukushima, A., Kuroha, T., Nagai, K., Hattori, Y., Kobayashi, M., Nishizawa, T., Kojima, M., Utsumi, Y., Oikawa, A., Seki, M., Sakakibara, H., Saito, K., Ashikari, M., Kusano, M. (2020) Metabolite and phytohormone profiling illustrates metabolic reprogramming as an escape strategy of deepwater rice during partially submerged stress. Metabolites, 10(2).
  • Mori Y., Kurokawa Y., Koike M., Malik A.I., Colmer T.D., Ashikari M., Pedersen O., Nagai K. (2019) Diel O2 Dynamics in Partially and Completely Submerged Deepwater Rice: Leaf Gas Films Enhance Internodal O2 Status, Influence Gene Expression and Accelerate Stem Elongation for ‘Snorkelling’ during Submergence. Plant and Cell Physiology, 60:973–985.
  • Reuscher S, Furuta T, Bessho-Uehara K, Cosi M, Jena KK, Toyoda A, Fujiyama A, Kurata N, Ashikari M. (2018) Assembling the genome of the African wild rice Oryza longistaminata by exploiting synteny in closely related Oryza species. Nature Communications Biology.
  • Kuroha T, Nagai K, Gamuyao R, Wang DR, Furuta T, Nakamori M, Kitaoka T, Adachi K, Minami A, Mori Y, Mashiguchi K, Seto Y, Yamaguchi S, Kojima M, Sakakibara H, Wu J, Ebana K, Mitsuda N, Ohme-Takagi M, Yanagisawa S, Yamasaki M, Yokoyama R, Nishitani K, Mochizuki T, Tamiya G, McCouch SR, Ashikari M. (2018) Ethylene-gibberellin signaling underlies adaptation of rice to periodic flooding. Science, 361: 181-186.
  • Kurokawa Y, Nagai K, Huan PD, Shimazaki K, Qu H, Mori Y, Toda Y, Kuroha T, Hayashi N, Aiga S, Itoh JI, Yoshimura A, Sasaki-Sekimoto Y, Ohta H, Shimojima M, Malik AI, Pedersen O, Colmer TD, Ashikari M. (2018) Rice leaf hydrophobicity and gas films are conferred by a wax synthesis gene (LGF1) and contribute to flood tolerance. New Phytologist, 218: 1558-1569.
  • Minami A, Yano K, Gamuyao R, Nagai K, Kuroha T, Ayano M, Nakamori M, Koike M, Kondo Y, Niimi Y, Kuwata K, Suzuki T, Higashiyama T, Takebayashi Y, Kojima M, Sakakibara H, Toyoda A, Fujiyama A, Kurata N, Ashikari M, Reuscher S. (2018) Time-course transcriptomics analysis reveals key responses of submerged deepwater rice to flooding. Plant Physiology, 176(4): 3081-3102.
  • Kim SR, Ramos JM, Hizon RJM, Ashikari M, Virk PS, Torres EA, Nissila E, Jena KK. (2018) Introgression of a functional epigenetic OsSPL14WFP allele into elite indica rice genomes greatly improved panicle traits and grain yield. Scientific Reports. 8(1): 3833.
  • Furuta T, Ashikari M, Jena KK, Doi K, Reuscher S. (2017) Adapting Genotyping-by-Sequencing for Rice F2 Populations. G3-GENES GENOMES GENETICS, 7(3): 881-893.
  • Sasidharan R, Bailey-Serres J, Ashikari M, Atwell B. J, Colmer TD, Fagerstedt K, Fukao T, Geigenberger P, Hebelstrup KH, Hill RD, Holdsworth MJ, Ismail AM, Licausi F, Mustroph A, Nakazono M, Pedersen O, Perata P, Sauter M, Shih M, Sorrell BK, Striker GG, van Dongen JT, Whelan J, Xiao S, Visser EJW, Voesenek LACJ. (2017) Community recommendations on terminology and procedures used in flooding and low oxygen stress research. New Phytologist, 214(4): 1403-1407.
  • Kuroha T, Nagai K, Kurokawa Y, Nagamura Y, Kusano M, Yasui H, Ashikari M, Fukushima A. (2017) eQTLs Regulating Transcript Variations Associated with Rapid Internode Elongation in Deepwater Rice. Frontiers in Plant Science, 8: 1753.
  • Win KT, Yamagata Y, Doi K, Uyama K, Nagai Y, Toda Y, Kani T, Ashikari M, Yasui H, Yoshimura A. (2017) A single base change explains the independent origin of and selection for the nonshattering gene in African rice domestication. New Phytologist, 213(4): 1925-1935.
  • Bessho-Uehara K, Furuta T, Masuda K, Yamada S, Angeles-Shim R, Ashikari M, Takashi T. (2017) Construction of rice chromosome segment substitution lines harboring Oryza barthii genome and evaluation of yield-related traits. Breeding Science, 67, (4): 408-415.
  • Gamuyao R, Nagai K, Ayano M, Mori Y, Minami A, Kojima M, Suzuki T, Sakakibara H, Higashiyama T, Ashikari M, Reuscher S. (2017) Hormone Distribution and Transcriptome Profiles in Bamboo Shoots Provide Insights on Bamboo Stem Emergence and Growth. Plant and Cell Physiology, 58 (4): 702-716.
  • Furuta T, Uehara K, Shim R, Shim J, Nagai K, Ashikari M, Takashi T. (2016) Development of chromosome segment substitution lines harboring Oryza nivara genomic segments in Koshihikari and evaluation of yield-related traits. Breeding Science, 66: 845-850.
  • Bessho- Uehara K, Wang D. R, Furuta T, Minami A, Nagai K, Gamuyao R, Asano K, Shim R, Shimizu Y, Ayano M, Komeda N, Doi K, Miura K, Toda Y, Kinoshita T, Okuda S, Higashiyama T, Nomoto M, Tada Y, Shinohara H, Matsubayashi Y, Greenberg A, Wu J, Yasui H, Yoshimura A, Mori H, McCouch SR, Ashikari M. (2016) Loss of function at RAE2, a previously unidentified EPFL, is required for awnlessness in cultivated Asian rice. PNAS, 113, (32) 8969–8974.
  • Toda Y, Wang Y, Takahashi A, Kawai Y, Tada Y, Yamaji N, Feng Ma J, Ashikari M, Kinoshita T. (2016) Oryza sativa H+-ATPase (OSA) is Involved in the Regulation of Dumbbell-Shaped Guard Cells of Rice. Plant and Cell Physiology, Jun 57, (6) 1220-1230.
  • Segami S, Yamamoto K, Oki K, Noda T, Kanamori H, Sasaki H, Mori S, Ashikari M, Kitano H, Katayose Y, Iwasaki Y, Miura K. (2016) Detection of novel QTLs regulating grain size in extra-large grain rice (Oryza sativa L.) lines. Rice.
  • Ramos J, Furuta T, Uehara K, Chihiro N, Shim R. A, Shim J, Brar D, Ashikari M. and Jena K. (2016) Development of chromosome segment substitution lines (CSSLs) of Oryza longistaminata A. Chev. & Röhr in the background of the elite japonica rice cultivar, Taichung 65 and their evaluation for yield traits. Euphytica, 200, 151-163.
  • Kubo T, Takashi T, Ashikari M, Yoshimura A, Kurata N. (2016) Two tightly linked genes at the hsa1 locus cause both F1 and F2 hybrid sterility in rice. Molecular Plant, Feb 1, 9(2) 221-32.
  • Kurokawa Y, Noda T, Yamagata Y, Shim R. A, Sunohara H, Uehara K, Furuta T, Nagai K, Jena KK, Yasui H, Yoshimura A, Ashikari M, Doi K. (2016) Construction of a versatile SNP array for pyramiding useful genes of rice. Plant Science, 242, 131-9.
  • Furuta T, Komeda N, Asano K, Uehara K, Gamuyao R, Shim RA, Nagai K, Doi K, Wang DR, Yasui H, Yoshimura A, Wu J, McCouch SR, Ashikari M. (2015) Convergent loss of awn in two cultivated rice species Oryza sativa and Oryza glaberrima is caused by mutations in different Loci. Genes Genomes Genetics Sep 2, 5(11) 2267-74.
  • Song X-J, Kuroha T, Ayano M, Furuta T, Nagai K, Komeda N, Segami S, Miura K, Ogawa D, Kamura T, Suzuki T, Higashiyama T, Yamasaki M, Mori H, Inukai Y, Wu J, Kitano H, Sakakibara H, Jacobsen SE, Ashikari M. (2015) Rare allele of a previously unidentified histone H4 acetyltransferase enhances grain weight, yield, and plant biomass in rice. PNAS, 112, (1) 76-81.
  • Nagai K, Kondo Y, Kitaoka T, Noda T, Kuroha T, Shim R. A, Yasui H, Yoshimura A, Ashikari M. (2014) QTL analysis of internode elongation in response to gibberellin in deepwater rice. AoB PLANT, 6, 1-12.
  • Ayano M, Kani T, Kojima M, Sakakibara H, Kitaoka T, Kuroha T, Shim RA, Kitano H, Nagai K, Ashikari M. (2014) Gibberellin biosynthesis and signal transduction is essential for internode elongation in deepwater rice. Plant Cell and Environment, 37, 10 2313-2324.
  • Furuta T, Uehara K R Shim RA, Shim JH, Ashikari M, Takashi T. (2014) Development and evaluation of chromosome segment substitution lines (CSSLs) carrying chromosome segments derived from Oryza rufipogon in the genetic background of Oryza sativa L. Breeding Science, 63, (5) 468-475.
  • Ishii T, Numaguchi K, Miura K, Yoshida K, Thanh PT, Htun TM, Yamasaki M, Komeda N, Matsumoto T, Terauchi R, Ishikawa R, Ashikari, M. (2013) OsLG1 regulates a closed panicle trait in domesticated rice. Nature Genetics, 45, (4) 462-465.
  • Sato-Izawa K, Nakaba S, Tamura K, Yamagishi Y, Nakano Y, Nishikubo N, Kawai S, Kajita S, Ashikari M, Funada R, Katayama Y. and Kitano H. (2012) DWARF50 (D50), a rice (Oryza sativa L.) gene encoding inositol polyphosphate 5-phosphatase, is required for proper development of intercalary meristem. Plant Cell Environ, 35, (11) 2031-2044.
  • Shim, RA, Asano K, Takashi T, Shim JH, Kuroha T, Ayano M, Ashikari M. (2012) A WUSCHEL-related homeobox 3B gene, depilous (dep), confers glabrousness of rice leaves and glumes. Rice.
  • Luo L, Li W, Miura K, Ashikari M, Kyozuka J. (2012) Control of Tiller Growth of Rice by OsSPL14 and Strigolactones, Which Work in Two Independent Pathways. Plant and Cell Physiology, 53, (10) 1793-1801.
  • Nagai K, Kuroha T, Ayano M, Kurokawa Y, Shim RA, Shim JH, Yasui H, Yoshimura A, Ashikari M. (2012) Two novel QTLs regulate internode elongation in deepwater rice during the early vegetative stage. Breeding Science, 62, 178–185.
  • Asano K, Yamasaki M, Takuno S, Miura K, Katagiri S, Ito T, Doi K, Wu J, Ebana K, Matsumoto T, Innan H, Kitano H, Ashikari M, Matsuoka M. (2011) Artificial selection for a green revolution gene during japonica rice domestication. PNAS, 108, (27) 11034-11039.
  • Muto Y, Segami S, Hayashi H, Sakurai J, Murai-Hatano M, Hattori Y, Ashikari M, Maeshima M. (2011) Vacuolar Proton Pumps and Aquaporins Involved in Rapid Internode Elongation of Deepwater Rice. Biosc Biotechnol Biochem, 75, (1) 114-122.
  • Miura K, Ikeda M, Matsubara A, Song X. J, Ito M, Asano K, Matsuoka M, Kitano H, Ashikari M. (2010) OsSPL14 promotes panicle branching and higher grain productivity in rice. Nature Genetics, 42, (6) 545-549.
  • Yamagata Y, Yamamoto E, Aya K, Win KT, Doi K, Sobrizal S, Ito M, Kanamori H, Wu J, Matsumoto T, Matsuoka M, Ashikari M, Yoshimura A. (2010) Mitochondrial gene in the nuclear genome induces reproductive barrier in rice. PNAS, 107, (4) 1494-1499.
  • Asano K, Miyao A, Hirochika H, Kitano H, Matsuoka M, Ashikari M. (2010) SSD1, which encodes a plant-specific novel protein, controls plant elongation by regulating cell division in rice. Proc Jpn Acad Ser B Phys Biol Sci, 86, (3) 265-73.
  • Shim RA, Angeles ER, Ashikari M, Takashi T. (2010) Development and evaluation of Oryza glaberrima Steud. chromosome segment substitution lines (CSSLs) in the background of O. sativa L. cv. Koshihikari. Breeding Science, 60, (5) 613-619.
  • Yamamoto E, Takashi T, Morinaka Y, Lin S, Wu J, Matsumoto T, Kitano H, Matsuoka M, Ashikari M. (2010) Gain of deleterious function causes an autoimmune response and Bateson-Dobzhansky-Muller incompatibility in rice. Molecular Genetics and Genomics, 283, (4) 305-15.
  • Hattori Y, Nagai K, Furukawa S, Song X, Kawano R, Sakakibara H, Wu J, Matsumoto T, Yoshimura A, Kitano H, Matsuoka M, Mori H, Ashikari M. (2009) The ethylene response factors SNORKEL1 and SNORKEL2 allow rice to adapt to deep water. Nature, 460, 1026-1030.
  • Kojima M, Kamada-Nobusada T, Komatsu H, Takei K, Kuroha T, Mizutani M, Ashikari M, Ueguchi-Tanaka M, Matsuoka M, Suzuki K, Sakakibara H. (2009) Highly sensitive and high-throughput analysis of plant hormones using MS-probe modification and liquid chromatography-tandem mass spectrometry: an application for hormone profiling in Oryza sativa. Plant Cell Physiology, 50, (7) 1201-1214.
  • Sazuka T, Kamiya N, Nishimura T, Ohmae K, Sato Y, Imamura K, Nagato Y,Koshiba T, Nagamura Y, Ashikari M, Kitano H, Matsuoka M. (2009) A rice tryptophan deficient dwarf mutant, tdd1, contains a reduced level of indole acetic acid and develops abnormal flowers and organless embryos. The Plant Journal, 60, (2) 227-241.
  • Miura K, Agetsuma M, Kitano H, Yoshimura A, Matsuoka M, Jacobsen SE, Ashikari M. (2009) A metastable DWARF1 epigenetic mutant affecting plant stature in rice. PNAS, 106, (27) 11218-11223.
  • Miura K, Wu J, Sunohara H, Wu X, Matsumoto T, Matsuoka M, Ashikari M, Kitano H. (2009) High-resolution mapping revealed a 1.3-Mbp genomic inversion in Ssi1, a dominant semidwarf gene in rice (Oryza sativa L.) Plant Breeding, 128, (1) 63-69.
  • Asano K, Hirano K, Ueguchi-Tanaka M, Angeles-Shim RB, Komura T, Satoh H, Kitano H, Matsuoka M, Ashikari M. (2009) Isolation and characterization of dominant dwarf mutants, Slr1-d, in rice. Molecular Genetics and Genomics, 281, (2) 223-231.

総説・解説等

  • Ashikari M, Nagai K, Bailey-Serres J. (2025) Surviving floods: Escape and quiescence strategies of rice coping with submergence. Plant Physiology 197(2): kiaf029.
  • 芦苅基行 (2021) イネの分子育種を用いた食糧問題緩和へのチャレンジ、農業および園芸, 100(1): 3-7.
  • Keisuke Nagai, Motoyuki Ashikari. (2023) Molecular mechanism of internode elongation in rice. Breeding Science, 73(2): 108–116.
  • 芦苅基行、永井啓祐 (2021) イネの茎伸長による洪水耐性機構の分子メカニズム、化学と生物 Vol.59, No.12, Page.586-597.
  • 土井一行、芦苅基行、菊田真由実、槇原大悟 (2020) イネ収量関連遺伝子の同定と利用 -ケニアでの試み-、アグリバイオ 2020年7月号.
  • Kuroha T., Ashikari M. (2020) Molecular mechanisms and future improvement of submergence tolerance in rice. MOLECULAR BREEDING.
  • 黒羽剛、芦苅基行 (2020) 洪水に適応する浮イネの急速な節間伸長機構、植物の生長調節　Vol. 55, No. 1.
  • 永井啓祐、芦苅基行 (2020) イネの茎伸長を制御するアクセル因子とブレーキ因子の発見、バイオサイエンスとインダストリー　Vol. 79, No. 1.
  • 別所-上原奏子、古田智敬、芦苅基行 (2016)「ホルモンと作物－イネの芒はどうして喪失したか？～植物ホルモンの関係～」生物の化学 遺伝、Vol.70, No.5, 58-62.
  • 永井啓祐、黒羽剛、芦苅基行 (2016)「浮きイネ生存戦略におけるジベレリン応答性因子の検索」科学と生物、Vol.54, No.3, 198-204.
  • 永井啓祐、黒川裕介、土井一行、芦苅基行 (2015)「ゲノム情報を利用したイネの育種」国際農林業協力、Vol.38, No.3, 2-11.
  • 上原奏子、芦苅基行 (2013)「ストリゴラクトン様化合物カロラクトンの新たな生合成経路」化学と生物、Vol.51, No.5, pp277-279.
  • 黒川裕介、上原奏子、芦苅基行 (2013)「植物科学の研究成果を利用するイネ育種プロジェクト」植物の成長調節、Vol.48, No.2, 169-171.
  • 芦苅基行 (2013)「植物ゲノム研究で世界の食糧危機を救う」宙舞（自動車技術会中部支部報）、No.72.
  • 三浦孝太郎、北野英己、芦苅基行 (2011)「穂を大きくする遺伝子の発見とその応用」月刊食料と安全、第9巻.
  • 永井啓祐、服部洋子、芦苅基行 (2011)「イネの洪水における異なる2つの生存戦略」化学と生物、Vol.49(4): 222-224.
  • 三浦孝太郎、北野英己、芦苅基行 (2011)「イネ収量増加遺伝子の発見－穀物増産を通した食糧危機回避へチャレンジ－」農林水産技術研究ジャーナル、Vol.34 No.4: 23-26.
  • Hattori Y, Nagai K, Ashikari M. (2011) Rice growth adapting to deepwater. Current Opinion in Plant Biology, 14: 100-105.
  • Nagai K, Hattori Y, Ashikari M. (2010) Stunt or elongate? Two opposite strategies by which rice adapts to floods. Journal of Plant Research, 123(3): 303-9.
  • 服部洋子、芦苅基行 (2010) 「東南アジアなどで栽培される浮イネの洪水回避機構の解明」BRAINテクノニュース、生研センター 137：17-22.
  • 服部洋子、永井啓祐、芦苅基行 (2010)「エチレン応答における遺伝子発現制御」、植物のシグナル伝達－分子と応答－、126-132.

著書

  • Nagai K, Hirano K, Angeles-Shim R.B, Ashikari M. (2018) Breeding Applications and Molecular Basis of Semi-dwarfism in Rice. Rice Genomics, Genetics and Breeding Chapter 9, 155-176.
  • Angeles-Shim RB, Ashikari M. (2017) Advances in molecular breeding techniques for rice. Achieving sustainable cultivation of rice, Volume 1 P.27-49.

永井 啓祐

原著論文（査読付き）

  • Nagai K, Niimi Y, Ohsato M, Ashikari M. (2025) Developmental Dynamics of Intercalary Meristem and Pith Cavity in Rice Stems. Rice, 18.
  • Ha QT, Moe S, Reyes V, Doi K, Miura K, Mizushima M, Maeno A, Tsuda K, Nagai K, Ashikari M. (2024) Detection of QTLs regulating the second internode length in rice dwarf mutant d1. Breeding Science, 74(5).
  • Jiménez JdlC, Noorrohmah S, Suresh K, Zeisler-Diehl VV, Peralta Ogorek LL, Herzog M, Pellegrini E, Nagai K, Ashikari M, Takahashi H, Pedersen O, Schreiber L, Nakazono M. (2024) Leaf Gas Film 1 promotes glycerol ester accumulation and formation of a tight root barrier to radial O2 loss in rice. Plant Physiology, 196(4): 2437-2449.
  • Keisuke Nagai, Motoyuki Ashikari. (2023) Molecular mechanism of internode elongation in rice. Breeding Science, 73(2): 108–116.
  • Bessho-Uehara K., Masuda K., Wang DR., Shim R., Obara K., Nagai K., Murase R., Aoki S., Furuta T., Miura K., Wu J., Yamagata Y., Yasui H., Kantar M., Yoshimura A., Kamura T., McCouch SR., Ashikari M. (2023) REGULATOR OF AWN ELONGATION 3 is responsible for loss of awns during African rice domestication. PNAS.
  • Niimi Y., Nagai K., Ashikari M., Mizuta Y. (2022) Deep Fluorescence Observation in Rice Shoots via Clearing Technology. Journal of Visualized Experiments, 184.
  • Yin Y.G., Mori Y., Suzui N., Kurita K., Yamaguchi M., Miyoshi Y., Nagao Y., Ashikari M., Nagai K., Kawachi N. (2021) Noninvasive imaging of hollow structures and gas movement revealed the gas partial-pressure-gradient-driven long-distance gas movement in the aerenchyma along the leaf blade to submerged organs in rice. New Phytologist, 232(5): 1974.
  • Nagai K., Kurokawa Y., Mori Y., Minami A., Reuscher S, Wu J., Matsumoto T., Ashikari M. (2022) SNORKEL Genes Relating to Flood Tolerance Were Pseudogenized in Normal Cultivated Rice. Plants, 11(3): 376.
  • Nagai K., Mori Y., Ishikawa S., Furuta T., Gamuyao R., Niimi Y., Hobo T., Fukuda M., Kojima M., Takebayashi Y., Fukushima A., Himuro Y., Kobayashi M., Ackley W., Hisano H., Sato K., Yoshida A., Wu J., Sakakibara H., Sato Y., Tsuji H., Akagi T. and Ashikari M. (2020) Antagonistic regulation of the gibberellic acid response during stem growth in rice. Nature, 584: 109–114.
  • Fukushima A., Kuroha T., Nagai K., Hattori Y., Kobayashi M., Nishizawa T., Kojima M., Utsumi Y., Oikawa A., Seki M., Sakakibara H., Saito K., Ashikari M. and Kusano M. (2020) Metabolite and Phytohormone Profiling Illustrates Metabolic Reprogramming as an Escape Strategy of Deepwater Rice during Partially Submerged Stress. Metabolites, 10(2): 68.
  • Yamada S., Kurokawa Y., Nagai K., Shim R., Yasui H., Furuya N., Yoshimura A., Doi K., Ashikari M., Sunohara H. (2020) Evaluation of Backcrossed Pyramiding Lines of the Yield-related Gene and the Bacterial Leaf Blight Resistant Genes. J Intl Cooper Agric, 18: 18–28.
  • Fukushima, A., Kuroha, T., Nagai, K., Hattori, Y., Kobayashi, M., Nishizawa, T., Kojima, M., Utsumi, Y., Oikawa, A., Seki, M., Sakakibara, H., Saito, K., Ashikari, M., Kusano, M. (2020) Metabolite and phytohormone profiling illustrates metabolic reprogramming as an escape strategy of deepwater rice during partially submerged stress. Metabolites, 10(2).
  • Mori Y., Kurokawa Y., Koike M., Malik A.I., Colmer T.D., Ashikari M., Pedersen O., Nagai K. (2019) Diel O2 Dynamics in Partially and Completely Submerged Deepwater Rice: Leaf Gas Films Enhance Internodal O2 Status, Influence Gene Expression and Accelerate Stem Elongation for ‘Snorkelling’ during Submergence. Plant and Cell Physiology, 60:973–985.
  • Kuroha T, Nagai K, Gamuyao R, Wang DR, Furuta T, Nakamori M, Kitaoka T, Adachi K, Minami A, Mori Y, Mashiguchi K, Seto Y, Yamaguchi S, Kojima M, Sakakibara H, Wu J, Ebana K, Mitsuda N, Ohme-Takagi M, Yanagisawa S, Yamasaki M, Yokoyama R, Nishitani K, Mochizuki T, Tamiya G, McCouch SR, Ashikari M. (2018) Ethylene-gibberellin signaling underlies adaptation of rice to periodic flooding. Science, 361: 181-186.
  • Kurokawa Y, Nagai K, Huan PD, Shimazaki K, Qu H, Mori Y, Toda Y, Kuroha T, Hayashi N, Aiga S, Itoh JI, Yoshimura A, Sasaki-Sekimoto Y, Ohta H, Shimojima M, Malik AI, Pedersen O, Colmer TD, Ashikari M. (2018) Rice leaf hydrophobicity and gas films are conferred by a wax synthesis gene (LGF1) and contribute to flood tolerance. New Phytologist, 218: 1558-1569.
  • Minami A, Yano K, Gamuyao R, Nagai K, Kuroha T, Ayano M, Nakamori M, Koike M, Kondo Y, Niimi Y, Kuwata K, Suzuki T, Higashiyama T, Takebayashi Y, Kojima M, Sakakibara H, Toyoda A, Fujiyama A, Kurata N, Ashikari M, Reuscher S. (2018) Time-course transcriptomics analysis reveals key responses of submerged deepwater rice to flooding. Plant Physiology, 176(4): 3081-3102.
  • Kuroha T, Nagai K, Kurokawa Y, Nagamura Y, Kusano M, Yasui H, Ashikari M, Fukushima A. (2017) eQTLs Regulating Transcript Variations Associated with Rapid Internode Elongation in Deepwater Rice. Frontiers in Plant Science, 8: 1753.
  • Furuta T, Uehara K, Shim R, Shim J, Nagai K, Ashikari M, Takashi T. (2016) Development of chromosome segment substitution lines harboring Oryza nivara genomic segments in Koshihikari and evaluation of yield-related traits. Breeding Science, 66: 845-850.
  • Bessho- Uehara K, Wang D. R, Furuta T, Minami A, Nagai K, Gamuyao R, Asano K, Shim R, Shimizu Y, Ayano M, Komeda N, Doi K, Miura K, Toda Y, Kinoshita T, Okuda S, Higashiyama T, Nomoto M, Tada Y, Shinohara H, Matsubayashi Y, Greenberg A, Wu J, Yasui H, Yoshimura A, Mori H, McCouch SR, Ashikari M. (2016) Loss of function at RAE2, a previously unidentified EPFL, is required for awnlessness in cultivated Asian rice. PNAS, 113, (32) 8969–8974.
  • Kurokawa Y, Noda T, Yamagata Y, Shim R. A, Sunohara H, Uehara K, Furuta T, Nagai K, Jena KK, Yasui H, Yoshimura A, Ashikari M, Doi K. (2016) Construction of a versatile SNP array for pyramiding useful genes of rice. Plant Science, 242, 131-9.
  • Furuta T, Komeda N, Asano K, Uehara K, Gamuyao R, Shim RA, Nagai K, Doi K, Wang DR, Yasui H, Yoshimura A, Wu J, McCouch SR, Ashikari M. (2015) Convergent loss of awn in two cultivated rice species Oryza sativa and Oryza glaberrima is caused by mutations in different Loci. Genes Genomes Genetics Sep 2, 5(11) 2267-74.
  • Song X-J, Kuroha T, Ayano M, Furuta T, Nagai K, Komeda N, Segami S, Miura K, Ogawa D, Kamura T, Suzuki T, Higashiyama T, Yamasaki M, Mori H, Inukai Y, Wu J, Kitano H, Sakakibara H, Jacobsen SE, Ashikari M. (2015) Rare allele of a previously unidentified histone H4 acetyltransferase enhances grain weight, yield, and plant biomass in rice. PNAS, 112, (1) 76-81.
  • Nagai K, Kondo Y, Kitaoka T, Noda T, Kuroha T, Shim R. A, Yasui H, Yoshimura A, Ashikari M. (2014) QTL analysis of internode elongation in response to gibberellin in deepwater rice. AoB PLANT, 6, 1-12.
  • Ayano M, Kani T, Kojima M, Sakakibara H, Kitaoka T, Kuroha T, Shim RA, Kitano H, Nagai K, Ashikari M. (2014) Gibberellin biosynthesis and signal transduction is essential for internode elongation in deepwater rice. Plant Cell and Environment, 37, 10 2313-2324.
  • Nagai K, Kuroha T, Ayano M, Kurokawa Y, Shim RA, Shim JH, Yasui H, Yoshimura A, Ashikari M. (2012) Two novel QTLs regulate internode elongation in deepwater rice during the early vegetative stage. Breeding Science, 62, 178–185.
  • Hattori Y, Nagai K, Furukawa S, Song X, Kawano R, Sakakibara H, Wu J, Matsumoto T, Yoshimura A, Kitano H, Matsuoka M, Mori H, Ashikari M. (2009) The ethylene response factors SNORKEL1 and SNORKEL2 allow rice to adapt to deep water. Nature, 460, 1026-1030.

総説・解説等

  • Ashikari M, Nagai K, Bailey-Serres J. (2025) Surviving floods: Escape and quiescence strategies of rice coping with submergence. Plant Physiology 197(2): kiaf029.
  • 永井啓祐 (2022) イネ節間伸長の分子機構の解明、育種学研究, 24 (2), 195-201.
  • 芦苅基行、永井啓祐 (2021) イネの茎伸長による洪水耐性機構の分子メカニズム、化学と生物 Vol.59, No.12, Page.586-597.
  • 永井啓祐 (2021) イネの茎伸長の開始を制御する2つのスイッチ因子の発見と農業的応用、JATAFFジャーナル Vol.9, No.10.
  • 永井啓祐、芦苅基行 (2020) イネの茎伸長を制御するアクセル因子とブレーキ因子の発見、バイオサイエンスとインダストリー　Vol. 79, No. 1.
  • 永井啓祐、服部洋子、芦苅基行 (2011)「イネの洪水における異なる2つの生存戦略」化学と生物、Vol.49(4): 222-224.
  • Hattori Y, Nagai K, Ashikari M. (2011) Rice growth adapting to deepwater. Current Opinion in Plant Biology, 14: 100-105.
  • Nagai K, Hattori Y, Ashikari M. (2010) Stunt or elongate? Two opposite strategies by which rice adapts to floods. Journal of Plant Research, 123(3): 303-9.
  • 服部洋子、永井啓祐、芦苅基行 (2010)「エチレン応答における遺伝子発現制御」、植物のシグナル伝達－分子と応答－、126-132.

著書

  • Nagai K, Hirano K, Angeles-Shim R.B, Ashikari M. (2018) Breeding Applications and Molecular Basis of Semi-dwarfism in Rice. Rice Genomics, Genetics and Breeding Chapter 9, 155-176.

永野 惇

原著論文（査読付き）

  • Eiju D, Hashida Y, Maeda T, Iwayama K, Nagano AJ, (2025) Simulation study of factors affecting the accuracy of transcriptome models under complex environments, Plant Molecular Biology, 115(2), 52
  • Utama IV, Mandagi IF, Lawelle SA, Masengi KWA, Nagano AJ, Kusumi J, Yamahira K, (2025) Allopatric Divergence and Secondary Contact Within a Single River System in a Freshwater Fish Group, Freshwater Biology, 70(2), e70004
  • Kobayashi J, Honda R, Hosoya S, Nochiri Y, Matsuzaki K, Sugimoto K, Nagano AJ, Kumagai A, Kikuchi K, Kurokawa T, (2025) Genome-Assisted Gene-Flow Rescued Genetic Diversity Without Hindering Growth Performance in an Inbred Coho Salmon (Oncorhynchus kisutch) Population Selected for High Growth Phenotype, Marine Biotechnology, 27(1), 38
  • Otsuka N, Yamaguchi R, Sawa H, Kadofusa N, Kato N, Nomura Y, Yamaguchi N, Nagano AJ, Sato A, Shirakawa M, Ito T, (2025) Small molecules and heat treatments reverse vernalization via epigenetic modification in Arabidopsis, Communications Biology, 8(1), 108
  • Nomura Y, Okada M, Tameshige T, Takenaka S, Shimizu KK, Nasuda S, Nagano AJ, (2025) Subgenome-informed statistical modeling of transcriptomes in 25 common wheat accessions reveals cis- and trans- regulation architectures, Plant and Cell Physiology, pcaf011
  • Koyama T, Tezuka T, Nagano AJ, Murakami J, Yoshikawa T, (2025) Differential Stress Responses to Rice Blast Fungal Infection Associated with the Vegetative Growth Phase in Rice, Plants, 14(2), 241
  • Yamazaki H, Mori S, Kishida O, Nagano AJ, Kokita T, (2025) QTL‐Based Evidence of Population Genetic Divergence in Male Territorial Aggressiveness of the Japanese Freshwater Threespine Stickleback, Ecology and Evolution, 15(1), e70795
  • Hirase S, Nagano AJ, Nohara K, Kikuchi K, Kokita T, (2025) Phenotypic and Genomic Signatures of Latitudinal Local Adaptation Along With Prevailing Ocean Current in a Coastal Goby, Molecular Ecology, e17599
  • Mori-Moriyama N, Nagano AJ, (2024) Lasy-Seq: A High-Throughput 3' RNA-Seq Method for Large-Scale Transcriptome Profiling in Rice, Methods in Molecular Biology, 2869, 123-134
  • Kashima M, Nomura Y, Nagano AJ, (2024) DeLTa-Seq: High-Throughput Targeted RNA-Seq of Rice Leaves Without RNA Purification, Methods in Molecular Biology, 2869, 113-121
  • Sato Y, Shimizu-Inatsugi R, Takeda K, Schmid B, Nagano AJ, Shimizu KK, (2024) Reducing herbivory in mixed planting by genomic prediction of neighbor effects in the field, Nature Communications, 15 (8467)
  • Koeda S, Yamamoto C, Yamamoto H, Fujishiro K, Mori R, Okamoto M, Nagano AJ, Mashiko T (2024) Cy-1, a major QTL for tomato leaf curl New Delhi virus resistance, harbors a gene encoding a DFDGD-Class RNA-dependent RNA polymerase in cucumber (Cucumis sativus), BMC Plant Biology, 24 (1), 879
  • Pan Y, Hatano A, Ohno S, Morita K, Kokaji T, Bai Y, Sugimoto H, Egami R, Terakawa A, Li D, Uematsu S, Maehara H, Fujita S, Inoue H, Inaba Y, Nagano AJ, Hirayama A, Soga T, Kuroda S (2024) Time and dose selective glucose metabolism for glucose homeostasis and energy conversion in the liver, npj Systems Biology and Applications, 10 (1), 107
  • Ueda M, Takahashi S, Ishida J, Yamagami A, Nakano T, Punner F, Akakabe M, Sohtome Y, Nagano AJ, Sodeoka M, Seki M, (2024) A Pyrazole Partially Induces Brassinosteroid-Related Gene Expression, Leading to Salt Stress Sensitivity, Journal of Plant Growth Regulation, 1-11
  • Setsuko S, Narita S, Tamaki I, Sugai K, Nagano AJ, Ujino‐Ihara T, Kato H, Isagi Y, (2024) Adaptive radiation of the Callicarpa genus in the Bonin Islands revealed through double‐digest restriction site‐associated DNA sequencing analysis, Ecology and Evolution, 14 (9), e70216
  • Ikawa H, Hasegawa T, Kumagai E, Wakatsuki H, Sekiyama Y, Nagano AJ, Kuwagata T, (2024) Enhanced decreases in rice evapotranspiration in response to elevated atmospheric carbon dioxide under warmer environments, Plant, Cell & Environment, 47 (9), 3514-3527
  • Yamamoto S, Koeda S, Nakano R, Sakaguchi S, Nagano AJ, Tanaka Y, Kondo F, Matsushima K, Komaki N, (2024) Genetic Diversity and Phylogenetic Relationships of Capsicum frutescens in the Asia-Pacific Region: The Pacific Dispersal Route, International Journal of Historical Archaeology, 1-14
  • Do TNQ, Todaka D, Tanaka M, Takahashi S, Ishida J, Sako K, Nagano AJ, Takebayashi Y, Kanno Y, Okamoto M, Pham XH, Seki M, (2024) 1-Butanol treatment enhances drought stress tolerance in Arabidopsis thaliana, Plant Molecular Biology, 114 (4), 86
  • Higashikawa W, Yoshimura M, Nagano AJ, Maeto K, (2024) Conservation genomics of an endangered floodplain dragonfly, Sympetrum pedemontanum elatum (Selys), in Japan, Conservation Genetics, 25 (3), 663-675
  • Mokodongan DF, Utama IV, Nagano AJ, Woo SP, Tan SH, Ansai S, Takehana Y, Yamahira K, (2024) Rediscovery of Oryzias hubbsi with notes on its reproductive isolation with O. javanicus, Ichthyological Research, 1-7
  • Dang HTT, Utama IV, Nagano AJ, Kobayashi H, Maeda K, Hoang HD, Tran HD, Yamahira K, (2024) Distribution and population genetic structure of the Hau Giang medaka, Oryzias haugiangensis, along the east coast of the Indochinese Peninsula, Zoological Science, 41 (3)
  • Hosokawa C, Yagi H, Segami S, Nagano AJ, Koumoto Y, Tamura K, Oka Y, Matsushita T, Shimada T, (2024) The Arabidopsis katamari2 Mutant Exhibits a Hypersensitive Seedling Arrest Response at the Phase Transition from Heterotrophic to Autotrophic Growth, Plant and Cell Physiology, 65 (3), 350-361
  • Todaka D, Quynh DTN, Tanaka M, Utsumi Y, Utsumi C, Ezoe A, Takahashi S, Ishida J, Kusano M, Kobayashi M, Saito K, Nagano AJ, Nakano Y, Mitsuda N, Fujiwara S, Seki M, (2024) Application of ethanol alleviates heat damage to leaf growth and yield in tomato, Frontiers in Plant Science, 15, 1325365
  • Ito T, Kimura R, Wakamori H, Tanaka M, Tezuka A, Nagano AJ, Hamada Y, Kawamoto Y, (2024) Hybridization and its impact on the ontogenetic allometry of skulls in macaques, Evolution, 78 (2), 284-299
  • Ito M, Ohashi H, Takemoto M, Muto C, Seiko T, Noda Y, Ogiso-Tanaka E, Nagano AJ, Takahashi Y, Furukawa J, Monden Y, Naito K, (2024) Single candidate gene for salt tolerance of Vigna nakashimae (Ohwi) Ohwi & Ohashi identified by QTL mapping, whole genome sequencing and triplicated RNA-seq analyses, Breeding Science, 74 (2), 93-102
  • Honda S, Imamura A, Seki Y, Chigira K, Iwasa M, Hayami K, Nomura T, Ohkubo S, Ookawa T, Nagano AJ, Matsuoka M, Tanaka Y, Adachi S, (2024) Genome-wide association study of leaf photosynthesis using a high-throughput gas exchange system in rice, Photosynthesis Research, 159 (1), 17-28
  • Nakayama T, Tanikawa M, Okushi Y, Itoh T, Shimmura T, Maruyama M, Yamaguchi T, Matsumiya A, Shinomiya A, Guh YJ, Chen J, Naruse K, Kudoh H, Kondo Y, Honda N, Aoki K, Nagano AJ, Yoshimura T, (2023) A transcriptional program for circannual clock in medaka, Proceedings of the National Academy of Sciences, 120 (52) e2313514120
  • Kato S, Arakaki S, Nagano AJ, Kikuchi K, Hirase S, (2023) Genomic landscape of introgression from the ghost lineage in a gobiid fish uncovers the generality of forces shaping hybrid genomes, Molecular Ecology, mec.17216
  • Haqani MI, Nakano M, Nagano AJ, Nakamura Y, Tsudzuki M, (2023) Association analysis of production traits of Japanese quail (Coturnix japonica) using restriction-site associated DNA sequencing, Scientific Reports, 13 (1), 21307
  • Chigira K, Yamasaki M, Adachi S, Nagano AJ, Ookawa T, (2023) Identification of Novel Quantitative Trait Loci for Culm Thickness of Rice Derived from Strong-Culm Landrace in Japan, Omachi, Rice, 16 (1), 4
  • Yamahira K, Kobayashi H, Kakioka R, Montenegro J, Masengi KWA, Okuda N, Nagano AJ, Tanaka R, Naruse K, Tatsumoto S, Go Y, Ansai S, Kusumi J, (2023) Ghost introgression in ricefishes of the genus Adrianichthys in an ancient Wallacean lake, Journal of Evolutionary Biology, 35 (12), 1751-1764
  • Probowati W, Koga S, Harada K, Nagano Y, Nagano AJ, Ishimaru K, Ohshima K, Fukuda S, (2023) RAD-Seq analysis of wild Japanese garlic (Allium macrostemon Bunge) growing in Japan revealed that this neglected crop was previously actively utilized, Scientific Reports, 13 (1), 16354
  • Ushio M, Saito H, Tojo M, Nagano AJ, (2023) An ecological network approach for detecting and validating influential organisms for rice growth, eLife, 12, RP87202
  • Yoichi W, Matsuzawa S, Tamaki I, Nagano AJ, Oh SH, (2023) Genetic differentiation and evolution of broad-leaved evergreen shrub and tree varieties of Daphniphyllum macropodum (Daphniphyllaceae), Heredity, 131 (3), 211-220
  • Sun J, Okada M, Tameshige T, Shimizu-Inatsugi R, Akiyama R, Nagano AJ, Sese J, Shimizu KK, (2023) A low-coverage 3’ RNA-seq to detect homeolog expression in polyploid wheat, NAR Genomics and Bioinformatics, 5 (3), lqad067
  • Harigai W, Saito A, Zemmoto C, Karasawa S, Yokoi T, Nagano AJ, Suzuki H, Yamamoto M, (2023) History of the terrestrial isopod genus Ligidium in Japan based on phylogeographic analysis, BMC Ecology and Evolution, 23 (1), 1-25
  • Takahashi H, Kakioka R, Nagano AJ, (2023) Development and validation of novel SNP markers for the rapid identification of natural hybrids of the 11 closely related pufferfish species (Takifugu spp.) distributed in Japan, Aquaculture Reports, 31, 101650
  • Mandagi IF, Sumarto BKA, Nuryadi H, Mokodongan DF, Lawelle SA, Masengi KWA, Nagano AJ, Kakioka R, Kitano J, Ansai S, Kusumi J, Yamahira K, (2023) Multiple colonizations and hybridization of a freshwater fish group on a satellite island of Sulawesi, Molecular Phylogenetics and Evolution, 108, 107804
  • Takano S, Utsumi Y, Nagano AJ, Takahashi S, Ezoe A, Seki M, Le TX, Takasu K, (2023) Induction of leaf curling in cassava plants by the cassava mealybug Phenacoccus manihoti (Hemiptera: Pseudococcidae), Applied Entomology and Zoology, 1-12
  • Matsuda H, Yamazaki Y, Moriyoshi E, Nakayasu M, Yamazaki S, Aoki Y, Takase H, Okazaki S, Nagano AJ, Kaga A, Yazaki K, Sugiyama A, (2023) Apoplast-localized β-glucosidase elevates isoflavone accumulation in the soybean rhizosphere, Plant and Cell Physiology, 64 (5), 486-500
  • Muto N, Kawasaki T, Kakioka R, Nagano AJ, Shimizu Y, Inose S, Shimizu Y, Takahashi H, (2023) Genetic architectures of postmating isolation and morphology of two highly diverged rockfishes (genus Sebastes), Journal of Heredity, 114 (3), 231-245
  • Kise H, Iguchi A, Saito N, Yoshioka Y, Uda K, Suzuki T, Nagano AJ, Suzuki A, Iwasaki N, (2023) Genetic population structure of the precious coral Corallium japonicum in the Northwest Pacific, Frontiers in Marine Science, 10, 1052033
  • Naito T, Nakayama K, Takeshima H, Hashiguchi Y, Akita T, Yamasaki YY, Mishina T, Takeshita N, Nagano AJ, Takahashi H, (2023) The detailed population genetic structure of the rare endangered latid fish akame Lates japonicus with extremely low genetic diversity revealed from single-nucleotide polymorphisms, Conservation Genetics, 24, 523–535
  • Yoichi W, Tamaki I, Oh SH, Nagano AJ, Uehara K, Tomaru N, Abe H, (2023) The evolutionary history of rice azaleas (Rhododendron tschonoskii alliance) involved niche evolution to a montane environment, American Journal of Botany, e16166
  • Matsunami M, Murai-Hatano M, Kuwagata T, Matsushima U, Hashida Y, Tominaga Y, Masuya Y, Nagano AJ, (2023) Transcriptome dynamics of rice in natura: response of above and below ground organs to micro-climate, Plant, Cell and Environment, 46 (4), 1176-1194
  • Hayashi K, Kato N, Bashir K, Nomoto H, Nakayama M, Chini A, Takahashi S, Saito H, Watanabe R, Takaoka Y, Tanaka M, Nagano AJ, Seki M, Solano R, Ueda M, (2023) Subtype-selective agonists of plant hormone co-receptor COI1-JAZs identified from the stereoisomers of coronatine, Communications Biology, 6 (1), 320
  • Maeda T, Sugano SS, Shirakawa M, Sagara M, Ito T, Kondo S, Nagano AJ, (2023) Single-cell RNA sequencing of Arabidopsis leaf tissues identifies multiple specialized cell types: idioblast myrosin cells and potential glucosinolate-producing cells, Plant and Cell Physiology, 64 (2), 234-247
  • Shibabayashi M, Shimizu T, Tokuhiro C, Suyama Y, Sakaguchi S, Ito T, Yu CC, Chung KF, Nagasawa J, Shiuchi T, Kokubugata G, Abe A, Naiki A, Nagano AJ, Isagi Y, (2023) The contrary conservation situations of two local critically endangered species, Vaccinium emarginatum (Ericaceae) and Elatostema platyphyllum (Urticaceae), growing on the eastern edge of the distribution, Frontiers in Ecology and Evolution, 11, 1093321
  • Nomura T, Ohkubo S, Nagano AJ, Samadi AF, Adachi S, Ookawa T, (2022) Physiological and morphological factors affecting leaf sheath reinforcement and their contribution to lodging resistance in rice, Plant Production Science, 1-17
  • Kondo F, Umeda K, Sudasinghe SP, Yamaguchi M, Aratani S, Kumanomido Y, Nemoto K, Nagano AJ, Matsushima K, (2023) Genetic analysis of pungency deficiency in Japanese chili pepper ‘Shishito’ (Capsicum annuum) revealed its unique heredity and brought the discovery of two genetic loci involved with the reduction of pungency, Molecular Genetics and Genomics, 298 (1), 201-212
  • Emura N, Muranaka T, Iwasaki T, Honjo MN, Nagano AJ, Isagi Y, Kudoh H, (2022) Effects of fruit dimorphism on genetic structure and gene flow in the coastal shrub Scaevola taccada, Annals of Botany, 130 (7), 1029-1040
  • Ansai S, Montenegro J, Masengi KWA, Nagano AJ, Yamahira K, Kitano J, (2022) Diversity of sex chromosomes in Sulawesian medaka fishes, Journal of Evolutionary Biology, 35 (12), 1751-1764
  • Kashima M, Kamitani M, Nomura Y, Mori-Moriyama N, Betsuyaku S, Hirata H, Nagano AJ, (2022) DeLTa-Seq: direct-lysate targeted RNA-Seq from crude tissue lysate, Plant Methods, 18 (1), 1-18
  • Adu BG, Argete AYS, Egawa S, Nagano AJ, Shimizu A, Ohmori Y, Fujiwara T, (2022) A Koshihikari X Oryza rufipogon Introgression Line with a High Capacity to Take up Nitrogen to Maintain Growth and Panicle Development under Low Nitrogen Conditions, Plant and Cell Physiology, 63 (9), 1215-1229
  • Bashir K, Rasheed S, Todaka D, Matsui A, Ahmad Z, Sako K, Utsumi Y, Thu VA, Tanaka M, Takahashi S, Ishida J, Tsuboi Y, Watanabe S, Kanno Y, Ando E, Seito M, Motegi H, Sato M, Li R, Kikuchi S, Fujita M, Kusano M, Habu Y, Nagano AJ, Kawaura K, Kikuchi J, Saito K, Hirai MY, Seo M, Shinozaki K, Kinoshita T, Seki M, (2022) Ethanol Treatment Enhances Drought Stress Tolerance in Plants, Plant and Cell Physiology, 63 (9), 1181-1192
  • Onoue N, Kono A, Azuma A, Matsuzaki R, Nagano AJ, Sato A, (2022) Inbreeding depression in yield-related traits revealed by high-throughput sequencing in hexaploid persimmon breeding populations, Euphytica, 218 (9), 1-18
  • Ushio M, Furukawa S, Murakami H, Masuda R, Nagano AJ, (2022) An efficient early-pooling protocol for environmental DNA metabarcoding, Environmental DNA, 3.337
  • Montenegro J, Fujimoto S, Ansai S, Nagano AJ, Sato M, Maeda Y, Tanaka R, Masengi KWA, Kimura R, Kitano J, (2022) Genetic basis for the evolution of pelvic‐fin brooding, a new mode of reproduction, in a Sulawesian fish, Molecular Ecology, 31(14):3798-3811
  • Koeda S, Mori N, Horiuchi R, Watanabe C, Nagano AJ, Shiragane H, (2022) PepYLCIV and PepYLCAV resistance gene Pepy-2 encodes DFDGD-Class RNA-dependent RNA polymerase in Capsicum, Theoretical and Applied Genetics, 135:2437–2452
  • Kurita Y, Kanno S, Sugita R, Hirose A, Ohnishi M, Tezuka A, Deguchi A, Ishizaki K, Fukaki H, Baba K, Nagano AJ, Tanoi K, Nakanishi TM, Mimura T, (2022) Visualization of phosphorus re-translocation and phosphate transporter expression profiles in a shortened annual cycle system of poplar, Plant, Cell and Environment, 45(6):1749-1764
  • Hashida Y, Tezuka A, Nomura Y, Kamitani M, Kashima M, Kurita Y, Nagano AJ, (2022) Fillable and unfillable gaps in plant transcriptome under field and controlled environments, Plant, Cell and Environment, 45(8):2410-2427
  • Utama IV, Mandagi IF, Lawelle SA, Masengi KWA, Watanabe K, Sawada N, Nagano AJ, Kusumi J, Yamahira K, (2022) Deeply divergent freshwater fish species within a single river system in central Sulawesi, Molecular Phylogenetics and Evolution, 173:107519
  • Kobayashi T, Shinkawa H, Nagano AJ, Nishizawa NK, (2022) The basic leucine zipper transcription factor OsbZIP83 and the glutaredoxins OsGRX6 and OsGRX9 facilitate rice iron utilization under the control of OsHRZ ubiquitin ligases, The Plant Journal, 110(6):1731-1750
  • Chimura K, Akita S, Iwasaki T, Nagano AJ, Shimada S, (2022) Phylogeography of a canopy-forming kelp, Eisenia bicyclis (Laminariales, Phaeophyceae), based on a genome-wide sequencing analysis, Journal of Phycology, 58(2):318-329
  • Okamura Y, Sato A, Kawaguchi L, Nagano AJ, Murakami M, Vogel H, Kroymann J, (2022) Microevolution of Pieris butterfly genes involved in host plant adaptation along a host plant community cline, Molecular Ecology, 31(11):3083-3097
  • Nagano S, Mori N, Tomari Y, Mitsugi N, Deguchi A, Kashima M, Tezuka A, Nagano AJ, Usami H, Tanabata T, Watanabe H, (2022) Effect of differences in light source environment on transcriptome of leaf lettuce (Lactuca sativa L.) to optimize cultivation conditions, PLoS One, 17(3):e0265994
  • Nagano Y, Tashiro H, Nishi S, Hiehata N, Nagano AJ, Fukuda S, (2022) Genetic Diversity of Loquat (Eriobotrya japonica) Revealed Using RAD-Seq SNP Markers, Scientific Reports, 12, 10200
  • Mori N, Hasegawa S, Takimoto R, Horiuchi R, Watanabe C, Onizaki D, Shiragane H, Nagano AJ, Kesumawati E, Koeda S, (2022) Identification of QTLs conferring resistance to begomovirus isolate of PepYLCIV in Capsicum chinense, Euphytica, 218, 20
  • Kuwagata T, Murai-Hatano M, Matsunami M, Terui S, Nagano AJ, Maruyama A, Ishida S, (2022) Hydrometeorology for plant omics: potential evaporation as a key index for transcriptome in rice, Environmental and Experimental Botany, 194(104724)
  • Takimoto H, Sato Y, Nagano AJ, Shimizu KK, Kanagawa A, (2021) Using a two-stage convolutional neural network to rapidly identify tiny herbivorous beetles in the field, Ecological Informatics, 66(101466)
  • Kashima M, Sakamoto RL, Saito H, Ohkubo S, Tezuka A, Deguchi A, Hashida Y, Kurita Y, Iwayama K, Adachi S, Nagano AJ, (2021) Genomic basis of transcriptome dynamics in Rice under field conditions, Plant and Cell Physiology, pcab088
  • Takahashi T, Nagano AJ, Sota T, (2021) Mapping of quantitative trait loci underlying a magic trait in ongoing ecological speciation, BMC Genomics, 22(1), 1-9
  • Magota K, Sakaguchi S, Lee JS, Yamamoto M, Takahashi D, Nagano AJ, Setoguchi H, (2021) Phylogeographic analysis of Saxifraga fortunei complex (Saxifragaceae) reveals multiple origins of morphological and ecological variations in the Japanese Archipelago, Molecular Phylogenetics and Evolution, 163, 107230
  • Mandagi IF, Kakioka R, Montenegro J, Kobayashi H, Masengi KWA, Inomata N, Nagano AJ, Toyoda A, Ansai S, Matsunami M, Kimura R, Kitano J, Kusumi J, Yamahira K, (2021) Species divergence and repeated ancient hybridization in a Sulawesian lake system, Journal of Evolutionary Biology, doi: 10.1111/jeb.13932
  • Sata H, Shimizu M, Iwasaki T, Ikeda H, Soejima A, Kozhevnikov AE, Kozhevnikova ZV, Im HT, Jang SK, Azuma T, Nagano AJ, Fujii N, (2021) Phylogeography of the East Asian grassland plant, Viola orientalis (Violaceae), inferred from plastid and nuclear restriction site-associated DNA sequencing data, Journal of Plant Research, 134(6):1181-1198
  • Maeda K, Kobayashi H, Palla HP, Shinzato C, Koyanagi R, Montenegro J, Nagano AJ, Saeki T, Kunishima T, Mukai T, Tachihara K, Laudet V, Satoh N, Yamahira K, (2021) Do colour-morphs of an amphidromous goby represent different species? Taxonomy of Lentipes (Gobiiformes) from Japan and Palawan, Philippines, with phylogenomic approaches, Systematics and Biodiversity, doi: 10.1080/14772000.2021.1971792
  • Haqani MI, Nomura S, Nakano M, Goto T, Nagano AJ, Takenouchi A, Nakamura Y, Ishikawa A, Tsudzuki M, (2021) Quantitative trait loci for growth-related traits in Japanese quail (Coturnix japonica) using restriction-site associated DNA sequencing, Molecular Genetics and Genomics, 1-13
  • Iguchi A, Tada I, Nagano AJ, Yasuda N, (2021) Genetic structure of Pacific crown-of-thorns starfish (Acanthaster cf. solaris) in southern Japan based on genome-wide RADseq analysis, Coral Reefs, 1-7
  • Hirakawa H, Toyoda A, Ito T, Suzuki Y, Nagano AJ, Sugiyama S, Onodera Y, (2021) A spinach genome assembly with remarkable completeness, and its use for rapid identification of candidate genes for agronomic traits, DNA Research, dsab004
  • Fukuda A, Hirose T, Hashida Y, Aoki N, Nagano AJ, (2021) Selection of transcripts related to low-temperature tolerance using RNA sequencing from F2 plants between japonica and indica rice (Oryza sativa L.) cultivars, Functional Plant Biology, 48(10):984-993
  • Horoiwa M, Mandagi IF, Sutra N, Montenegro J, Tantu FY, Masengi KWA, Nagano AJ, Kusumi J, Yasuda N, Yamahira K, (2021) Mitochondrial introgression by ancient admixture between two distant lacustrine fishes in Sulawesi Island, PLoS ONE, 16 (6), e0245316
  • Yamaguchi N, Matsubara S, Yoshimizu K, Seki M, Hamada K, Kamitani M, Kurita Y, Nomura Y, Nagashima K, Inagaki S, Suzuki T, Gan ES, To T, Kakutani T, Nagano AJ, Satake A, Ito T, (2021) H3K27me3 demethylases alter HSP22 and HSP17. 6C expression in response to recurring heat in Arabidopsis, Nature Communications, 12(1), 1-16
  • Koeda S, Onouchi M, Mori N, Pohan NS, Nagano AJ, Kesumawati E, (2021) A recessive gene pepy-1 encoding Pelota confers resistance to begomovirus isolates of PepYLCIV and PepYLCAV in Capsicum annuum, Theoretical and Applied Genetics, 1-18
  • Kakioka R, Sutra N, Kobayashi H, Ansai S, Masengi KWA, Nagano AJ, Okuda N, Tanaka R, Sato M, Yamahira K, (2021) Resource partitioning is not coupled with assortative mating in sympatrically divergent ricefish in a Wallacean ancient lake, Journal of Evolutionary Biology, 34(7):1133-1143
  • Kawakatsu Y, Sakamoto T, Nakayama H, Kaminoyama K, Igarashi K, Yasugi M, Kudoh H, Nagano AJ, Yano K, Kubo N, Notaguchi M, Kimura S, (2021) Combination of genetic analysis and ancient literature survey reveals the divergence of traditional Brassica rapa varieties from Kyoto, Japan, Horticulture Research, 8(1), 1-10
  • Okinaga Y, Kyogoku D, Kondo S, Nagano AJ, Hirose K, (2021) Relationship between gene regulation network structure and prediction accuracy in high dimensional regression, Scientific Reports, 11(1), 1-10
  • Haqani MI, Nomura S, Nakano M, Goto T, Nagano AJ, Takenouchi A, Nakamura Y, Ishikawa A, Tsudzuki M, (2021) Mapping of Quantitative Trait Loci Controlling Egg-Quality and-Production Traits in Japanese Quail (Coturnix japonica) Using Restriction-Site Associated DNA Sequencing, Genes, 12 (5), 735
  • Yamazaki S, Mardani-Korrani H, Kaida R, Ochiai K, Kobayashi M, Nagano AJ, Fujii Y, Sugiyama A, Aoki Y, (2021) Field multi-omics analysis reveals a close association between bacterial communities and mineral properties in the soybean rhizosphere, Scientific Reports, 11, 8878
  • Honda S, Ohkubo S, San NS, Nakkasame A, Tomisawa K, Katsura K, Ookawa T, Nagano AJ, Adachi S, (2021) Maintaining higher leaf photosynthesis after heading stage could promote biomass accumulation in rice, Scientific Reports, 11, 7579
  • Kakioka R, Kume M, Ishikawa A, Ansai S, Hosoki TK, Yamasaki YY, Nagano AJ, Toyoda A, Kitano J, (2021) Genetic basis for variation in the number of cephalic pores in a hybrid zone between closely related species of goby, Gymnogobius breunigii and Gymnogobius castaneus, Biological Journal of the Linnean Society, doi: 10.1093/biolinnean/blab033
  • Premarathne MDGP, Fukutome N, Yamasaki K, Hayakawa F, Nagano AJ, Mizuno H, Ibaragi N, NaganoY, (2021) Elucidation of Japanese pepper (Zanthoxylum piperitum De Candolle) domestication using RAD-Seq, Scientific Reports, 11, 6464
  • Yoichi W, Takahashi M, Nagano AJ, Uehara K, Abe H, (2021) Evolutionary effects of geographic and climatic isolation between Rhododendron tsusiophyllum populations on the Izu Islands and mainland Honshu of Japan, Heredity, doi: 10.1038/s41437-021-00417-w
  • Ansai S, Mochida K, Fujimoto S, Mokodongan DF, Sumarto BKA, Masengi KWA, Hadiaty RK, Nagano AJ, Toyoda A, Naruse K, Yamahira K, Kitano J, (2021) Genome editing reveals fitness effects of a gene for sexual dichromatism in Sulawesian fishes, Nature Communications,12 (1), 1-13
  • Imai R, Tsuda Y, Ebihara A, Matsumoto S, Tezuka A, Nagano AJ, Ootsuki R, Watano Y, (2021) Mating system evolution and genetic structure of diploid sexual populations of Cyrtomium falcatum in Japan, Scientific Reports, 11 (1), 1-12
  • Sato Y, Takeda K, Nagano AJ, (2021) Neighbor QTL: an interval mapping method for quantitative trait loci underlying plant neighborhood effects, G3: Genes, Genomes, Genetics, 11(2), jkab017
  • Sato Y, Yamamoto E, Shimizu KK, Nagano AJ, (2021) Neighbor GWAS: incorporating neighbor genotypic identity into genome-wide association studies of field herbivory, Heredity, doi: 10.1038/s41437-020-00401-w
  • Kyan R, Kimura T, Yamashiro T, Fujii S, Sakaguchi S, Ito M, Nagano AJ, Kudoh H, Maki M, (2021) Phylogeographic and demographic modeling analyses of the multiple origins of the rheophytic goldenrod Solidago yokusaiana Makino, Heredity, doi: 10.1038/s41437-021-00408-x
  • Sakaguchi S, Asaoka Y, Takahashi D, Isagi Y, Imai R, Nagano AJ, Qiu YX, Li P, Lu R, Setoguchi H, (2021) Inferring historical survivals of climate relicts: the effects of climate changes, geography, and population-specific factors on herbaceous hydrangeas, Heredity, doi: 10.1038/s41437-020-00396-4
  • Yoneyama S, Maeda K, Sadamori A, Saitoh S, Tsuda M, Azuma T, Nagano AJ, Tomiyama T, Matsumoto T, (2021) Construction of a genetic linkage map and detection of quantitative trait locus for the ergothioneine content in tamogitake mushroom (Pleurotus cornucopiae var. citrinopileatus), Mycoscience, 62(1), 71-80
  • Essa BH, Suzuki S, Nagano AJ, Elkholya SZ, Ishikawa A, (2021) QTL analysis for early growth in an intercross between native Japanese Nagoya and White Plymouth Rock chicken breeds using RAD sequencing‐based SNP markers, Animal Genetics, doi: 10.1111/age.13039
  • Gutierrez-Ortega JS, Molina-Freaner F, Martinez JF, Perez-Farrera MA, Vovides AP, Hernandez-Lopez A, Tezuka A, Nagano AJ, Watano Y, Takahashi Y, Murakami M, Kajita T, (2021) Speciation along a latitudinal gradient: The origin of the Neotropical cycad sister pair Dioon sonorense D. vovidesii (Zamiaceae), Ecology and evolution, 11(11), 6962-6976
  • Takahashi D, Sakaguchi S, Feng Y, Isagi Y, Qiu YX, Li P, Lu RS, Lu CT, Chung SW, Lin YS, Chen YC, Nagano AJ, Kawaguchi L, Setoguchi H, (2021) Geographic and subsequent biotic isolations led to a diversity anomaly of section Heterotropa (genus Asarum: Aristolochiaceae) in insular versus continental regions of the Sino-Japanese Floristic Region, Journal of Biogeography, jbi.14121
  • Boukteb A, Sakaguchi S, Ichihashi Y, Kharrat M, Nagano AJ, Shirasu K, Bouhadida M, (2021) Analysis of genetic diversity and population structure of Orobanche foetida populations from Tunisia using RADseq, Frontiers in Plant Science, 12, 323
  • Kamitani M, Nagano AJ, Okuno T, (2021) Characterization of citrus leaf blotch virus from Nandina domestica 'Otafukunanten', Journal of General Plant Pathology, 87(2), 113-116
  • Kokita T, Ueno K, Yamasaki YY, Matsuda M, Tabata R, Nagano AJ, Mishina T, Watanabe K, (2021) Gudgeon fish with and without genetically determined countershading coexist in heterogeneous littoral environments of an ancient lake, Ecology and Evolution, ece3.8050
  • Yonetani Y, Nagano AJ, Ueno H, Amano T, (2021) Effects of Observed Incubation Behavior on Egg Production in Laying Hens of a Commercial Chicken Breed and Detection of Single-Nucleotide Polymorphisms Associated with the Incubation Behavior, The Journal of Poultry Science, 0210037
  • Mori M, Maki K, Kawahata T, Kawahara D, Kato Y, Yoshida T, Nagasawa H, Sato H, Nagano AJ, Bethke PC, Kato K, (2021) Mapping of QTLs controlling epicotyl length in adzuki bean (Vigna angularis), Breeding Science, 20093
  • Hashimoto T, Kubo N, Nishimura K, Nagano AJ, Sasaki A, Nakamura Y, Mimura Y. (2020) Quantitative Trait Locus Analysis in Squash (Cucurbita moschata) Based on Simple Sequence Repeat Markers and Restriction Site-Associated DNA Sequencing Analysis, Horticulturae, 6(4), 71;
  • Koeda S, Homma K, Kamitani M, Nagano AJ, Taniguchi M, Pohan N, Kesumawati E, (2020) Pepper vein yellows virus 9: a novel polerovirus isolated from chili pepper in Indonesia, Archives of Virology, 165 (12), 3017-3021
  • Kakioka R, Mori S, Kokita T, Hosoki TK, Nagano AJ, Ishikawa A, Kume M, Toyoda A, Kitano J, (2020) Multiple waves of freshwater colonization of the three-spined stickleback in the Japanese Archipelago, BMC Evolutionary Biology, 20 (1), 1-14
  • Kobayashi T, Nagano AJ, Nishizawa NK, (2020) Iron deficiency-inducible peptide coding genes OsIMA1 and OsIMA2 positively regulate a major pathway of iron uptake and translocation in rice, Journal of Experimental Botany, doi:10.1093/jxb/eraa546
  • Hirase S, Tezuka A, Nagano AJ, Sato M, Hosoya S, Kikuchi K, Iwasaki W, (2020) Integrative genomic phylogeography reveals signs of mitonuclear incompatibility in a natural hybrid goby population, Evolution, doi:10.1111/evo.14120
  • Yagi H, Nagano AJ, Kim J, Tamura K, Mochizuki N, Nagatani A, Matsushita T, Shimada T, (2020) Fluorescent protein-based imaging and tissue-specific RNA-seq analysis of Arabidopsis hydathodes, Journal of Experimental Botany, doi:10.1093/jxb/eraa519
  • Nishio H, Nagano AJ, Ito T, Suzuki Y, Kudoh H, (2020) Seasonal plasticity and diel stability of H3K27me3 in natural fluctuating environments, Nature Plants, 6, 1091-1097
  • Yamasaki YY, Kakioka R, Takahashi H, Toyoda A, Nagano AJ, Machida Y, Moller PR, Kitano J, (2020) Genome-wide patterns of divergence and introgression after secondary contact between Pungitius sticklebacks, Philosophical Transactions of the Royal Society B 375(1806), 20190548
  • Ishikawa A, Sakaguchi M, Nagano AJ, Suzuki S, (2020) Genetic Architecture of Innate Fear Behavior in Chickens, Behavior Genetics, 1-12
  • Araki KS, Nagano AJ, Nakano RT, Kitazume T, Yamaguchi K, Hara-Nishimura I, Shigenobu S, Kudoh H, (2020) Characterization of rhizome transcriptome and identification of a rhizomatous ER body in the clonal plant Cardamine leucantha, Scientific Reports 10(1), 1-12
  • Kashima M, Deguchi A, Tezuka A, Nagano AJ, (2020) Low-cost and Multiplexable Whole mRNA-Seq Library Preparation Method with Oligo-dT Magnetic Beads for Illumina Sequencing Platforms, Bio-protocol, 10(12), e3496-e3496
  • Yassumoto TI, Nakatsukasa M, Nagano AJ, Yasugi M, Yoshimura T, Shinomiya A, (2020) Genetic analysis of body weight in wild populations of medaka fish from different latitudes, PLoS One, 15(6), e0234803
  • Gutierrez-Ortega JS, Salinas-Rodriguez MM, Ito T, Perez-Farrera MA, Vovides AP, Martinez JF, Molina-Freaner F, Hernandez-Lopez A, Kawaguchi L, Nagano AJ, Kajita T, Watano Y, Tsuchimatsu T, Takahashi Y, Murakami M, (2020) Niche conservatism promotes speciation in cycads: the case of Dioon merolae (Zamiaceae) in Mexico, New Phytologist, doi:10.1111/nph.16647
  • Takahashi T, Nagano AJ, Kawaguchi L, Onikura N, Nakajima J, Miyake T, Suzuki N, Kanoh Y, Tsuruta T, Tanimoto T, Yasui Y, Oshima N, Kawamura K, (2020) A ddRAD-based population genetics and phylogenetics of an endangered freshwater fish from Japan, Conservation Genetics, 21, 641-652
  • Nishio H, Buzas DM, Nagano AJ, Iwayama K, Ushio M, Kudoh H, (2020) Repressive chromatin modification underpins the long-term expression trend of a perennial flowering gene in nature, Nature Communications, 11 (1), 1-12
  • Ueda Y, Ohtsuki N, Kadota K, Tezuka A, Nagano AJ, Kadowaki T, Kim Y, Miyao M, Yanagisawa S, (2020) Gene Regulatory Network and Its Constituent Transcription Factors That Control Nitrogen Deficiency Responses in Rice, New Phytologist, doi: 10.1111/nph.16627.
  • Okuyama Y, Goto N, Nagano AJ, Yasugi M, Kokubugata G, Kudoh H, Qi Z, Ito T, Kakishima S, Sugawara T, (2020) Radiation history of Asian Asarum (sect. Heterotropa, Aristolochiaceae) resolved using a phylogenomic approach based on double-digested RAD-seq data, Annals of Botany, doi.org/10.1093/aob/mcaa072
  • Sakaguchi S, Nagano AJ, Yasugi M, Kudoh H, Ishikawa N, Ito M, (2020) Genetic consequences of being a dwarf: Do evolutionary changes in life-history traits influence gene flow patterns in populations of the world’s smallest goldenrod?, Annals of Botany, doi.org/10.1093/aob/mcaa062
  • Yamada K, Goto-Yamada S, Nakazaki A, Kunieda T, Kuwata K, Nagano AJ, Nishimura M, Hara-Nishimura I, (2020) Endoplasmic reticulum-derived bodies enable a single-cell chemical defense in Brassicaceae plants, Communications Biology, 14;3(1):21.
  • Tsujimoto M, Araki KS, Honjo MN, Yasugi M, Nagano AJ, Akama S, Hatakeyama M, Shimizu-Inatsugi R, Sese J, Shimizu KK, Kudoh H, (2020) Genet assignment and population structure analysis in a clonal forest-floor herb, Cardamine leucantha, using RAD-seq, AoB PLANTS, 12(1) plz080, https://doi.org/10.1093/aobpla/plz080
  • Hirase S, Tezuka A, Nagano AJ, Kikuchi K, Iwasaki W, (2020) Genetic isolation by distance in the yellowfin goby populations revealed by RAD sequencing, Ichthyological Research, 67 (1), 98-104
  • Hirase S, Kokita T, Nagano AJ, Kikuchi K, (2020) Genomic and phenotypic consequences of two independent secondary contact zones between allopatric lineages of the anadromous ice goby Leucopsarion petersii, Heredity, 124 (1), 223-235
  • Park C, Dwiyanti MS, Nagano AJ, Liu B, Yamada T, Abe J, (2019) Identification of quantitative trait loci for increased α-tocopherol biosynthesis in wild soybean using a high-density genetic map, BMC Plant Biology, 19(1):510. doi: 10.1186/s12870-019-2117-z.
  • Tam NT, Dwiyanti MS, Koide Y, Nagano AJ, Ky H, Tin HQ, Hien NL, Dung LV, Kishima Y, (2019) Profiling SNP and Nucleotide Diversity to Characterize Mekong Delta Rice Landraces in Southeast Asian Populations, The Plant Genome, 12(3)
  • Sun F, Xu M, Park C, Dwiyanti MS, Nagano AJ, Zhu J, Watanabe S, Kong F, Liu B, Yamada T, Abe J, (2019) Characterization and quantitative trait locus mapping of late-flowering from a Thai soybean cultivar introduced into a photoperiod-insensitive genetic background, PLoS One, 14(12):e0226116. doi: 10.1371/journal.pone.0226116.
  • Honjo MN, Emura N, Kawagoe T, Sugisaka J, Kamitani M, Nagano AJ, Kudoh H, (2019) Seasonality of interactions between a plant virus and its host during persistent infection in a natural environment, ISME Journal, 14 (2), 506-518
  • Lee JS, Lee BY, Kim MS, Choi BS, Nagano AJ, Takehana Y, (2019) Construction of High-Resolution RAD-Seq Based Linkage Map, Anchoring Reference Genome, and QTL Mapping of the Sex Chromosome in the Marine Medaka Oryzias melastigma, G3: Genes, Genomes, Genetics, 9(11):3537-3545
  • Yoichi W, Minamitani T, Oh S-H, Nagano AJ, Abe H, Yukawa T, (2019) New taxa of Rhododendron tschonoskii alliance (Ericaceae) from East Asia, PhytoKeys, 134, 97
  • Sato Y, Tezuka A, Kashima M, Deguchi A, Shimizu-Inatsugi R, Yamazaki M, Shimizu KK, Nagano AJ, (2019) Transcriptional variation in glucosinolate biosynthetic genes and inducible responses to aphid herbivory on field-grown Arabidopsis thaliana, Frontiers in Genetics, doi: 10.3389/fgene.2019.00787
  • Sutra N, Kusumi J, Montenegro J, Kobayashi H, Fujimoto S, Masengi KWA, Nagano AJ, Toyoda A, Matsunami M, Kimura R, Yamahira K, (2019) Evidence for sympatric speciation in a Wallacean ancient lake, Evolution, doi: 10.1111/evo.13821.
  • Adachi S, Tanaka Y, Miyagi A, Kashima M, Tezuka A, Toya Y, Kobayashi S, Ohkubo S, Shimizu H, Kawai-Yamada M, Sage RF, Nagano AJ, Yamori W, (2019) High-yielding rice Takanari has superior photosynthetic response to a commercial rice Koshihikari under fluctuating light, Journal of Experimental Botany, pii: erz304
  • Tanigaki Y, Higashi T, Takayama K, Nagano AJ, Honjo MN, Tezuka A, Kamitani M, Fukuda H, (2019) Simplification of circadian rhythm measurement using species-independent time-indicated genes, Current Plant Biology, 100118
  • Yamashita H, Katai H, Kawaguchi L, Nagano AJ, Nakamura Y, Morita A, Ikka T, (2019) Analyses of single nucleotide polymorphisms identified by ddRAD-seq reveal genetic structure of tea germplasm and Japanese landraces for tea breeding, PLoS ONE, 14 (8), e0220981
  • Ishikawa A, Kabeya N, Ikeya K, Kakioka R, Cech JN, Osada N, Leal MC, Kume M, Toyoda A, Tezuka A, Nagano AJ, Yamasaki YY, Suzuki Y, Kokita T, Takahashi H, Lucek K, Marques D, Takehana Y, Naruse K, Mori S, Monroig O, Ladd N, Schubert C, Matthews B, Peichel CL, Seehausen O, Yoshizaki G, Kitano J, (2019) A key metabolic innovation enabled freshwater colonization and radiation by marine fish, Science, 364(6443):886-889
  • Tezuka A, Takasu M, Tozaki T, Nagano AJ, (2019) Genetic diversity and relationships between Taishu horses outside and inside of Tsushima Island, Journal of Equine Science, 30(2): 33–40
  • Yamaura Y, Narita A, Kusumoto Y, Nagano AJ, Tezuka A, Okamoto T, Takahara H, Nakamura F, Isagi Y, Lindenmayer D, (2019) Genomic reconstruction of 100,000-year grassland history in a forested country: population dynamics of specialist forbs, Biology Letters, 15(5):20180577
  • Kamitani M, Kashima M, Tezuka A, Nagano AJ, (2019) Lasy-Seq: a high-throughput library preparation method for RNA-Seq and its application in the analysis of plant responses to fluctuating temperatures, Scientific Reports, 9:7091
  • Sato Y, Shimizu-Inatsugi R, Yamazaki M, Shimizu KK, Nagano AJ, (2019) Plant trichomes and a single gene GLABRA1 contribute to insect community composition on field-grown Arabidopsis thaliana, BMC Plant biology, 19:163
  • Koide Y, Uchiyama T, Ota Y, Sakaguchi S, Tezuka A, Nagano AJ, Takamure I, Kishima Y, (2019) Genetic properties responsible for the transgressive segregation of days to heading in rice, G3: Genes, Genomes, Genetics, 9(5), 1655-1662
  • Ogishima M, Horie S, Kimura T, Yamashiro T, Dohzono I, Kawaguchi L, Nagano AJ, Maki M, (2019) Frequent chloroplast capture among Isodon (Lamiaceae) species in Japan revealed by phylogenies based on variation in chloroplast and nuclear DNA, Plant Species Biology, 34 (3), 127-137
  • Fukuda S, Nagano Y, Matsuguma K, Ishimoto K, Hiehata N, Nagano AJ, Tezuka A, Yamamoto T, (2019) Construction of a high-density linkage map for bronze loquat using RAD-Seq, Scientia Horticulturae, 251, 59-64
  • Kubo N, Mimura Y, Matsuda T, Nagano AJ, Hirai N, Higashimoto S, Yoshida H, Uemura N, Fujii T (2019) Classification of tea (Camellia sinensis) landraces and cultivars in Kyoto, Japan and other regions, based on SSR markers and RAD-seq analysis, Genetic Resources and Crop Evolution, 66(2), 441-451
  • Nagano AJ, Kawagoe T, Sugisaka J, Honjo MN, Iwayama K, Kudoh H, (2019) Annual transcriptome dynamics in natural environments reveals plant seasonal adaptation, Nature Plants, 5, 74–83
  • Koeda S, Sato K, Saito H, Nagano AJ, Yasugi M, Kudoh H, Tanaka Y (2019) Mutation in the putative ketoacyl-ACP reductase CaKR1 induces loss of pungency in Capsicum, Theoretical and Applied Genetics, 132(1): 65-80.
  • Fukuda A, Hirose T, Aoki N, Kondo S, Yonekura M, Kataoka T, Ohto C, Nagano AJ (2018) Selection of Transcripts Affecting Initial Growth Rate of Rice Backcrossed Inbred Lines Using RNA Sequencing Data, Frontiers in Plant Science, 9:1880.
  • Tanigaki Y, Higashi T, Nagano AJ, Honjo MN, Fukuda H (2018) Growth and Environmental Change-Independent Genes Associated with Clock Gene TOC1 in Green Perilla, Environmental Control in Biology, 56(4):137-142
  • Kubo N, Mimura Y, Matsuda T, Nagano AJ, Hirai N, Higashimoto S, Yoshida H, Uemura N, Fujii T (2018) Classification of tea (Camellia sinensis) landraces and cultivars in Kyoto, Japan and other regions, based on SSR markers and RAD-seq analysis, Genetic Resources and Crop Evolution, doi: 10.1007/s10722-018-0722-6
  • Ono T, Ohara K, Takenouchi A, Ishikawa A, Kouguchi T, Nagano AJ, Igawa T, Tsudzuki M (2018) Mapping quantitative trait loci for the growth and carcass-related traits of chickens using a restriction-site associated DNA sequence technique, Journal of Poultry Science, doi: 10.2141/jpsa.0180066
  • Ono T, Kouguchi T, Ishikawa A, Nagano AJ, Takenouchi A, Igawa T, Tsudzuki M (2018) Quantitative trait loci mapping for the shear force value in breast muscle of F2 chickens, Poultry Science, doi: 10.3382/ps/pey493.
  • Kamitani M, Nagano AJ, Honjo MN, Kudoh H (2018) A Survey on Plant Viruses in Natural Brassicaceae Communities Using RNA-Seq, Microbial Ecology, doi: 10.1007/s00248-018-1271-4.
  • Hosoya S, Kikychi K, Nagashima H, Onodera J, Sugimoto K, Satoh K, Matsuzaki K, Yasugi M, Tezuka A, Nagano AJ, Kumagayi A, Ueda K, Kurokawa T (2018) Assessment of genetic diversity in Coho salmon (Oncorhynchus kisutch) populations with no family records using ddRAD-seq, BMC Research Note, 11:548.
  • Yasugi M, Tezuka A, Nagano AJ (2018) Stacksbinder: online tool for visualizing and summarizing Stacks output to aid filtering of SNPs identified using RAD sequencing, Conservation Genetics Resources, doi: 10.1007/s12686-018-1050-z
  • Chen YY, Nishii K, Barber S, Hackett C, Kidner CA, Gharbi K, Nagano AJ, Iwamoto A, Moller M (2018) A first genetic map in the genus Streptocarpus generated with RAD sequencing based SNP markers, South African Journal of Botany, 117: 158-168.
  • Kim S, Mochizuki N, Deguchi A, Nagano AJ, Suzuki T, Nagatani A (2018) Auxin Contributes to the Intraorgan Regulation of Gene Expression in Response to Shade, Plant Physiology, 177(2): 847-862.
  • Awazu A, Tanabe T, Kamitani M, Tezuka A, Nagano AJ (2018) Broad distribution spectrum from Gaussian to power law appears in stochastic variations in RNA-seq data, Scientific Reports, 8(1): 8339.
  • Kobayashi H, Haino Y, Iwasaki T, Tezuka A, Nagano AJ, Shimada S (2018) ddRAD-seq based phylogeographic study of Sargassum thunbergii (Phaeophyceae, Heterokonta) around Japanese coast, Marine Environmental Research, doi: 10.1016/j.marenvres.2018.05.021.
  • Kagiya S, Yasugi M, Kudoh H, Nagano AJ, Utsumi S (2018) Does genomic variation in a foundation species predict arthropod community structure in a riparian forest?, Molecular Ecology, 27(5):1284-1295
  • Hanada K, Tezuka A, Nozawa M, Suzuki Y, Sugano S, Nagano AJ, Ito M, Morinaga S-I (2018) Functional divergence of duplicate genes several million years after gene duplication in Arabidopsis, DNA Research, dsy005.
  • Nagano Y, Mimura T, Kotoda N, Matsumoto R, Nagano AJ, Honjo MN, Kudoh H, Yamamoto M (2018) Phylogenetic relationships of Aurantioideae (Rutaceae) based on RAD-Seq, Tree Genetics & Genomes, 14: 6.
  • Takeoka M, Higashi T, Honjo MN, Tezuka A, Nagano AJ, Tanigaki Y, Fukuda H (2018) Estimation of the Circadian Phase by Oscillatory Analysis of the Transcriptome in Plants, Environmental Control in Biology, 56(2): 67-72
  • Sakaguchi S, Horie K, Kimura T, Nagano AJ, Isagi Y, Ito M (2018) Phylogeographic testing of alternative histories of single-origin versus parallel evolution of early flowering serpentine populations of Picris hieracioides L. (Asteraceae) in Japan, Ecological Research, 33: 537.
  • Sakaguchi S, Kimura T, Kyan R, Maki M, Nishino T, Ishikawa N, Nagano AJ, Honjo M, Yasugi M, Kudoh H, Li P, Choi H-J, Chernyagina O, Ito M (2018) Phylogeographic analysis of the East Asian goldenrod (Solidago virgaurea complex, Asteraceae) reveals hidden ecological diversification with recurrent formation of ecotypes, Annals of Botany, 121(3): 489-500.
  • Murata J, Ono E, Yoroizuka S, Toyonaga H, Shiraishi A, Mori S, Tera M, Azuma T, Nagano AJ, Nakayasu M, Mizutani M, Wakasugi T, Yamamoto MP, Horikawa M (2017) Oxidative rearrangement of (+)-sesamin by CYP92B14 co-generates twin dietary lignans in sesame. Nature Communications, 7, 13295
  • Ishikawa T, Kashima M, Nagano AJ, Ishikawa-Fujiwara T, Kamei Y, Todo T, Mori K (2017) Unfolded Protein Response Transducer IRE1-mediated Signaling Independent of XBP1 mRNA Splicing Is Not Required for Growth and Development of Medaka Fish. eLife, 6: e26845
  • Goto S, Kajiya-Kanegae H, Ishizuka W, Kitamura K, Ueno S, Hisamoto Y, Kudoh H, Yasugi M, Nagano AJ, Iwata H (2017) Genetic mapping of local adaptation along the altitudinal gradient in Abies sachalinensis. Tree Genetics & Genomes, 13: 104.
  • Sakaguchi S, Horie K, Ishikawa N, Nagano AJ, Yasugi M, Kudoh H, Ito M (2017) Simultaneous evaluation of the effects of geographic, environmental and temporal isolation in ecotypic populations of Solidago virgaurea. New Phytologist, doi:10.1111/nph.14744
  • Kamitani M, Nagano AJ, Honjo MN, Kudoh H (2017) First report of Pelargonium zonate spot virus from wild Brassicaceae plants in Japan. Journal of General Plant Pathology, 83(5): 329-332
  • Kobayashi M, Ohyanagi H, Takanashi H, Asano S, Kudo T, Kanegae H, Nagano AJ, Tainaka H, Tokunaga T, Sazuka T, Iwata H, Tsutsumi N, Yano K (2017) Heap: a highly sensitive and accurate SNP detection tool for low-coverage high-throughput sequencing data. DNA Research, dsx012
  • Iwayama K, Aisaka Y, Kutsuna N, Nagano AJ (2017) FIT: Statistical modeling tool for transcriptome dynamics under fluctuating field conditions., Bioinformatics, btx049
  • Tanigaki Y, Higashi T, Nagano AJ, Honjo MN, Fukuda H (2017) Transcriptome Analysis of a Cultivar of Green Perilla (Perilla frutescens) Using Genetic Similarity with Other Plants via Public Databases., Environmental Control in Biology, 55(2): 77-83
  • Izuno A, Kitayama K, Onoda Y, Tsujii Y, Hatakeyama M, Nagano AJ, Honjo MN, Shimizu-Inatsugi R, Kudoh K, Shimizu KK, Isagi Y (2017) The population genomic signature of environmental association and gene flow in an ecologically divergent tree species Metrosideros polymorpha (Myrtaceae)., Molecular Ecology, 26(6):1515-1532
  • Kawakatsu Y, Nakayama H, Kaminoyama K, Igarashi K, Yasugi M, Kudoh H, Nagano AJ, Yano K, Kuboh N, Kimura S (2017) A GLABRA1 ortholog on LG A9 controls trichome number in the Japanese leafy vegetables Mizuna and Mibuna (Brassica rapa L. supsp. nipposinica L. H. Bailey): evidence from QTL analysis., Journal of Plant Research, 130(3): 539-550
  • Penjor T, Mimura T, Kotoda N, Matsumoto R, Nagano AJ, Honjo MN, Kudoh H, Yamamoto M, Nagano Y (2016) RAD-Seq analysis of typical and minor Citrus accessions, including Bhutanese varieties., Breeding Science, 66(5): 797-807
  • Hoshino A, Jayakumar V, Nitasaka E, Toyoda A, Noguchi H, Itoh T, Shin-I T, Minakuchi Y, Koda Y, Nagano AJ, Yasugi M, Honjo M, Kudoh H, Seki M, Kamiya A, Shiraki T, Carninci P, Asamizu E, Nishide H, Tanaka S, Park KI, Morita Y, Yokoyama K, Uchiyama I, Tanaka Y, Tabata S, Shinozaki K, Hayashizaki Y, Kohara Y, Suzuki Y, Sugano S, Fujiyama A, Iida S, Sakakibara Y (2016) Genome sequence and analysis of the Japanese morning glory Ipomoea nil., Nature Communications, 7, 13295
  • Kamitani M, Nagano AJ, Honjo MN, Kudoh H (2016) RNA-Seq reveals virus-virus and virus-plant interactions in nature., FEMS Microbiology Ecology, 92(11). pii: fiw176
  • Higashi T, Aoki K, Nagano AJ, Honjo MN, Fukuda H (2016) Circadian Oscillation of the Lettuce Transcriptome under Constant Light and Light-Dark Conditions., Frontiers in Plant Science, 7: 1114
  • Kolar F, Fuxova G, Zaveska E, Nagano AJ, Hyklova L, Lucanova M, Kudoh H, Marhold K (2016) Northern glacial refugia and altitudinal niche divergence shape genome-wide differentiation in the emerging plant model Arabidopsis arenosa., Molecular Ecology, 25(16):3929-49
  • Tamaki H, Mitsuhashi S, Kudoh H, Nagano AJ and Yasugi M (2016) Genome wide Molecular Polymorphisms among Maize (Zea mays L.) Inbred Lines Found from Restriction-Associated DNA Tag Sequencing (RAD-Seq) Analysis as a Preliminary Study on “Genomewide Selection” for Breeding by Japanese Public Sectors., Bulletin of NARO Institute of Livestock and Grassland Science, 16: 1-9.
  • Hagiwara-Komoda Y, Choi SH, Sato M, Atsumi G, Abe J, Fukuda J, Honjo MN, Nagano AJ, Komoda K, Nakahara KS, Uyeda I, Naito S (2016) Truncated yet functional viral protein produced via RNA polymerase slippage implies underestimated coding capacity of RNA viruses., Scientific Reports, 6: 21411.
  • Higashi T, Tanigaki Y, Takayama K, Nagano AJ, Honjo MN, Fukuda H (2016) Detection of diurnal variation of tomato transcriptome through the molecular timetable method in a sunlight-type plant factory., Frontiers in Plant Science, 7: 87.
  • Nishio H, Buzas DM, Nagano AJ, Suzuki Y, Sugano S, Ito M, Morinaga S-I, Kudoh H (2016) From the laboratory to the field: assaying histone methylation at FLOWERING LOCUS C in naturally growing Arabidopsis halleri, Genes & Genetic Systems, 91(1):15-26
  • Kawamura K, Kawanabe T, Shimizu M, Nagano AJ, Saeki N, Okazaki K, Kaji M, Dennis ES, Osabe K, Fujimoto R (2016) Genetic distance of inbred lines of Chinese cabbage and its relationship to heterosis., Plant Gene, 5: 1-7.
  • Tanigaki Y, Higashi T, Takayama K, Nagano AJ, Fukuda H (2015) Transcriptome analysis of plant hormone-related tomato (Solanum lycopersicum) genes in a sunlight-type plant factory., PLoS ONE, 10(12): e0143412.
  • Sakaguchi S, Sugino T, Tsumura Y, Ito M, Crisp MD, Bowman DMJS, Nagano AJ, Honjo MN, Yasugi M, Kudoh H, Matsuki Y, Suyama Y, Isagi Y (2015) High-throughput linkage mapping of Australian white cypress pine (Callitris glaucophylla) and map transferability to related species., Tree Genetics & Genomes, 11: 121.
  • Hirao K, Nagano AJ, Awazu A (2015) Noise-plasticity correlations of gene expression in the multicellular organism Arabidopsis thaliana., Journal of Theoretical Biology, 387:13-22
  • Kubota S, Iwasaki T, Hanada K, Nagano AJ, Fujiyama A, Toyoda A, Sugano S, Suzuki Y, Hikosaka K, Ito M, Morinaga S (2015) A Genome Scan for Genes Underlying Microgeographic-Scale Local Adaptation in a Wild Arabidopsis Species., PLoS Genetics, 14;11(7):e1005361.
  • Ushio M, Yamasaki E, Takasu H, Nagano AJ, Fujinaga S, Honjo NM, Ikemoto M, Sakai S, Kudoh H, (2015) Microbial Communities on Flower Surfaces Act as Signatures of Pollinator Visitation., Scientific Reports, 5: 8695.
  • Nagano AJ, Honjo NM, Mihara M, Sato M, Kudoh H, (2015) Detection of Plant Viruses in Natural Environments by Using RNA-Seq., Methods in Molecular Biology, 1236: 89-98.
  • Shirakawa M, Ueda H, Nagano AJ, Shimada T, Hara-Nishimura I, (2014) FAMA Is an Essential Component Differentiation of Two Distinct Cell Types, Myrosin Cells, in Arabidopsis, Plant Cell, 26(10):4039-52.
  • Mochizuki K, Nagano AJ, Kudoh H, Kawakita A, (2014) Isolation and Characterization of 11 Microsatellite Markers for Glochidion acuminatum (Phyllanthaceae), Applications in Plant Sciences, 2 (9):1400045.
  • Satoh M, Tokaji Y, Nagano AJ, Hara-Nishimura Nishimura M, Ohta H, Masuda S, (2014) Arabidopsis affecting oxylipin signaling in photo-oxidative stress. Physiology and Biochemistry, 81: 90-95.
  • Yamada K, Nagano AJ, Nishina M, Hara-Nishimura I, Nishimura, M, (2013) Identification of Two Novel Endoplasmic Reticulum Body-Specific Integral Membrane Proteins., Plant Physiology, 161(1): 108-20.
  • Nagano AJ, Sato Y, Mihara M, Antonio BA, Motoyama R, Itoh H, Nagamura Y, Izawa, T, (2012) Deciphering and Prediction of Transcriptome Dynamics under Fluctuating Field Conditions, Cell, 51(6):1358-69.
  • Nakano RT, Matsushima R, Nagano AJ, Fukao Y, Fujiwara M, Kondo M, Nishimura M, Hara-Nishimura I, (2012) ERMO3/MVP1/GOLD36 Is Involved in a Cell Type-Specific Mechanism for Maintaining ER Morphology in Arabidopsis thaliana, PLoS ONE, 7(11): e49103.
  • Nagano AJ, Tsuchimatsu T, Okuyama Y, Hara-Nishimura I, (2012), Bimodal Expression Level Polymorphisms in Arabidopsis thaliana, Plant Signaling & Behavior, 7(7): 864-73.
  • Izawa T, Mihara M, Suzuki Y, Gupta M, Itoh H, Nagano AJ, Motoyama R, Sawada Y, Yano M, Hirai MY, Makino A, Nagamura, Y, (2011), Os-GIGANTEA Confers Robust Diurnal Rhythms on the Global Transcriptome of Rice in the Field, Plant Cell, 23(5): 1741-55.

総説・解説等

  • Satake A, Hagiwara T, Nagano AJ, Yamaguchi N, Sekimoto K, Shiojiri K, Sudo K, (2024) Plant Molecular Phenology and Climate Feedbacks Mediated by BVOCs, Annual Review of Plant Biology, 75
  • 永野 惇,「田んぼのイネの気持ちを知りたい - 野外環境応答を遺伝子発現から網羅的にとらえる」, (2023), 科学, 93 (4), 350-353
  • 永野 惇,「野外トランスクリプトームからイネの環境応答を見る」, (2020), 作物研究, 65:73-75
  • 山本 雅也, 池松 朱夏, 永野 惇, 三村 真生, 深井 英吾,「植物の生殖と環境・ストレス」, (2020), 育種学研究, 22(1), 62-67
  • 粟津 暁紀, 永野 惇,「遺伝子発現の確率性：ばらつきの特徴・背景・機能との関係」, (2019), BSJ-Review, 10A:3-13
  • 神谷 麻梨, 永野 惇, 本庄 三恵, 工藤 洋,「野生植物とウイルスの見えない相互作用をRNA-Seqで観る」, (2017), BSJ-Review, 8A:12-21
  • 宅見 薫雄, 吉田 健太郎, 水野 信之, 小林 史典, 永野 惇, 半田 裕一, 「高速シークエンサーを活用したコムギゲノム研究の新展開」, (2016), 育種学研究, 18(2), 78-84
  • 岩田 洋佳, 平藤 雅之, 永野 惇, 澤田 有司, Scott Chapman, 「作物環境応答の網羅的計測とモデリング～その育種への活用～」, (2015), 育種学研究, 17(2), 57-63
  • 永野 惇, 「野外でのトランスクリプトーム解析から見えること」, (2014), 植物の生長調節, 49(2), 137-42
  • 永野 惇, 工藤 洋, 「野外の環境における生物の環境応答の理解にむけて：トランスクリプトームデータと気象データの統合」, (2014), ライフサイエンス領域融合レビュー, 3, e009
  • 永野 惇, 「フィールド・トランスクリプトミクスから30年後の生物学を考える」, (2013), 光合成研究, 23(3): 129-35.

著書

  • 永野 惇「野外トランスクリプトームの定量生物学」In 小林 徹也 （編）,「定量生物学」, (2018), 化学同人
  • 永野 惇「稲妻」In 「広辞苑を3倍楽しむ その2 (岩波科学ライブラリー)」, (2018), 岩波書店
  • 工藤 洋, 永野 惇, 「開花季節の調節における気温の記憶：気象と分子生物学から見た生物機能の頑健性」, In 新田 梢, 陶山 佳久 （編）, 「生物時計の生態学」, (2015), 151-169, 文一総合出版
  • Kudoh H and Nagano AJ, Memory of temperature in the seasonal control of flowering time: an unexplored link between meteorology and molecular biology. In Pontarotti P. ed. Evolutionary Biology: Exobiology and Evolutionary Mechanisms, (2013) Springer：195-215.
  • 永野 惇, 森長 真一 （責任編集）, 「ゲノムが拓く生態学 -遺伝子の網羅的解析で迫る植物の生きざま-」, (2011), 文一総合出版
  • 永野 惇, 「実験室と野外のすきまとその組織化」, In 鳥海 光弘 （編）, 「すきまの組織化」, (2011), 国際高等研究所学術出版
  • 永野 惇, 桧垣 匠 （文）, 西村 幹夫, 三村 徹郎, 西村 いくこ, 真野 昌二 （監修）, 「Photobook 植物細胞の知られざる世界」, (2010), 化学同人

呉 迪

原著論文（査読付き）

  • Suzuki K, Wu D*, Kitajima K, Yamakawa N, Omoto T, Hane M, Sato C. 2025. Development of a permethylation-based detection method for oligo/polysialic acid structures via tandem MALDI-TOF mass spectrometry. BBA Adv. 7:100155. *These authors contributed equally to this work.
  • Omoto, T., Yamakawa, N., Wu, D., Mori, H., Takeda, U., Hane, M., Kitajima, K., & Sato, C. 2025. An enhanced dual detection of DMB-labeled sialic acids using high-resolution accurate mass spectrometry and fluorescence detection. BBA Adv, 7, 100152. https://doi.org/10.1016/j.bbadva.2025.100152
  • Takayuki Omoto, Di Wu, Emi Maruyama, Katsue Tajima, Masaya Hane, Chihiro Sato, and Ken Kitajima (2023) Forced expression of α2,3-sialyltransferase IV rescues impaired heart development in α2,6- sialyltransferase I-deficient medaka. Biochem Biophys Res Commun. 649:62-70. doi: 10.1016/j.bbrc.2023.01.010.
  • Bo Fu, Di Wu, Shigeki Yasumasu, Masaya Hane, Chihiro Sato, Ken Kitajima (2023) Critical Role of the Cortical Alveolus Protease Alveolin in Chorion Hardening In Vivo at Medaka Fertilization. Biomolecules. 13(1):146. doi: 10.3390/biom13010146.
  • Takahiro Nakagawa , Yuya Iwaki, Di Wu , Masaya Hane , Chihiro Sato, Ken Kitajima (2023) Identification and characterization of a deaminoneuraminic acid (Kdn)-specific aldolase from Sphingobacterium species. Glycobiology. 33(1):47-56. doi: 10.1093/glycob/cwac053.
  • Shiori Go, Chihiro Sato, Masaya Hane, Shinji Go, and Ken Kitajima (2022)
    Implication of N-glycolylneuraminic acid in regulation of cell adhesiveness of C2C12 myoblast cells during differentiation into myotube cells. Glycoconjugate Journal . 39(5):619-631.doi: 10.1007/s10719-022-10049-9.
  • Rina Hatanaka, Erino Araki, Masaya Hane, Shiori Go, Wu Di, Ken Kitajima, Chihiro Sato (2022)
    The α2,8-sialyltransferase 6 (St8sia6) localizes in the ER and enhances the anchorage-independent cell growth in cancer. Biochemical and Biophysical Research Communications. 608:52-58. doi: https://doi.org/10.1016/j.bbrc.2022.03.146
  • Araki E**, Hane M**, Hatanaka R, Kimura R, Tsuda K**, Wu D, Komura N, Ando H, Kitajima K, Sato C. (2022) Analysis of biochemical features of ST8 α‐N‐acetyl‐neuraminide α2,8‐sialyltransferase (St8sia) 5 isoforms. Glycoconjugate Journal . 39:291-302 (doi: 10.1007/s10719-021-10034-8).
  • Takahashi Y, Abe C**, Hane M**, Wu D, Kitajima K, Sato C. (2022) Polysialylation in DISC1-mutant mouse. Int J Mol Sci . 23:5207 (doi: 10.3390/ijms23095207).
  • Di Wu, PierreAndré Gilormini, Sakura Toda, Christophe Biot, Cédric Lion, Yann Guérardel, Chihiro Sato, Ken Kitajima (2022) A novel C-domain-dependent inhibition of the rainbow trout CMP-sialic acid synthetase activity by CMP-deaminoneuraminic acid. Biochemical and Biophysical Research Communications. 617: 16-21. doi: https://doi.org/10.1016/j.bbrc.2022.05.031
  • Magerd S, Senarai T, Thongsum O, Chawiwithaya C, Sato C, Kitajima K, Weerachatyanukul W, Asuvapongpatana S, Surinlert P (2022) Shrimp thrombospondin (TSP): presence of O-β1,4 N-acetylglucosamine polymers and its function in TSP chain association in egg extracellular matrix. Sci Rep. 12:7925. doi: 10.1038/s41598-022-11873-7
  • Wu D, Fujita A, Hamaguchi K, Delannoy P, Sato C, Kitajima K. (2017) Diverse subcellular localizations of the insect CMP-sialic acid synthetases. Glycobiology, 27: 329-341.
  • Jiang YY, Huang H, Wang HJ, Wu D, Yang R, Tashiro S, Onodera S, Ikejima T. (2011) Interruption of mitochondrial complex IV activity and cytochrome c expression activated O-mediated cell survival in silibinin-treated humanmelanomaA375-S2 cells via IGF-1R-PI3K-Akt and IGF-1R-PLCγ-PKCpathways. Eur J Pharmacol. 668(1-2), 78-87.
  • Jiang YY, Yang R, Wang HJ, Huang H, Wu D, Tashiro SI, Onodera S, Ikejima T. (2011) Mechanism of autophagy induction and role of autophagy in antagonizing mitomycin C-induced cell apoptosis in silibinin treated humanmelanomaA375-S2 cells. Eur J Pharmacol. 659(1), 7-14.
  • Zhang Y, Wu Y, Wu D, Tashiro S, Onodera S, Ikejima T.(2009) NF-kb facilitates oridonin-induced apoptosis and autophagy in HT1080 cells through a p53-mediated pathway. Arch Biochem Biophys. 489(1-2), 25-33.

総説・解説等

  • Di Wu, Ken Kitajima (2022) 267. Enzyme assay of sialic acid 9-phosphate synthase (SPS). in GlycoPOD (Japan Consortium for Glycobiology and Glycotechnology, Ed.) in press.
  • Di Wu, Takahiro Nakagawa*, Ken Kitajima (2022) 269. Enzyme assay of sialate-pyruvate lyase (SPL). in GlycoPOD (Japan Consortium for Glycobiology and Glycotechnology, Ed.) in press.
  • Di Wu, Ken Kitajima (2022) 270. Enzyme assay of CMP-Sialic acid synthetase (CMAS). in GlycoPOD (Japan Consortium for Glycobiology and Glycotechnology, Ed.) in press.