Publications
2025
Original Papers
Kawade, K., Nozaki, M., Horiguchi, G., Mori, T., Yamaguchi, K., Okamoto, M., Tabeta, H., Shigenobu, S., Hirai, M.Y. and Tsukaya, H.(2025) Loss-of-functional mutation in ANGUSTIFOLIA3 causes leucine hypersensitivity and hypoxia response during
Arabidopsis thaliana seedling growth.
Metabolomics. 21:46. DOI:10.1007/s11306-025-02249-9.
Abstract
Yoshioka, H., Mary-Huard, T., Aubert, J., Toda, Y., Ohmori, Y., Yamasaki, Y., Tsujimoto, H., Takahashi, H., Nakazono, M., Takanashi, H., Fujiwara, T., Tsuda, M., Kaga, A., Inaba, J., Fuji, Y., Hirai, M.Y., Nose, Y., Kumaishi, K., Usui, E., Kobori, S., Sato, T., Narukawa, M., Ichihashi, Y. and Iwata, H. (2025) Integration of Proxy Intermediate Omics traits into a Nonlinear Two-Step model for accurate phenotypic prediction.
bioRxiv 18:2. DOI:10.1101/2025.03.14.643213.
Abstract
Osuga, Y., Harada, K., Yamauchi, T., Kitaguchi, T., Hirai, M.Y., Matsumoto, M. and Tsuboi, T. (2025) Taurine promotes glucagon-like peptide-1 secretion in enteroendocrine L cells.
FEBS Lett. DOI:10.1002/1873-3468.70014.
Abstract
Kim, J.-S., Sato, M., Kojima, M., Asrori, M.I., Uehara-Yamaguchi, Y., Takebayashi, Y., Do, T.N., Do, T.Y., Nguyen Thi, K.O., Sakakibara, H., Mochida, K., Ogita, S. and Hirai, M.Y.(2025) Multiomics-based assessment of the impact of airflow on diverse plant callus cultures.
Sci Data. 12:197. DOI:10.1038/s41597-025-04518-7.
Abstract
Harada, K., Wada, E., Osuga, Y., Shimizu, K., Uenoyama, R., Hirai, M.Y., Maekawa, F., Miyazaki, M., Hayashi, Y.K., Nakamura, K. and Tsuboi, T. (2025) Intestinal butyric acid-mediated disruption of gut hormone secretion and lipid metabolism in vasopressin receptor-deficient mice.
Mol Metab. 91:102072. DOI:10.1016/j.molmet.2024.102072.
Abstract
Zhao, X., Su, H., Kong, X., Hirai, M.Y., Yan, X., Li, R. and Li, J. (2025) Overexpression of BoSULTR1;1/BoSULTR1;2 promotes glucosinolate accumulation and enhances stress tolerance in broccoli.
Sci. Hortic. 339. DOI:10.1016/j.scienta.2024.113883.
Abstract
Okamoto, T., Hotta, Y., Shinjo, R., Masuda, Y., Nishihara, A., Sasaki, R., Hirai, M.Y., Nishiwaki, R., Miyado, S., Sugiura, D. and Kondo, M. (2025) Unelongated Stems are an Active Nitrogen-Fixing Site in Rice Stems Supported by Both Sugar and Methane Under Low Nitrogen Conditions.
Rice 18:2. DOI:10.1186/s12284-025-00757-9.
Abstract
Harada, K., Wada, E., Osuga, Y., Shimizu, K., Uenoyama, R., Hirai, M.Y., Maekawa, F., Miyazaki, M., Hayashi, Y.K., Nakamura, K. and Tsuboi, T. (2025) Intestinal butyric acid-mediated disruption of gut hormone secretion and lipid metabolism in vasopressin receptor-deficient mice.
Mol Metab. 91:102072. DOI:10.1016/j.molmet.2024.102072.
Abstract
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2024
Editorial
Mitsuda, N., Seki, H., Shoji, T., and Hirai, M.Y. (2024) Preface to the special issue “Synthetic Biology and Bioproduction in Plants”,
Plant Biotechnology 41: 169-171.
LINK
Li-Beisson, Y., Hirai, M.Y., Nakamura, Y. (2024) Plant metabolomics. Journal of Experimental Botany 75: 1651–1653.
LINK
Original Papers
Dang, T., Fuji, Y., Kumaishi, K., Usui, E., Kobori, S., Sato, T., Toda, Y., Sakurai, K., Yamasaki, Y., Tsujimoto, H., Hirai, M.Y., Ichihashi, Y. and Iwata, H. (2024) I-SVVS: Integrative stochastic variational variable selection to explore joint patterns of multi-omics microbiome data
bioRxiv. DOI: 10.1101/2023.08.18.553796
Abstract
Uchida, K., Fuji, Y., Tabeta, H., Akashi, T. and Hirai, M.Y. (2024) Omics-based Identification of the Broader Effects of 2-hydroxyisoflavanone Synthase Gene Editing on a Gene Regulatory Network Beyond Isoflavonoid Loss in Soybean Hairy Roots
Plant Cell Physiol.. DOI: 10.1093/pcp/pcae151
Abstract
Okada, M., Barras, C., Toda, Y., Hamazaki, K., Ohmori, Y., Yamasaki, Y., Takahashi, H., Takanashi, H., Tsuda, M. and Hirai, M.Y. , et al.(2024) High-Throughput Phenotyping of Soybean Biomass: Conventional Trait Estimation and Novel Latent Feature Extraction Using UAV Remote Sensing and Deep Learning Models,
Plant Phenomics. 2024;6:0244, DOI: 10.34133/plantphenomics.0244.
Abstract
Fuji, Y., Matsufuji, H. and Hirai, M.Y. (2024) Distribution, biosynthesis, and synthetic biology of phenylethanoid glycosides in the order Lamiales,
Plant Biotechnology. 41: 231-241, DOI: 10.5511/plantbiotechnology.24.0720a.
Abstract
Kim, J.-S., Sato, M., Kojima, M., Asrori,M.I., Uehara-Yamaguchi, Y., Takebayashi, Y., Do, T.N., Do, T.Y., Nguyen, K.-O.T., Sakakibara, H., Mochida, K., Ogita, S. and Hirai, M.Y. (2024) Multi-omics signatures of diverse plant callus cultures,
Plant Biotechnology. 41: 309-314, DOI: 10.5511/plantbiotechnology.24.0719a.
Abstract
Ishii, K., Kazama, Y., Hirano, T., Fawcett, J.A., Sato, M., Hirai, M.Y., Sakai, F., Shirakawa, Y., Ohbu, S. and Abe, T.(2024) Genomic view of heavy-ion-induced deletions associated with distribution of essential genes in
Arabidopsis thaliana.
Front Plant Sci.. 15:1352564. DOI: 10.3389/fpls.2024.1352564.
Abstract
Tabeta, H. and Hirai, M.Y.(2024)
L-2-Aminopimelic acid acts as an auxin mimic to induce lateral root formation across diverse plant species.
FEBS Letters. DOI:10.1002/1873-3468.14908
Abstract
Nguyen, P.N., Do, T.Y., Do, T.N., Gontier, E., Nguyen, H.T.L., Thi, V.A.L., Mai, N.T.P., Sato, M., Hirai, M.Y. and Nguyen, K.-O.T.(2024) Widely targeted metabolomics reveals the species-specific, matureness-specific and post-harvest-specific discriminations in the chemical profiles of Vietnamese endemic golden camellias.
Int J Food Sci Technol. DOI:10.1111/ijfs.17071
Abstract
Uzaki, M., Mori, T., Sato, M., Wakazaki, M., Takeda-Kamiya, N., Yamamoto, K., Murakami, A., Guerrero, D.A.S., Shichijo, C., Ohnishi, M., Ishizaki, K., Fukaki, H., O'Connor, S.E., Toyooka, K., Mimura, T. and Hirai, M.Y.(2024) Integration of cell differentiation and initiation of monoterpenoid indole alkaloid metabolism in seed germination of
Catharanthus roseus. New Phytol. DOI:10.1111/nph.19662
Abstract
Miyaji, S., Ito, T., Kitaiwa, T., Nishizono, K., Agake, S.-I., Harata, H., Aoyama, H., Umahashi, M., Sato, M., Inaba, J., Fushinobu, S., Yokoyama, T., Murayama-Nakashita, A.,
Hirai, M.Y. and Ohkama-Ohtsu, N.(2024) N
2-Acetylornithine deacetylase functions as a Cys-Gly dipeptidase in the cytosolic glutathione degradation pathway in Arabidopsis thaliana
Plant J.. DOI: 10.1111/tpj.16700.
Abstract
Wang, M., Tabeta, H., Ohtaka, K., Kuwahara, A., Nishihama, R., Ishikawa, T., Toyooka, K., Sato, M., Wakazaki, M., Akashi, H., Tsugawa, H., Shoji, T., Okazaki, Y., Yoshida, K., Sato, R., Ferjani, A., Kohchi, T., Hirai, M.Y. (2024) The phosphorylated pathway of serine biosynthesis affects sperm, embryo, and sporophyte development, and metabolism in Marchantia polymorpha.
Commun Biol. DOI: 10.1038/s42003-023-05746-6.
Abstract
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2023
Editorial
Hirai, M.Y., Mizutani, M. and Nakamura, Y.(2023) Revisiting Plant Metabolite Functions.
Plant Cell Physiol.,DOI:10.1093/pcp/pcad155.
LINK
Original Papers
Horikoshi, M., Harada, K., Tsuno, S., Kitaguchi, T., Hirai, M.Y., Matsumoto, M., Terada, S. and Tsuboi, T.(2023)Distinct lactate metabolism between hepatocytes and myotubes revealed by live cell imaging with genetically encoded indicators.
Biochem Biophys Res Commun.,DOI:10.1016/j.bbrc.2023.149416.
Abstract
Nguyen, K.-O.T., Do, T.-N, Dang, K.-P., Sato, M. and Hirai, M.Y.(2023)Single-grain-based widely targeted metabolomics profiling of sixty-four accessions of Japanese wild soybean (
Glycin soja Sieb. Et Zucc.).
IFST.,DOI:10.1111/ijfs.16654.
Abstract
Tsuno, S., Harada, K., Horikoshi.M., Mita, M., Kitaguchi, T., Hirai, M.Y., Matsumoto, M. and Tsuboi, T.(2023) Mitochondrial ATP concentration decreases immediately after glucose administration to glucose-deprived hepatocytes.
FEBS Open Bio.,DOI:10.1002/2211-5463.13744.
Abstract
Kawade, K., Tabeta, H., Ferjani, A. and Hirai, M.Y.(2023) The Roles of Functional Amino Acids in Plant Growth and Development.
Plant Cell Physiol.,DOI:10.1093/pcp/pcad071.
Abstract
Uchida, K., Kim, J.S., Sato, M., Tabeta, H., Mochida, K. and Hirai, M.Y.(2023) A metabolome genome-wide association study implicates histidine N-pi-methyltransferase as a key enzyme in N-methylhistidine biosynthesis in Arabidopsis thaliana.
Front. Plant Sci.,DOI:10.3389/fpls.2023.1201129.
Abstract
Fuji, Y., Uchida, K., Akashi, T., Ohtsuki, T., Matsufuji, H. and Hirai, M.Y.(2023) Molecular Identification of UDP-Sugar Dependent Glycosyltransferase and Acyltransferase Involved in the Phenylethanoid Glycoside Biosynthesis Induced by Methyl Jasmonate in Sesamum indicum L.
Plant Cell Physiol.,DOI:10.1093/pcp/pcad053.
Abstract
Miyamoto, H., Shigeta, K., Suda, W., Ichihashi, Y., Nihei, N., Matsuura, M., Tsuboi, A., Tominaga, N., Aono, M., Sato, M., Taguchi, S., Nakaguma, T., Tsuji, N., Ishii, C., Matsushita, T., Shindo, C., Ito, T., Kato, T., Kurotani, A., Shima, H., Moriya, S., Wada, S., Horiuchi, S., Satoh, T., Mori, K., Nishiuchi, T., Miyamoto, H., Kodama, H., Hattori, M., Ohno, H., Kikuchi, K. and Hirai, M.Y.(2023) An agroecological structure model of compost—soil—plant interactions for sustainable organic farming.
ISME Commun,DOI:10.1038/s43705-023-00233-9.
Abstract
Uchida, K. and Hirai, M.Y.(2023) A simple method for creating transgenic pea hairy roots using a Japanese pea cultivar and a Japanese Rhizobium radiobacter strain.
Plant Biotechnol., DOI:10.5511/plantbiotechnology.22.1219c
Abstract
Tojo, H., Tabeta, H., Gunji, S., Hirai, M.Y., David, P., Javot, H. and Ferjani, A.(2023). Roles of type II H+-PPases and PPsPase1/PECP2 in early developmental stages and PPi homeostasis of
Arabidopsis thalianaFront. Plant Sci., 14:1031426., DOI:10.3389/fpls.2023.1031426
Abstract
Tabeta, H., Gunji, S., Kawade, K. and Ferjani, A.(2023). Leaf-size control beyond transcription factors: Compensatory mechanisms
Front. Plant Sci., 13:1024945., DOI:10.3389/fpls.2022.1024945
Abstract
Toyooka, K., Goto,Y., Hashimoto, K., Wakazaki, M., Sato, M. and Hirai, M.Y.(2023) Endoplasmic Reticulum Bodies in the Lateral Root Cap are Involved in the Direct Transport of Beta-Glucosidase to Vacuoles.
Plant and Cell Physiology, pcac177, DOI:10.1093/pcp/pcac177
Abstract
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