Research Results - Research planning group

*Corresponding author, #These authors contributed equally to this work.
Underlines denote the study representative, and dotted underlines denote research team members

Research planning group

Kinoshita Group

  • -2019-
    Original papers
    #Aoki, S., #Toh, S., Nakamichi, N., Hayashi, Y., Wang, Y., Suzuki, T., Tsuji, H., and *Kinoshita, T. (2019) Regulation of stomatal opening and histone modification by photoperiod in Arabidopsis thaliana. Sci. Rep., 9, 10054 (9 pages).
    https://www.nature.com/articles/s41598-019-46440-0
    #Uehara, T. N., #Mizutani, Y., Kuwata, K., Hirota, T., Sato, A., Mizoi, J., Takao, S., Matsuo, H., Suzuki, T., Ito, S., Saito, A. N., Nishiwaki-Ohkawa, T., Yamaguchi-Shinozaki, K., Yoshimura, T,. Kay, S. A., Itami, K., Kinoshita, T., *Yamaguchi, J., and *Nakamichi, N. (2019) Casein kinase 1 family regulates PRR5 and TOC1 in the Arabidopsis circadian clock. Proc. Natl. Acad. Sci. U.S.A., 116, 11528-11536.
    https://doi.org/10.1073/pnas.1903357116
    *#Minami, A., #Takahashi, K., Inoue, S., Tada, Y., and Kinoshita, T. (2019) Brassinosteroid induces phosphorylation of the plasma membrane H+-ATPase during hypocotyl elongation in Arabidopsis thaliana. Plant Cell Physiol., 60, 935-944.
    https://academic.oup.com/pcp/article/60/5/935/5289540
    Toda, Y., Kudo, T., Kinoshita, T., and *Nakamichi, N. (2019) Evolutionary insight into the clock-associated PRR5 transcriptional network of flowering plants. Sci. Rep., 9, 2983 (14 pages).
    https://www.nature.com/articles/s41598-019-39720-2
    Oochi, A., Hajny, J., Fukui, K., Nakao, Y., Gallei, M., Quareshy, M., Takahashi, K., Kinoshita, T., Harborough, S. R., Kepinski, S., Kasahara, H., Napier, R., Friml, J., and *Hayashi, K. (2019) Pinstatic acid promotes auxin transport by inhibiting PIN internalization. Plant Physiol., 180, 1152-1165.
    http://www.plantphysiol.org/content/180/2/1152
    Tanaka-Takada, N., Kobayashi, A., Takahashi, H., Kamiya, T., Kinoshita, T., and *Maeshima, M. (2019) Plasma membrane-associated Ca2+-binding protein PCaP1 is involved in root hydrotropism of Arabidopsis thaliana. Plant Cell Physiol., 60, 1331-1341.
    https://doi.org/10.1093/pcp/pcz042
    Asaoka, M., Inoue, S., Gunji, S., Kinoshita, T., Maeshima, M., Tsukaya, H., and *Ferjani, A. (2019) Excess pyrophosphate within guard cells delays stomatal closure. Plant Cell Physiol., 60, 875-887.
    https://doi.org/10.1093/pcp/pcz002
    Ando, E. and *Kinoshita, T. (2019) Fluence rate dependence of red light-induced phosphorylation of plasma membrane H+-ATPase in stomatal guard cells. Plant Signal. Behav., 14, 1561107.
    https://doi.org/10.1080/15592324.2018.1561107
    #Motomura, K., #Arae, T., Uramoto, H. A., Suzuki, Y., Takeuchi, H., Suzuki, T., Ichihashi, Y., Shibata, A., Shirasu, K., Takeda, A., Higashiyama, T., and *Chiba, Y. (2019) AtNOT1 is a novel regulator of gene expression during pollen development. Plant Cell Physiol., in press.
    https://doi.org/10.1093/pcp/pcz235
    *Rymen, B., Kawamura, A., Lambolez, A., Inagaki, S., Takebayashi, A., Iwase, A., Sakamoto, Y., Sako, K., Favero, D. S., Ikeuchi, M., Suzuki, T., Seki, M., Kakutani, T., Roudier, F., and *Sugimoto, K. (2019) Histone acetylation orchestrates wound-induced transcriptional activation and cellular reprogramming in Arabidopsis. Commun. Biol., 2, 404 (15 pages).
    https://www.nature.com/articles/s42003-019-0646-5
    Sato, H., Suzuki, T., Takahashi, F., Shinozaki, K, and *Yamaguchi-Shinozaki, K. (2019) NF-YB2 and NF-YB3 have functionally diverged and differentially induce drought and heat stress-specific genes. Plant Physiol., 180, 1677-1690.
    https://doi.org/10.1104/pp.19.00391
    Hirakawa, T., Kuwata, K., Gallego, M. E., White, C. I., Nomoto, M., Tada, Y., and *Matsunaga, S. (2019) LSD1-LIKE1-mediated H3K4me2 demethylation is required for homologous recombination repair. Plant Physiol., 181, 499-509.
    http://www.plantphysiol.org/content/181/2/499
  • -2018-
    Original papers
    Ando, E. and *Kinoshita, T. (2018) Red light-induced phosphorylation of plasma membrane H+-ATPase in stomatal guard cells. Plant Physiol., 178, 838-849.
    http://www.plantphysiol.org/content/178/2/838
    *Kinoshita, T., *McCourt, P., Asami, T., and *Torii, K. U. (2018) Plant chemical biology. Plant Cell Physiol., 59, 1483-1486.
    https://academic.oup.com/pcp/article/59/8/1483/5056048
    Yamada, R., Murai, K., Uchida, N., Takahashi, K., Iwasaki, R., Tada, Y., Kinoshita, T., Itami, K., *Torii, K. U., and *Hagihara, S. (2018) A super strong engineered auxin-TIR1 pair. Plant Cell Physiol., 59, 1538-1544.
    https://doi.org/10.1093/pcp/pcy127
    *#Nishimura, N., #Tsuchiya, W., Moresco, J. J., Hayashi, Y., Satoh, K., Kaiwa, N., Irisa, T., Kinoshita, T., Schroeder, J. I., Yates, III J. R., Hirayama, T., and Yamazaki, T. (2018) Control of seed dormancy and germination by DOG1-AHG1 PP2C phosphatase complex via binding to heme. Nature Commun., 9, 2132 (14 pages).
    https://www.nature.com/articles/s41467-018-04437-9
    *Uraguchi, D., Kuwata, K., Hijikata, Y., Yamaguchi, R., Imaizumi, H., Am, S., Rakers, C., Mori, N., Akiyama, K., Irle, S., McCourt, P., Kinoshita, T., *Ooi, T., and *Tsuchiya, Y. (2018) A femtomolar-range suicide germination stimulant for the parasitic plant Striga hermonthica. Science, 362, 1301-1305.
    http://science.sciencemag.org/content/362/6420/1301
    Yoshimura, M., Sato, A., Kuwata, K., Inukai, Y., Kinoshita, T., Itami, K., *Tsuchiya, Y., and *Hagihara, S. (2018) Discovery of shoot branching regulator targeting strigolactone receptor DWARF14. ACS Cent. Sci., 4, 230-234.
    https://pubs.acs.org/doi/full/10.1021/acscentsci.7b00554
    Toh, S., Inoue, S., Toda, Y., Yuki, T., Suzuki, K., Hamamoto, S., Fukatsu, K., Aoki, S., Uchida, M., Asai, E., Uozumi, N., Sato, A., and *Kinoshita, T. (2018) Identification and characterization of compounds that affect stomatal movements. Plant Cell Physiol., 59, 1568-1580.
    https://academic.oup.com/pcp/article/59/8/1568/4950858
    #Uchida, N., #Takahashi, K., Iwasaki, R., Yamada, R., Yoshimura, M., Endo, T. A., Kimura, S., Zhang, H., Nomoto, M., Tada, Y., Kinoshita, T., Itami, K., *Hagihara, S., and *Torii, K. U. (2018) Chemical hijacking of auxin signaling with an engineered auxin-TIR1 pair. Nature Chem. Biol., 14, 299-305.
    https://www.nature.com/articles/nchembio.2555
    *Sato, H., Takasaki, H., Takahashi, F., Suzuki, T., Iuchi, S., Mitsuda, N., Ohme-Takagi, M., Ikeda, M., Seo, M., Yamaguchi-Shinozaki, K., and *Shinozaki, K. (2018) Arabidopsis thaliana NGATHA1 transcription factor induces ABA biosynthesis by activating NCED3 gene during dehydration stress. Proc. Natl. Acad. Sci. U.S.A., 115, E11178-E11187.
    http://www.pnas.org/content/115/47/E11178.full
    #Kadokura, S., *#Sugimoto, K., Tarr, P., Suzuki, T., and *Matsunaga, S. (2018) Characterization of somatic embryogenesis initiated from the Arabidopsis shoot apex. Dev. Biol., 442, 13-27.
    https://www.sciencedirect.com/science/article/pii/S0012160617308023
    Sato, K., Kadota, Y., Gan, P., Bino, T., Uehara, T., Yamaguchi, K., Ichihashi, I., Maki, N., Iwahori, H., Suzuki, T., *Shigenobu, S., and *Shirasu, K. (2018) High-quality genome sequence of the root-knot nematode Meloidogyne arenaria genotype A2-O. Genome Announc., 6, e00519-18 (2 pages).
    https://mra.asm.org/content/6/26/e00519-18
    #Hasegawa, J., #Sakamoto, T., Fujimoto, T., Yamashita, T., Suzuki, T., and *Matsunaga, S. (2018) Auxin decreases chromatin accessibility through the TIR1/AFBs auxin signaling pathway in proliferative cells. Sci. Rep., 8, 7773 (12 pages).
    https://www.nature.com/articles/s41598-018-25963-y
    Uemura, A., Yamaguchi, N., Xu, Y., Wee, W. Y., Ichihashi, Y., Suzuki, T., Shibata, A., Shirasu, K., and *Ito, T. (2018) Regulation of floral meristem activity through the interaction of AGAMOUS, SUPERMAN, and CLAVATA3 in Arabidopsis. Plant Reprod., 31, 89-105.
    https://link.springer.com/article/10.1007%2Fs00497-017-0315-0
    Ohta, M., Sato, A., Renhu, N., Yamamoto, T., Oka, N., Zhu, J. K., Tada, Y., Suzaki, T., and *Miura, K. (2018) MYC-type transcription factors, MYC67 and MYC70, interact with ICE1 and negatively regulate cold tolerance in Arabidopsis. Sci. Rep., 8, 11622 (12 pages).
    https://www.nature.com/articles/s41598-018-29722-x
  • -2017-
    Original papers
    *Bowman, J. L., *Kohchi, T., *Yamato, K. T., Jenkins, J., Shu, S., Ishizaki, K., Yamaoka, S., Nishihama, R., Nakamura, Y., Berger, F., Adam, C, Aki, S. S., Althoff, F., Araki, T., Arteaga-Vazquez, M. A., Balasubrmanian, S., Barry, K., Bauer, D., Boehm, C. R., Briginshaw, L., Caballero-Perez, J., Catarino, B., Chen, F., Chiyoda, S., Chovatia, M., Davies, K. M., Delmans, M., Demura, T., Dierschke, T., Dolan, L., Dorantes-Acosta, A. E., Eklund, D. M., Florent, S. N., Flores-Sandoval, E., Fujiyama, A, Fukuzawa, H., Galik, B., Grimanelli, D., Grimwood, J., Grossniklaus, U., Hamada, T., Haseloff, J., Hetherington, A. J., Higo, A., Hirakawa, Y., Hundley, H. N, Ikeda, Y., Inoue, K., Inoue, S., Ishida, S., Jia, O., Kakita, M., Kanazawa, T., Kawai, Y., Kawashima, T., Kennedy, M., Kinose, K., Kinoshita, T., Kohara, Y., Koide, E., Komatsu, K., Kopischke, S., Kubo, M., Kyozuka, J., Lagercrantz, U., Lin, S. S., Lindquist, E., Lipzen, A. M., Lu, C. W., De Luna, E., Martienssen, R. A., Minamino, N., Mizutani, M., Mizutani, M., Mochizuki, N., Monte, I., Mosher, R., Nagasaki, H., Nakagami, H., Naramoto, S., Nishitani, K., Ohtani, M., Okamoto, T., Okumura, M., Phillips, J., Pollak, B., Reinders, A., Rövekamp, M., Sano, R., Sawa, S., Schmid, M. W., Shirakawa, M., Solano, R., Spunde, A., Suetsugu, N., Sugano, S., Sugiyama, A., Sun, R., Suzuki, Y., Takenaka, M., Takezawa, D., Tomogane, H., Tsuzuki, M., Ueda, T., Umeda, M., Ward, J. M., Watanabe, Y., Yazaki, K., Yokoyama, R., Yoshitake, Y., Yotsui, I., Zachgo, S., and Schmutz, J. (2017) Insights into land plant evolution garnered from the Marchantia polymorpha genome. Cell,, 171, 287-304.
    http://www.sciencedirect.com/science/article/pii/S0092867417311248
    Peterson, J., Inoue, S., Kelly, S. M., Sullivan, S., Kinoshita, T., and *Christie, J. M. (2017) Functional characterization of a constitutively active kinase variant of Arabidopsis phototropin 1. J. Biol. Chem., 292, 13843-13852.
    http://www.jbc.org/content/292/33/13843
    *Inoue, S., Iwashita, N., Takahashi, Y., Gotoh, E., Okuma, E., Hayashi, M., Tabata, R., Takemiya, A., Murata, Y., Doi, M., Kinoshita, T., and *Shimazaki, K. (2017) Brassinosteroid involvement in Arabidopsis thaliana stomatal opening. Plant Cell Physiol., 58, 1048-1058.
    https://academic.oup.com/pcp/article-lookup/doi/10.1093/pcp/pcx049
    Wang, Y. and *Kinoshita, T. (2017) Measurement of stomatal conductance in rice. Bio-protocol, 7, e2226 (6 pages).
    http://www.bio-protocol.org/e2226
    *Nakamura, A., Tochio, N., Fujioka, S., Ito, S., Kigawa, T,. Shimada, Y., Matsuoka, M., Yoshida, S., Kinoshita, T., Asami, T., Seto, H., and Nakano, T. (2017) Molecular actions of two synthetic brassinosteroids, iso-carbaBL and 6-deoxoBL, which cause altered physiological activities between Arabidopsis and rice. PLoS ONE, 12, e0174015 (16 pages).
    http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0174015
    Hayashi, M., Inoue, S., Ueno, Y., and Kinoshita, T. (2017) A Raf-like protein kinase BHP mediates blue light-dependent stomatal opening. Sci. Rep., 7, 45586 (12 pages).
    https://www.nature.com/articles/srep45586
    Joo, S., Nishimura, Y., Cronmiller, E., Hong, R. H., Kariyawasam, T., Wang, M. H., Shao, N. C., Akkad, S. E., Suzuki, T., Higashiyama, T., Jin, E., Lee, and J. H. (2017) Gene regulatory networks for the haploid-to-diploid transition of Chlamydomonas reinhardtii. Plant Physiol., 175, 314-332.
    http://www.plantphysiol.org/content/175/1/314
    Gamuyao, R., Nagai, K., Ayano, M., Mori, Y., Minami, A., Kojima, M., Suzuki, T., Sakakibara, H., Higashiyama, T., Ashikari, M., and *Reuscher, S. (2017) Hormone distribution and transcriptome profiles in bamboo shoots provide insights on bamboo stem emergence and growth. Plant Cell Physiol., 58, 702-716.
    https://academic.oup.com/pcp/article/58/4/702/2993903
    #Ushijima, T., #Hanada, K., Gotoh, E., Yamori, W., Kodama, Y., Tanaka, H., Kusano, M., Fukushima, A., Tokizawa, M., Yamamoto, Y. Y., Tada, Y., Suzuki, Y., and *Matsushita, T. (2017) Light controls protein localization through phytochrome-mediated alternative promoter selection. Cell, 171, 1316-1325.
    http://www.sciencedirect.com/science/article/pii/S0092867417312400
    Review papers
    Inoue, S. and Kinoshita, T. (2017) Blue light regulation of stomatal opening and the plasma membrane H+-ATPase. Plant Physiol., 174, 531-538.
    http://www.plantphysiol.org/content/174/2/531
  • -2016-
    Original papers
    Okumura, M. and *Kinoshita, T. (2016) Measurement of ATP hydrolytic activity of plasma membrane H+-ATPase from Arabidopsis thaliana leaves. Bio-protocol, 6, e2044 (7 pages).
    http://www.bio-protocol.org/e2044
    Inoue, S., Takahashi, K., Okumura, H. N., and Kinoshita, T. (2016) Auxin influx carrier AUX1 confers acid resistance for Arabidopsis root elongation through the regulation of plasma membrane H+-ATPase. Plant Cell Physiol., 57, 2194-2201.
    http://pcp.oxfordjournals.org/content/early/2016/08/08/pcp.pcw136
    #Bessho-Uehara, K., #Wang, D. R., Furuta, T., Minami, A., Nagai, K., Gamuyao, R., Asano, K., Angeles-Shim, R. B., 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, S. R., and *Ashikari, M. (2016) Loss of function at RAE2, a previously unidentified EPFL, is required for awnlessness in cultivated Asian rice, Proc. Natl. Acad. Sci. U.S.A., 113, 8969-8974.
    http://www.pnas.org/content/113/32/8969
    Aleman, F., Yazaki, J., Lee, M., Takahashi, Y., Kim, A. Y., Kinoshita, T., Ecker, J. R., and Schroeder, J. I. (2016) An ABA-increased interaction of the PYL6 ABA receptor with MYC2 transcription factor: A putative link of ABA and JA signaling. Sci. Rep., 6, 28941 (10 pages).
    http://www.nature.com/articles/srep28941
    Yamauchi, S., Takemiya, A., Sakamoto, T., Kurata, T., Kinoshita, T. , and *Shimazaki, K. (2016) The plasma membrane H+-ATPase AHA1 plays a major role in stomatal opening in response to blue light. Plant Physiol., 171, 2731-43.
    http://www.plantphysiol.org/content/171/4/2731
    Takahashi, Y., Kinoshita, T., Matsumoto, M., and *Shimazaki, K. (2016) Inhibition of the Arabidopsis bHLH transcription factor by monomerization through abscisic acid-induced phosphorylation. Plant J., 87, 559-567.
    https://doi.org/10.1111/tpj.13217
    Toda, Y., Wang, Y., Takahashi, A., Kawai, Y., Tada, Y., Yamaji, N., Ma, J. F., Ashikari, M., and *Kinoshita, T. (2016) Oryza sativa H+-ATPase (OSA) is involved in the regulation of dumbbell-shaped guard cells of rice. Plant Cell Physiol., 57, 1220-1230.
    http://pcp.oxfordjournals.org/content/57/6/1220
    Okumura, M., Inoue, S., Kuwata, K., and Kinoshita, T. (2016) Photosynthesis activates plasma membrane H+-ATPase via sugar accumulation. Plant Physiol., 171, 580-589.
    http://www.plantphysiol.org/content/171/1/580
    Nakamichi, N., Takao, S., Kudo, T., Kiba,T., Wang, Y., Kinoshita, T., and Sakakibara, H. (2016) Improvement of Arabidopsis biomass and cold, drought, and salinity stress tolerance by modified circadian clock-associated PSEUDO-RESPONSE REGULATORs. Plant Cell Physiol., 57, 1085-1097.
    http://pcp.oxfordjournals.org/content/57/5/1085
    Nagatoshi, Y., Mitsuda, N., Hayashi, M., Inoue, S., Okuma, E., Kubo, A., Murata, Y., Seo, M., Saji, H., Kinoshita, T., and Ohme-Takagi, M. (2016) GOLDEN 2-LIKE transcription factors for chloroplast development affect ozone tolerance through the regulation of stomatal movement. Proc. Natl. Acad. Sci. U.S.A., 113, 4218-4223.
    https://www.pnas.org/content/113/15/4218
    Kamioka, M., Takao, S., Suzuki, T., Taki, K., Higashiyama, T., Kinoshita, T., and *Nakamichi, N. (2016) Direct repression of evening genes by CIRCADIAN CLOCK-ASSOCIATED 1 in Arabidopsis circadian clock. Plant Cell, 28, 696-711.
    http://www.plantcell.org/content/28/3/696.short
    Yamada, K., Yamaguchi, K., Shirakawa, T., Nakagami, H., Mine, A., Ishikawa, K., Fujiwara, M., Narusaka, M., Narusaka, Y., Ichimura, K., Kobayashi, Y., Matsui, H., Nomura, Y., Nomoto, M., Tada, Y., Fukamizo, T., Tsuda, K., Shirasu, K., Shibuya, N., and *Kawasaki, T. (2016) The Arabidopsis CERK1-associated kinase PBL27 connects chitin perception to MAPK activation. EMBO J., 35, 2468-2483.
    http://emboj.embopress.org/content/35/22/2468
    Hayami, N., Kimura, M., Tokizawa, M., Iuchi, S., Kurihara, Y., Matsui, M., Nomoto, M., Tada, Y., Sakai, Y., and *Yamamoto, Y. Y. (2016) The responses of Arabidopsis Early Light-Induced Protein to ultraviolet B, high light, and cold stress are regulated by a transcriptional regulatory unit composed of two elements. Plant Physiol., 169, 840-855.
    http://www.plantphysiol.org/content/169/1/840
    Inoue, K., Nishihama, R., Kataoka, H., Hosaka, M., Manabe, R., Nomoto, M., Tada, Y., Ishizaki, K., and Kohchi, T. (2016) Phytochrome signaling is mediated by PHYTOCHROME INTERACTING FACTOR in the liverwort Marchantia polymorpha. Plant Cell, 28, 1406-1421.
    http://www.plantcell.org/content/28/6/1406
    *Fujii, S., Suzuki, T., Giegé, P., Higashiyama, T., Koizuka, N., and Shikanai, T. (2016) The Restorer-of-fertility-like 2 pentatricopeptide repeat protein and RNase P are required for the processing of mitochondrial orf291 RNA in Arabidopsis. Plant J. , 86, 504-513.
    https://onlinelibrary.wiley.com/doi/full/10.1111/tpj.13185
    *Kasahara, R. D., Notaguchi, M., Nagahara, S., Suzuki, T., Susaki, D., Honma, Y., Maruyama, D., and Higashiyama, T. (2016) Pollen tube contents initiate ovule enlargement and enhance seed coat development without fertilization. Sci. Adv., 2, e1600554 (7 pages).
    https://advances.sciencemag.org/content/2/10/e1600554.full
    Kozgunova, E., Suzuki, T., Higashiyama, T., and *Kurihara, D. (2016) Haspin has multiple functions in the plant cell division regulatory network. Plant Cell Physiol., 57, 848-861.
    https://academic.oup.com/pcp/article/57/4/848/2461067
    Kanamori, A., Sugita, Y., Yuasa, Y., Suzuki, T., Kawamura, K., Uno, Y., Kamimura, K., Matsuda, Y., Wilson, C. A., Amores, A., Postlethwait, J. H., Suga, K., and *Sakakura, Y. (2016) A genetic map for the only self-fertilizing vertebrate. G3 (Bethesda), 6, 1095-1106.
    http://www.g3journal.org/content/6/4/1095
    Yoshida, A., Nakano, S., Suzuki, T., Ihara, K., Higashiyama, T., and *Mori, I. (2016) A glial K+/Cl- cotransporter modifies temperature-evoked dynamics in Caenorhabditis elegans sensory neurons. Genes Brain Behav., 15, 429-440.
    https://onlinelibrary.wiley.com/doi/full/10.1111/gbb.12260
    Suzuki, T., Matsushima, C., Nishimura, S., Higashiyama, T., Sasabe, M., and Machida, Y. (2016) Identification of Phosphoinositide-Binding Protein PATELLIN2 as a Substrate of Arabidopsis MPK4 MAP Kinase during Septum Formation in Cytokinesis. Plant Cell Physiol., 57, 1744-1755.
    https://academic.oup.com/pcp/article/57/8/1744/2755849
    Review papers
    Takahashi, K. and Kinoshita, T. (2016) The regulation of plant cell expansion: Auxin-induced turgor-driven cell elongation. Molecular Cell Biology of the Growth and Differentiation of Plant Cells, 156-173. CRC Press.
    http://www.crcnetbase.com/doi/abs/10.1201/b20316-13
  • -2015-
    Original papers
    *#Tsuchiya, Y., #Yoshimura, M., Sato, Y., Kuwata, K., Toh, S., Holbrook-Smith, D., Zhang, H., McCourt, P., Itami, K., Kinoshita, T., and *Hagihara, S. (2015) Probing strigolactone receptors in Striga hermonthica with fluorescence. Science, 349, 864-868.
    http://science.sciencemag.org/content/349/6250/864.full
    Kimura, Y., Aoki, S., Ando, E., Kitatsuji, A., Watanabe, A., Ohnishi, M., Takahashi, K., Inoue, S., Nakamichi, N., Tamada, Y., and *Kinoshita, T. (2015) A flowering integrator, SOC1, affects stomatal opening in Arabidopsis thaliana. Plant Cell Physiol., 56, 640-649.
    https://academic.oup.com/pcp/article/56/4/640/2756391
    *Tsuji, H., Tachibana, C., Tamaki, S., Taoka, K., Kyozuka, J., and Shimamoto, K. (2015) Hd3a promotes lateral branching in rice. Plant J., 82, 256-266.
    http://onlinelibrary.wiley.com/doi/10.1111/tpj.12811/full
    Saleh, A., Withers, J., Mohan, R., Marques, J., Gu, Y., Yan, S., Zavaliev, R., Nomoto, M., Tada, Y., and *Dong, X. (2015) Posttranslational modifications of the master transcriptional regulator NPR1 enable dynamic but tight control of plant immune responses. Cell Host & Microbe, 18, 169-182.
    http://www.sciencedirect.com/science/article/pii/S1931312815002978
    Matsuo, M., Johnson, J. M., Hieno, A., Tokizawa, M., Nomoto, M., Tada, Y., Godfrey, R., Obokata, J., Sherameti, I., Yamamoto, Y. Y., Bohmer, F. D., and *Oelmuller, R. (2015) High REDOX RESPONSIVE TRANSCRIPTION FACTOR1 levels result in accumulation of reactive oxygen species in Arabidopsis thaliana shoots and roots. Mol. Plant, 8, 1253-1273.
    http://www.sciencedirect.com/science/article/pii/S1674205215001793
    *Tsukagoshi, H., Suzuki, T., Nishikawa, K., Agarie, S., Ishiguro, S., and Higashiyama, T. (2015) RNA-seq analysis of the response of the halophyte, Mesembryanthemum crystallinum (ice plant) to high salinity. PLoS ONE., 10, e0118339 (16 pages).
    http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0118339
    *Okamoto, S., Suzuki, T., Kawaguchi, M., Higashiyama, T., and Matsubayashi, Y. (2015) A comprehensive strategy for identifying long-distance mobile peptides in xylem sap. Plant J., 84, 611-620.
    http://onlinelibrary.wiley.com/doi/10.1111/tpj.13015/full
    Schaap, P., Barrantes, I., Minx, P., Sasaki, N., Anderson, R. W., Bénard, M., Biggar, K. K., Buchler, N. E., Bundschuh, R., Chen, X., Fronick, C., Fulton, L., Golderer, G., Jahn, N., Knoop, V., Landweber, L. F., Maric, C., Miller, D., Noegel, A. A., Peace, R., Pierron, G., Sasaki, T., Schallenberg-Rüdinger, M., Schleicher, M., Singh, R., Spaller, T., Storey, K. B., Suzuki, T., Tomlinson, C., Tyson, J. J., Warren, W. C., Werner, E. R., Werner-Felmayer, G., Wilson, R. K., Winckler, T., Gott, J. M., Glöckner, G., and *Marwan, W. (2015) The physarum polycephalum genome reveals extensive use of prokaryotic two-component and metazoan-type tyrosine kinase signaling. Genome Biol Evol., 8, 109-125.
    https://academic.oup.com/gbe/article/8/1/109/2574153
    *Notaguchi, M., Higashiyama, T., and Suzuki, T. (2015) Identification of mRNAs that move over long distances using an RNA-Seq analysis of Arabidopsis/Nicotiana benthamiana heterografts. Plant Cell Physiol., 56, 311-321.
    https://academic.oup.com/pcp/article/56/2/311/1816181
    *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, S. E., and *Ashikari, M. (2015) Rare allele of a previously unidentified histone H4 acetyltransferase enhances grain weight, yield, and plant biomass in rice. Proc. Natl. Acad. Sci. U.S.A., 112, 76-81.
    https://www.pnas.org/content/112/1/76.full
    Kobayashi, K., Suzuki, T., Iwata, E., Nakamichi, N., Suzuki, T., Chen, P., Ohtani, M., Ishida, T., Hosoya, H., Muller, S., Leviczky, T., Pettko-Szandtner, A., Darula, Z., Iwamoto, A., Nomoto, M., Tada, Y., Higashiyama, T., Demura, T., Doonan, J. H., Hauser, M. T., Sugimoto, K., Umeda, M., Magyar, Z., Bogre, L., and *Ito, M. (2015) Transcriptional repression by MYB3R proteins regulates plant organ growth. EMBO J., 34, 1992-2007.
    https://www.embopress.org/doi/full/10.15252/embj.201490899
    Review papers
    Takahashi, Y. and Kinoshita, T. (2015) Stomatal function has an element of hysteresis.
    New Phytol., 205, 455-457.
    https://doi.org/10.1111/nph.13149
    *Satake, A., Sakurai, G., and *Kinoshita, T. (2015) Modeling strategies for plant survival, growth and reproduction. Plant Cell Physiol., 56, 583-585.
    https://academic.oup.com/pcp/article/56/4/583/2756513
    *Nakamichi, N. (2015) Adaptation to the local environment by modifications of the photoperiod response in crops. Plant Cell Physiol., 56, 594-604.
    https://academic.oup.com/pcp/article-lookup/doi/10.1093/pcp/pcu181

Matsubayashi Group

  • -2020-
    Original papers
    Ota, R., Ohkubo, Y., Yamashita, Y., Ogawa-Ohnishi, M., and *Matsubayashi, Y. (2020) Shoot-to-root mobile CEPD-like 2 integrates shoot nitrogen status to systemically regulate nitrate uptake in Arabidopsis. Nature Commun., 11, 641 (9 pages).
    https://www.nature.com/articles/s41467-020-14440-8
  • -2019-
    Original papers
    Shinohara, H., Yasue, N., Onuki, T., Kondo, Y., Yoshida, M., and *Matsubayashi, Y. (2019) Screening and identification of a non-peptide antagonist for the peptide hormone receptor in Arabidopsis. Commun. Biol., 2, 61 (8 pages).
    https://www.nature.com/articles/s42003-019-0307-8
    Toyokura, K., Goh, T., Shinohara, H., Shinoda, A., Kondo, Y., Okamoto, Y., Uehara, T., Fujimoto, K., Okushima, Y., Ikeyama, Y., Nakajima, K., Mimura, T., Tasaka, M., Matsubayashi, Y., and *Fukaki, H. (2019) Lateral inhibition by a peptide hormone-receptor cascade during Arabidopsis lateral root founder cell formation. Dev. Cell, 48, 64-75.
    https://doi.org/10.1016/j.devcel.2018.11.031
    *Yoro, E., Nishida, H., Ogawa-Ohnishi, M., Yoshida, C., Suzaki, T., Matsubayashi, Y., and *Kawaguchi, M. (2019) PLENTY, a hydroxyproline O-arabinosyltransferase, negatively regulates root nodule symbiosis in Lotus japonicus. J. Exp. Bot., 70, 507-517.
    https://doi.org/10.1093/jxb/ery364
    #Uehara, T. N., #Mizutani, Y., Kuwata, K., Hirota, T., Sato, A., Mizoi, J., Takao, S., Matsuo, H., Suzuki, T., Ito, S., Saito, A. N., Nishiwaki-Ohkawa, T., Yamaguchi-Shinozaki, K., Yoshimura, T., Kay, S. A., Itami, K., Kinoshita, T., *Yamaguchi, J., and *Nakamichi, N (2019) Casein kinase 1 family regulates PRR5 and TOC1 in the Arabidopsis circadian clock. Proc. Natl. Acad. Sci. U.S.A., 116, 11528-11536.
    https://doi.org/10.1073/pnas.1903357116
    Hirakawa, T., Kuwata, K., Gallego, M. E., White, C. I., Nomoto, M., Tada, Y., and *Matsunaga, S. (2019) LSD1-LIKE1-mediated H3K4me2 demethylation is required for homologous recombination repair. Plant Physiol., 181, 499-509.
    http://www.plantphysiol.org/content/181/2/499
  • -2018-
    Original papers
    #Takenaka, Y., #Kato, K., Ogawa-Ohnishi, M., Tsuruhama, K., Kajiura, H., Yagyu, K., Takeda, A., Takeda, Y., Kunieda, T., Hara-Nishimura, I., Kuroha, T., Nishitani, K., Matsubayashi, Y., and *Ishimizu, T. (2018) Pectin RG-I rhamnosyltransferases represent a novel plant-specific glycosyltransferase family. Nature Plants, 4, 669-676.
    https://www.nature.com/articles/s41477-018-0217-7
    *Uraguchi, D., Kuwata, K., Hijikata, Y., Yamaguchi, R., Imaizumi, H., Am, S., Rakers, C., Mori, N., Akiyama, K., Irle, S., McCourt, P., Kinoshita, T., *Ooi, T., and *Tsuchiya, Y. (2018) A femtomolar-range suicide germination stimulant for the parasitic plant Striga hermonthica. Science, 362, 1301-1305.
    https://science.sciencemag.org/content/362/6420/1301
    Yoshimura, M., Sato, A., Kuwata, K., Inukai, Y., Kinoshita, T., Itami, K., *Tsuchiya, Y., and *Hagihara, S. (2018) Discovery of shoot branching regulator targeting strigolactone receptor DWARF14. ACS Cent. Sci., 4, 230-234.
    https://pubs.acs.org/doi/full/10.1021/acscentsci.7b00554
    Review papers
    *Matsubayashi, Y. (2018) Exploring peptide hormones in plants: identification of four peptide hormone-receptor pairs and two post-translational modification enzymes. P. Jpn Acad. B-Phys., 94, 59-74.
    https://www.jstage.jst.go.jp/article/pjab/94/2/94_PJA9402B-01/_html/
  • -2017-
    Original papers
    #Ohkubo, Y., #Tanaka, M., Tabata, R., Ohnishi, M. O., and *Matsubayashi, Y. (2017) Shoot-to-root mobile polypeptides involved in systemic regulation of nitrogen acquisition, Nature Plants, 3, 17029.
    http://www.nature.com/articles/nplants201729
    Hirakawa, Y., Shinohara, H., Welke, K., Irle, S., Matsubayashi, Y., *Torii, K. U., and *Uchida, N. (2017) Cryptic bioactivity capacitated by synthetic hybrid plant peptides. Nature Commun., 8, 14318 (7 pages).
    http://www.nature.com/articles/ncomms14318
    #Nakayama, T., #Shinohara, H., Tanaka, M., Baba, K., Ohnishi, M. O., and *Matsubayashi, Y. (2017) A peptide hormone required for Casparian strip diffusion-barrier formation in Arabidopsis roots, Science, 355, 284-286.
    http://science.sciencemag.org/content/355/6322/284.full
    Kanadome, T., *Shibata,H., Kuwata, K, Takahara, T., and Maki, M. (2017) The calcium-binding protein ALG-2 promotes endoplasmic reticulum exit site localization and polymerization of Trk-fused gene (TFG) protein. FEBS J., 284, 56-76.
    http://onlinelibrary.wiley.com/doi/10.1111/febs.13949/full
    Yamada, T., Tahara, E., Kanke, M., Kuwata, K., and *Nishiyama, T. (2017) Drosophila Dalmatian combines sororin and shugoshin roles in establishment and protection of cohesion. EMBO J., 36, 1513-1527.
    http://emboj.embopress.org/content/36/11/1513
  • -2016-
    Original papers
    #Bessho-Uehara, K., #Wang, D. R., Furuta, T., Minami, A., Nagai, K., Gamuyao,R., Asano, K., Angeles-Shim, R. B., 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, S. R., and *Ashikari, M. (2016) Loss of function at RAE2, a previously unidentified EPFL, is required for awnlessness in cultivated Asian rice, Proc. Natl. Acad. Sci. U.S.A., 113, 8969-8974.
    https://www.pnas.org/content/113/32/8969
    Shinohara, H., Mori, A., Yasue, N., Sumida, K., and *Matsubayashi, Y. (2016) Identification of three LRR-RKs involved in perception of root meristem growth factor in Arabidopsis. Proc. Natl. Acad. Sci. U.S.A., 113, 3897-3902.
    http://www.pnas.org/content/113/14/3897.long
    #*Nambo, M., Kurihara, D., Yamada, T., Nishiwaki, O. T., Kadofusa, N., Kimata, Y., Kuwata, K., Umeda, M., and #*Ueda, M. (2016) Combination of synthetic chemistry and live-cell imaging identified a rapid cell division inhibitor in tobacco and Arabidopsis thaliana. Plant Cell Physiol., 57, 2255-2268.
    http://pcp.oxfordjournals.org/content/57/11/2255
    Okumura, M., Inoue, S., Kuwata, K., and Kinoshita, T. (2016) Photosynthesis activates plasma membrane H+-ATPase via sugar accumulation. Plant Physiol., 171, 580-589.
    http://www.plantphysiol.org/content/171/1/580
    Fujimoto, S., Sugano, S. S., Kuwata, K., Osakabe, K., and *Matsunaga, S. (2016) Visualization of specific repetitive genomic sequences with fluorescent TALEs in Arabidopsis thaliana. J. Exp. Bot., 67, 6101-6110.
    http://jxb.oxfordjournals.org/content/67/21/6101.full
  • -2015-
    Original papers
    *Okamoto, S., Suzuki, T., Kawaguchi, M., Higashiyama, T., and Matsubayashi, Y. (2015) A comprehensive strategy for identifying long-distance mobile peptides in xylem sap. Plant J., 84, 611-620.
    http://onlinelibrary.wiley.com/doi/10.1111/tpj.13015/full
    Xu, C., Liberatore, K. L., MacAlister, C. A., Huang, Z., Chu, Y. H., Jiang, K., Brooks, C., Ogawa-Ohnishi, M., Xiong, G., Pauly, M., Van Eck, J., Matsubayashi, Y., van der Knaap, E., and *Lippman, Z. B. (2015) A cascade of arabinosyltransferases controls shoot meristem size in tomato. Nature Genet. 47, 784-792.
    https://www.nature.com/articles/ng.3309?lang=en
    Wu, T., Kamiya, T., Yumoto, H., Sotta, N., Katsushi, Y., Shigenobu, S., Matsubayashi, Y., and *Fujiwara, T. (2015) An Arabidopsis thaliana copper-sensitive mutant suggests a role of phytosulfokine in ethylene production. J. Exp. Bot. 66, 3657-3667.
    https://academic.oup.com/jxb/article/66/13/3657/513140
    *Shinohara, H., and Matsubayashi, Y. (2015) Reevaluation of the CLV3-receptor interaction in the shoot apical meristem: dissection of the CLV3 signaling pathway from a direct ligand-binding point of view. Plant J., 82, 328-336.
    http://onlinelibrary.wiley.com/doi/10.1111/tpj.12817/full
    Ogawa-Ohnishi, M., and *Matsubayashi, Y. (2015) Identification of three potent hydroxyproline O-galactosyltransferases in Arabidopsis. Plant J., 81, 736-746.
    http://onlinelibrary.wiley.com/doi/10.1111/tpj.12764/full
    *#Tsuchiya Y., #Yoshimura, M., Sato, Y., Kuwata, K., Toh, S., Holbrook-Smith, D., Zhang, H., McCourt, P., Itami, K., Kinoshita, T., and *Hagihara, S. (2015) Probing strigolactone receptors in Striga hermonthica with fluorescence. Science, 349, 864-868.
    https://science.sciencemag.org/content/349/6250/864.full

Matsunaga Group

  • -2020-
    Original papers
    Adamusová, K., Khosravi, S., Fujimoto, S., Houben, A., Matsunaga, S., Fajkus, J., and *Fojtová, M. (2020) Two combinatorial patterns of telomere histone marks in plants with canonical and non-canonical telomere repeats. Plant J., in press.
    https://doi.org/10.1111/tpj.14653
    Luo, L., Ando, S., Sakamoto, Y., Suzuki, T., Takahashi, H., Ishibashi, N., Kojima, S., Kurihara, D., Higashiyama, T., Yamamoto, K. T., *Matsunaga, S., *Machida, C., *Sasabe, M., and *Machida, Y. (2020) The formation of perinucleolar bodies is important for normal leaf development and requires the zinc-finger DNA-binding motif in Arabidopsis ASYMMETRIC LEAVES2. Plant J., in press.
    https://onlinelibrary.wiley.com/doi/full/10.1111/tpj.14579
    *Nurani, A. M., Ozawa, Y., Furuya, T., Sakamoto, Y., Ebine, K., Matsunaga, S., Ueda, T., Fukuda, H., and *Kondo, Y. (2020) Deep imaging analysis in VISUAL reveals the role of YABBY genes in vascular stem cell fate determination. Plant Cell Physiol., 61, 255-264.
    https://doi.org/10.1093/pcp/pcaa002
    Hirai, R., Higaki, T., Takenaka, Y., Sakamoto, Y., Hasegawa, J., Matsunaga, S., *Demura, T., and *Ohtani, M. (2020) The progression of xylem vessel cell differentiation is dependent on the activity level of VND7 in Arabidopsis thaliana. Plants, 9, 39 (12 pages).
    https://www.mdpi.com/2223-7747/9/1/39/htm
  • -2019-
    Original papers
    Kato, S., Okamura, E., Matsunaga, T. M., Nakayama, M., Kawanishi, Y., Ichinose, T., Iwane, A. H., Sakamoto, T., Imoto, Y., Ohnuma, M., Nomura, Y., Nakagami, H., Kuroiwa, H., Kuroiwa, T., and *Matsunaga, S. (2019) Cyanidioschyzon merolae aurora kinase phosphorylates evolutionarily conserved sites on its target to regulate mitochondrial division. Commun. Biol., 2, 477 (9 pages).
    https://doi.org/10.1038/s42003-019-0714-x
    Hirakawa, T., Kuwata, K., Gallego, M. E., White, C. I., Nomoto, M., Tada, Y., and *Matsunaga, S. (2019) LSD1-LIKE1-mediated H3K4me2 demethylation is required for homologous recombination repair. Plant Physiol., 181, 499-509.
    http://www.plantphysiol.org/content/181/2/499
    Hirakawa, T. and *Matsunaga, S. (2019) Characterization of DNA repair foci in root cells of Arabidopsis in response to DNA damage. Front. Plant Sci., 10, 990 (９pages).
    https://www.frontiersin.org/articles/10.3389/fpls.2019.00990/full
    #Kurita, K., #Sakamoto, Y., Naruse, S., Matsunaga, T. M., Arata, H., Higashiyama, T., Habu, Y., Utsumi, Y., Utsumi, C., Tanaka, M., Takahashi, S., Kim, J. M., Seki, M., Sakamoto, T., and *Matsunaga, S. (2019) Intracellular localization of histone deacetylase HDA6 in plants. J. Plant Res., 132, 629–640.
    https://link.springer.com/article/10.1007%2Fs10265-019-01124-8
    Diaz, M., Pečinková, P., Nowicka, A., Baroux, C., Sakamoto, T., Gandha, P. Y., Jeřábková, H., Matsunaga, S., Grossniklaus, U., and *Pecinka, A. (2019) The SMC5/6 complex subunit NSE4A is involved in DNA damage repair and seed development. Plant Cell, 31, 1579–1597.
    http://www.plantcell.org/content/31/7/1579
    #Sotta, N., #Sakamoto, T., Matsunaga, S., and *Fujiwara, T. (2019) Abnormal leaf development of rpt5a mutant under zinc deficiency reveals important role of DNA damage alleviation for normal leaf development. Sci. Rep., 9, 9369 (10 pages).
    https://www.nature.com/articles/s41598-019-44789-w
    Sakamoto, T., Sotta, N., Suzuki, T., Fujiwara, T., and *Matsunaga, S. (2019) The 26S proteasome is required for the maintenance of root apical meristem by modulating auxin and cytokinin responses under high-boron stress. Front. Plant Sci., 10, 590 (13 pages).
    https://www.frontiersin.org/articles/10.3389/fpls.2019.00590/full
    Sakamoto, T., Sugiyama, T., Yamashita, T., and *Matsunaga, S. (2019) Plant condensin II is required for the correct spatial relationship between centromeres and rDNA arrays. Nucleus, 10, 116-125.
    https://doi.org/10.1080/19491034.2019.1616507
    Hayashi, K. and *Matsunaga, S. (2019) Heat and chilling stress induce nucleolus morphological changes. J. Plant Res., 132, 395-403.
    https://link.springer.com/article/10.1007/s10265-019-01096-9
    Utsumi, Y., Utsumi, C., Tanaka, M., Ha, C. V., Takahashi, S., Matsui, A., Matsunaga, T. M., Matsunaga, S., Kanno, Y., Seo, M., Okamoto, Y., Moriya, E., and *Seki, M. (2019) Acetic acid treatment enhances drought avoidance in cassava (Manihot esculenta Crantz). Front. Plant Sci., 10, 521 (12 pages).
    https://www.frontiersin.org/articles/10.3389/fpls.2019.00521/full
    #Ishihara, H., *#Sugimoto, K., Tarr, P. T., Temman, H., Kadokura, S., Inui, Y., Sakamoto, T., Sasaki, T., Aida, M., Suzuki, T., Inagaki, S., Morohashi, K., Seki, M., Kakutani, T., Meyerowitz, E. M., and *Matsunaga, S. (2019) Primed histone demethylation regulates shoot regenerative competency. Nature Commun., 10, 1786 (15 pages).
    https://www.nature.com/articles/s41467-019-09386-5
    Myobatake, Y., *Kamisuki, S., Tsukuda, S., Higashi, T., Chinen, T., Takemoto, K., Hachisuka, M., Suzuki, Y., Takei, M., Tsurukawa, Y., Maekawa, H., Takeuchi, T., Matsunaga, T. M., Sahara, H., Usui, T., Matsunaga, S., and Sugawara, F. (2019) Pyrenocine A induces monopolar spindle formation and suppresses proliferation of cancer cells. Bioorg. Med. Chem., 27, 115149 (5 pages).
    https://www.sciencedirect.com/science/article/pii/S0968089619313136
    Kobayashi, W., Liu, E., Ishii, H., Matsunaga, S., Schlögelhofer, P., and *Kurumizaka, H. (2019) Homologous pairing activities of Arabidopsis thaliana RAD51 and DMC1. J. Biochem., 165, 289-295.
    https://academic.oup.com/jb/advance-article/doi/10.1093/jb/mvy105/5230994
    Review papers
    Toyoda, Y. and *Matsunaga, S. (2019) Lysine-specific demethylase epigenetically regulates human and plant phenomena. Cytologia, 84, 295-298.
    https://www.jstage.jst.go.jp/article/cytologia/84/4/84_840401/_article/
    Shibuta, M. K., Matsuoka, M., and *Matsunaga, S. (2019) 2A peptides contribute to the co-expression of proteins for imaging and genome editing. Cytologia, 84, 107-111.
    https://www.jstage.jst.go.jp/article/cytologia/84/2/84_840203/_article/
    Shibuta, M. K. and *Matsunaga, S. (2019) Seasonal and diurnal regulation of flowering via an epigenetic mechanism in Arabidopsis thaliana. Cytologia, 84, 3-8.
    https://www.jstage.jst.go.jp/article/cytologia/84/1/84_840103/_article/
    Sugimoto, K., Temman, H., Kadokura, H., and *Matsunaga, S. (2019) To regenerate or not to regenerate: factors that drive plant regeneration. Curr. Opin. Plant Biol., 47, 138-150.
    https://www.sciencedirect.com/science/article/pii/S1369526618300517
  • -2018-
    Original papers
    Sakamoto, T., Tsujimoto-Inui, Y., Sotta, N., Hirakawa, T., Matsunaga, T. M., Fukao, Y., *Matsunaga, S., and *Fujiwara, T. (2018) Proteasomal degradation of BRAHMA promotes Boron tolerance in Arabidopsis. Nature Commun., 9, 5285 (16 pages).
    https://www.nature.com/articles/s41467-018-07393-6
    Yagi, N., Matsunaga, S., and *Hashimoto, T. (2018) Insights into cortical microtubule nucleation and dynamics in Arabidopsis leaf cells. J. Cell Sci., 131, 203778 (7 pages).
    http://jcs.biologists.org/content/131/2/jcs203778
    Hayashi, K., Kato, S., and *Matsunaga, S. (2018) Convolutional neural network-based automatic classification for algal morphogenesis. Cytologia, 83, 301-305.
    https://www.jstage.jst.go.jp/article/cytologia/83/3/83_D-18-00021/_article/
    #Kadokura, S., *#Sugimoto, K., Tarr, P., Suzuki, T., and *Matsunaga, S. (2018) Characterization of somatic embryogenesis initiated from the Arabidopsis shoot apex. Dev. Biol., 442, 13-27. [Cover]
    https://www.sciencedirect.com/science/article/pii/S0012160617308023
    #Hasegawa, J., #Sakamoto, T., Fujimoto, T., Yamashita, T., Suzuki, T., and *Matsunaga, S. (2018) Auxin decreases chromatin accessibility through the TIR1/AFBs auxin signaling pathway in proliferative cells. Sci. Rep., 8, 7773 (12 pages).
    https://www.nature.com/articles/s41598-018-25963-y
    Nishida, H., Tanaka, S., Handa, Y., Ito, M., Sakamoto, Y., Matsunaga, S., Betsuyaku, S., Miura, K., Soyano, T., Kawaguchi, M., and *Suzaki, T. (2018) A NIN-LIKE PROTEIN mediates nitrate-induced control of root nodule symbiosis in Lotus japonicus. Nature Commun., 9, 499 (14 pages).
    https://www.nature.com/articles/s41467-018-02831-x
    Review papers
    Watanabe, M., Sakamoto, Y., and *Matsunaga, S. (2018) Imaging with split fluorescent proteins based on the reconstruction of separated asymmetric protein fragments. Cytologia, 83, 347-350.
    https://www.jstage.jst.go.jp/article/cytologia/83/4/83_830401/_article
    *Kazama, Y., Hirano, T., Abe, T., and Matsunaga, S. (2018) Chromosomal rearrangement: from induction by heavy-ion irradiation to in vivo engineering by genome editing. Cytologia, 83, 125-128.
    https://www.jstage.jst.go.jp/article/cytologia/83/2/83_830202/_article/
    *Matsunaga, S. (2018) Planimal cells: Artificial photosynthetic animal cells inspired by endosymbiosis and photosynthetic animals. Cytologia, 83, 3-6.
    https://www.jstage.jst.go.jp/article/cytologia/83/1/83_830103/_article/
    Books
    Sekiguchi, Y., Kobayashi, A., Takayama, Y., Oide, M., Fukuda, A., Yamamoto, T., Okajima, K., Oroguchi, T., Hirakawa, T., Inui, Y., Matsunaga, S., Yamamoto, M., and Nakasako, M. (2018) Chapter 10 Coherent X-ray Diffraction Imaging of Cyanidioschyzon merolae. In "Cyanidioschyzon merolae: A New Model Eukaryote for Cell and Organelle Biology" edited by Kuroiwa, T., Miyagishima, S., Matsunaga, S., Sato, N., Nozaki, H., Tanaka, K., and Misumi, O. Springer, 153-173.
    Yoshida, Y., Sakamoto, Y., Iwasaki, K., Maruyama, S., and Matsunaga, S. (2018) Chapter 14 Double-Membrane-Bounded Organelles: Recent Findings Regarding Division, Inheritance, Structure, and Evolution of the Nucleus, Mitochondria, and Chloroplasts. In "Cyanidioschyzon merolae: A New Model Eukaryote for Cell and Organelle Biology" edited by Kuroiwa, T., Miyagishima, S., Matsunaga, S., Sato, N., Nozaki, H., Tanaka, K., and Misumi, O. Springer, 205-233.
  • -2017-
    Original papers
    Fujimoto, S. and *Matsunaga, S. (2017) Visualization of chromatin loci with transiently expressed CRISPR/Cas9 in plants. Cytologia, 82, 559-562.
    https://www.jstage.jst.go.jp/article/cytologia/82/5/82_MS1997/_article
    #*Sakamoto, N. A., #Thuong Lan, V. H., #Fujimoto, S., Matsunaga, S., and Tanaka, A. (2017) An ion beam-induced Arabidopsis mutant with marked chromosomal rearrangement. J. Rad. Res., 58, 772-781.
    https://academic.oup.com/jrr/article/3862018/An-ion-beam-induced-Arabidopsis-mutant-with-marke
    Matsunaga, T. M., Ogawa, D., Taguchi-Shiobara, F., Ishimoto, M., Matsunaga, S., and *Habu, Y. (2017) Direct quantitative evaluation of disease symptoms on living plant leaves growing under natural light. Breed. Sci., 67, 316-319.
    https://www.jstage.jst.go.jp/article/jsbbs/67/3/67_16169/_article
    #*Kim, J. M., #To, T. K., Matsui, A., Tanoi, K., Kobayashi, N., Matsuda, F., Habu, Y., Ogawa, D., Sakamoto, T., Matsunaga, S., Bashir, K., Rasheed, S., Ando, M., Takeda, H., Kawaura, K., Kusano, M., Fukushima, A., Takaho, A. E., Kuromori, T., Ishida, J., Morosawa, T., Tanaka, M., Torii, C., Takebayashi, Y., Sakakibara, H., Ogihara, Y., Saito, K., Shinozaki, K., Devoto, A., and *Seki, M. (2017) Acetate-mediated novel survival strategy against drought in plants. Nature Plants, 3, 17097 (7 pages).
    https://www.nature.com/articles/nplants201797
    Okamura, E., Sakamoto, T., Sasaki, T., and *Matsunaga, S. (2017) A plant ancestral polo-like kinase sheds light on the mystery of the evolutisonary disappearance of polo-like kinases in the plant kingdom. Cytologia, 82, 261-266
    https://www.jstage.jst.go.jp/article/cytologia/82/3/82_MS1944/_article
    #Spallek, T., #Melnyk, C. W., Wakatake, T., Zhang, J., Sakamoto, Y., Kiba, T., Yoshida, S., Matsunaga, S., Sakakibara, H., and *Shirasu, K. (2017) Interspecies hormonal control of host root morphology by parasitic plants. Proc. Natl. Acad. Sci. U.S.A., 114, 5283-5288.
    http://www.pnas.org/content/114/20/5283
    #Kurita, K., #Sakamoto,T., Yagi, N., Sakamoto, Y., Ito, A., Nishino, N., Sako, K., Yoshida, M., Kimura, H., Seki, M., and *Matsunaga, S. (2017) Live imaging of H3K9 acetylation in plant cells. Sci. Rep., 7, 45894 (9 pages).
    https://www.nature.com/articles/srep45894
    Hirakawa, T., Hasegawa, J., White, C. I., and *Matsunaga, S. (2017) RAD54 forms DNA repair foci in response to DNA damage in living plant cells. Plant J., 90, 372-382.
    https://doi.org/10.1111/tpj.13499
    #*Kurihara, D., #Kimata, Y., Higashiyama, T., and *Ueda, M. (2017) In Vitro ovule cultivation for live-cell imaging of Zygote polarization and Embryo patterning in Arabidopsis thaliana. J. Vis. Exp., 127, e55975.
    https://www.jove.com/video/55975/
    *Ueda, M., Aichinger, E., Gong, W., Groot, E., Verstraeten, I., Vu, L. D., De Smet, I., Higashiyama, T., Umeda, M., and *Laux, T. (2017) Transcriptional integration of paternal and maternal factors in the Arabidopsis zygote. Genes & Dev., 31, 617-627.
    http://genesdev.cshlp.org/content/31/6/617.full
    Review papers
    *Tsukaya, H. and Matsunaga, S. (2017) Tissue-dependency of the impact of endoreduplication on cell size. Plant Morphology, 29, 87-90.
    https://www.jstage.jst.go.jp/article/plmorphol/29/1/29_87/_article/
    *Matsunaga, S. and Matsunaga, T. M. (2017) FISH with padlock probes can efficiently reveal the genomic position of low or single-copy DNA sequences. Cytologia, 82, 337-339.
    https://www.jstage.jst.go.jp/article/cytologia/82/4/82_820402/_article
    Hoshino, A., Matsunaga, T. M., Sakamoto, T., and *Matsunaga, S. (2017) Hi-C revolution: from a snapshot of DNA-DNA interaction in a single cell to chromosome-scale de novo genome assembly. Cytologia, 82, 223-226.
    https://www.jstage.jst.go.jp/article/cytologia/82/3/82_170523/_article
    Sakamoto, Y. and *Matsunaga, S. (2017) Deep imaging of plant roots by a rapid transparency technique TOMEI. Cytologia, 82, 221-222.
    https://www.jstage.jst.go.jp/article/cytologia/82/3/82_170210/_article
    *Matsunaga, S. and Nakaya, A. (2017) Computational synteny analysis promotes a better understanding of chromosome evolution. Cytologia, 82, 101-104.
    https://www.jstage.jst.go.jp/article/cytologia/82/2/82_820201/_article
  • -2016-
    Original papers
    Fujimoto, S., Sugano, S. S., Kuwata, K., Osakabe, K., and *Matsunaga, S. (2016) Visualization of specific repetitive genomic sequences with fluorescent TALEs in Arabidopsis thaliana. J. Exp. Bot., 67, 6101-6110.
    http://jxb.oxfordjournals.org/content/67/21/6101.full
    #Takagi, M., #Sakamoto, T., Suzuki, R., Nemoto, K., Obayashi, T., Matsunaga, T. M., Hirakawa, T., Kurihara, D., Nariai, Y., Urano, T., Sawasaki, T., *Matsunaga, S. (2016) Plant Aurora kinases interact with and phosphorylate transcription factors. J. Plant Res., 129, 1165-1178.
    http://link.springer.com/article/10.1007/s10265-016-0860-x
    Fujimoto, S., Matsunaga, S., and *Murata, M. (2016) Mapping of T-DNA and Ac/Ds by TAIL-PCR to analyze chromosomal rearrangements. Methods Mol. Biol., 1469, 207-216.
    https://link.springer.com/protocol/10.1007%2F978-1-4939-4931-1_17
    Hirakawa, T. and *Matsunaga, S. (2016) Three-dimensional, live-cell imaging of chromatin dynamics in plant nuclei using chromatin tagging systems. Methods Mol. Biol., 1469, 189-195.
    https://link.springer.com/protocol/10.1007%2F978-1-4939-4931-1_15
    Yokoyama, R., Hirakawa, T., Hayashi, S., Sakamoto, T., and *Matsunaga, S. (2016) Dynamics of plant DNA replication based on PCNA visualization. Sci. Rep., 6, 29657 (9 pages).
    http://www.nature.com/articles/srep29657
    Sotta, N., Shantikumar, L., Sakamoto, T., Matsunaga, S., and *Fujiwara, T. (2016) TPR5 is involved in directional cell division and is essential for the maintenance of meristem cell organization in Arabidopsis thaliana. J. Exp. Bot., 67, 2401-2411.
    http://jxb.oxfordjournals.org/content/early/2016/02/16/jxb.erw043.full?sid=5056a9d1-44e7-4b6a-9a21-81552cc405b4
    Katagiri, Y., Hasegawa, J., Fujikura, U., Hoshino, R., *Matsunaga, S., and *Tsukaya, H. (2016) The coordination of ploidy and cell size differs between cell layers in leaves. Development, 143, 1120-1125.
    http://dev.biologists.org/content/143/7/1120
    Hasegawa, J., Sakamoto, Y., Nakagami, S., Aida, M., Sawa, S., and *Matsunaga, S. (2016) Three-dimensional imaging of plant organs using a simple and rapid transparency technique. Plant Cell Physiol., 57, 462-472.
    http://pcp.oxfordjournals.org/content/57/3/462.full
    #Kimata, Y., Higaki, T., Kawashima, T., Kurihara, D., Sato, Y., Yamada, T., Hasezawa, S., Berger, F., Higashiyama, T., and *Ueda, M. (2016) Cytoskeleton dynamics control the first asymmetric cell division in Arabidopsis zygote. Proc. Natl. Acad. Sci. U.S.A., 113, 14157-14162. [Cover]
    http://www.pnas.org/content/113/49/14157.full?sid=2e9b9b43-088d-4060-8da6-ede6c586f6b7
    #*Nambo, M., Kurihara, D., Yamada, T., Nishiwaki, O. T., Kadofusa, N., Kimata, Y., Kuwata, K., Umeda, M., and #*Ueda, M. (2016) Combination of synthetic chemistry and live-cell imaging identified a rapid cell division inhibitor in tobacco and Arabidopsis thaliana. Plant Cell Physiol., 57, 2255-2268.
    http://pcp.oxfordjournals.org/content/57/11/2255
    Review papers
    Fujimoto, S. and *Matsunaga, S. (2016) Chromatin live imaging with genome editing techniques: switching from scissors to a lamp. Cytologia, 81, 359-362.
    https://www.jstage.jst.go.jp/article/cytologia/81/4/81_810402/_article
    Fujimoto, S. and *Matsunaga, S. (2016) Which is a reliable approach in the generation of artificial minichromosomes, bottom-up or top-down? Cytologia, 81, 251-256.
    https://www.jstage.jst.go.jp/article/cytologia/81/3/81_810302/_article
    Hirakawa, T. and *Matsunaga, S. (2016) Chromatin tagging systems contribute to live imaging analyses for chromatin dynamics. Cytologia, 81, 121-123.
    https://www.jstage.jst.go.jp/article/cytologia/81/2/81_810203/_article
    *Matsunaga, S. (2016) FISH is in the limelight again as more a cytogenetical technique for metaphase chromosomes. Cytologia, 81, 3-6.
    https://www.jstage.jst.go.jp/article/cytologia/81/1/81_3/_article
    Books
    Sakamoto, T., Sakamoto, Y., and *Matsunaga, S. (2016) Cell division and cell growth. In “Molecular cell biology of the growth and differentiation of plant cells” edited by Ray Rose. CRC press 86-98.
  • -2015-
    Original papers
    Izaguirre-Carbonell, J., Kawakubo, H., Murata, H., Tanabe, A., Takeuchi, T., Kusayanagi, T., Tsukuda, S., Hirakawa, T., Iwabata, K., Kanai, Y., Ohta, K., Miura, M., Sakaguchi, K., Matsunaga, S., Sahara, H., *Kamisuki, S., and *Sugawara, F. (2015) Novel anticancer agent, SQAP, binds to focal adhesion kinase and modulates its activity. Sci. Rep., 5, 15136 (13 pages).
    http://www.nature.com/articles/srep15136
    #Oroguchi, T., #Sekiguchi, Y., Kobayashi, A., Masaki, Y., Fukuda, A., Hashimoto, S., *Nakasako, M., Ichikawa, I., Kurumizaka, H., Shimizu, M., Inui, Y., Matsunaga, S., Kato, T., Namba, K., Yamaguchi, K., Kuwata, K., Kameda, H., Fukui, N., Kawata, Y., Kameshima, T., Takayama, Y., Yonekura, K., and Yamamoto, M. (2015) Cryogenic coherent X-ray diffraction imaging for biological non-crystalline particles using the KOTOBUKI-1 diffraction apparatus at SACLA. J. Phys. B., 48, 184003 (11 pages).
    http://iopscience.iop.org/0953-4075/48/18/184003/metrics
    Hirakawa, T., Katagiri, Y., Ando, T., and *Matsunaga, S. (2015) DNA double-strand breaks alter the spatial arrangement of homologous loci in plant cells. Sci. Rep., 5, 11058 (8 pages).
    http://www.nature.com/articles/srep11058
    #Takayama, Y., #Inui, Y., #Sekiguchi, Y., Kobayashi, A., Oroguchi, T., Yamamoto, M., *Matsunaga, S., and *Nakasako, M. (2015) Coherent X-ray diffraction imaging of chloroplasts from Cyanidioschyzon merolae by using X-ray free electron laser. Plant Cell Physiol., 56, 1272-1286. [Cover]
    https://academic.oup.com/pcp/article/56/7/1272/2756362
    Gooh, K., Ueda, M., Aruga, K., Park, J., Arata, H., Higashiyama, T., and *Kurihara, D. (2015)　Live-cell imaging and optical manipulation of Arabidopsis early embryogenesis. Dev. Cell 34, 242-251.
    http://www.sciencedirect.com/science/article/pii/S1534580715003974
    *Maruyama, D., Volz, R., Takeuchi, H., Mori, T., Igawa, T., Kurihara, D., Kawashima, T., Ueda, M., Ito, M., Umeda, M., Nishikawa, S., Gros-Hardt, R., and Higashiyama, T. (2015) Rapid elimination of the persistent synergid through a cell fusion mechanism. Cell 161, 907-918.
    http://www.sciencedirect.com/science/article/pii/S0092867415003050

Sugimoto Group

  • -2019-
    Original papers
    *Rymen, B., Kawamura, A., Lambolez, A., Inagaki, S., Takebayashi, A., Iwase, A., Sakamoto, Y., Sako, K., Favero, D. S., Ikeuchi, M., Suzuki, T., Seki, M., Kakutani, T., Roudier, F., and *Sugimoto, K. (2019) Histone acetylation orchestrates wound-induced transcriptional activation and cellular reprogramming in Arabidopsis. Commun. Biol., 2, 404 (15 pages).
    https://www.nature.com/articles/s42003-019-0646-5
  • -2018-
    Original papers
    *#Ikeuchi, M., #Shibata, M., Rymen, B., Iwase, A., Bagman, A.-M., Watt, L., Coleman, D., Favero, D. S., Takahashi, T., Ahnert, S. E., Brady, S. M., and *Sugimoto, K. (2018) A gene regulatory network for cellular reprogramming in plant regeneration. Plant Cell Physiol., 59, 770-782.
    https://academic.oup.com/pcp/article/59/4/770/4850772
  • -2017-
    Original papers
    Rymen, B., Kawamura, A,, Schäefer, S., Breuer, C., Iwase, A., Shibata, M., Ikeda, M., Mitsuda, N., Koncz, C., Ohme-Takagi, M, Matsui, M., and *Sugimoto, K. (2017) ABA suppresses root hair growth via the OBP4 transcriptional regulator. Plant Physiol., 3, 1750-1762.
    http://www.plantphysiol.org/content/173/3/1750.full
    Iwase, A., Harashima, H., Ikeuchi, M., Rymen, B., Ohnuma, M., Komaki, S., Morohashi, K., Kurata, T., Nakata, M., Ohme-Takagi, M., Grotewold, E., and *Sugimoto, K. (2017) WIND1 Promotes Shoot Regeneration through Transcriptional Activation of ENHANCER OF SHOOT REGENERATION1 in Arabidopsis, Plant Cell, 29, 54-69.
    http://www.plantcell.org/content/29/1/54
    Li, C., Sako, Y., Imai, A., Nishiyama, T., Thompson, K., Kubo, M., Hiwatashi, Y., Kabeya, Y., Karlson, D., Wu, S-H., Ishikawa, M., Murata, T., Benfey, P. N., Sato, Y., Tamada, Y., and Hasebe, M. (2017) A Lin28 homologue reprograms differentiated cells to stem cells in the moss Physcomitrella patens, Nature Commun., 8, 14242 (13 pages).
    http://www.nature.com/articles/ncomms14242
    Ikeuchi, M. and Rhodes, J. (2017) Latest advances in plant development and environmental response: the inaugural Cold Spring Harbor Asia Plant Biology meeting in japan. Plant Cell Physiol., 58, 1286-1290.
    https://academic.oup.com/pcp/article/58/8/1286/3867370
    Review papers
    #Franciosini, A., #Rymen, B., Favero, D. S, and *Sugimoto, K. (2017) Molecular networks orchestrating plant cell growth. Curr. Opin. Plant. Biol., 35, 98-104.
    http://www.sciencedirect.com/science/article/pii/S1369526616301984?via%3Dihub
  • -2016-
    Original papers
    Heyman, J., Cools, T., Canher, B., Shavialenka, S., Traas, J., Vercauteren, I., Van den Daele, H., Persiau, G., De Jaeger, G., Sugimoto, K., and *De Veylder, L. (2016) The heterodimeric transcription factor complex ERF115-PAT1 grants regeneration competence. Nature Plants, 2, 16165.
    https://www.nature.com/articles/nplants2016165
    De Lucas, M., Pu, L., Turco, G., Gaudinier, A., Morao, A. K., Harashima, H., Kim, D., Ron, M., Sugimoto, K., Roudier, F., and *Brady, S. M. (2016) Transcriptional regulation of Arabidopsis Polycomb Repressive Complex 2 coordinates cell-type proliferation and differentiation. Plant Cell, 28, 2616-2631.
    http://www.plantcell.org/content/28/10/2616.full
    Weimer, A. K., Biedermann, S., Harashima, H., Roodbarkelari, F., Takahashi, N., Foreman, J., Guan, Y., Pochon, G., Heese, M., Van Damme, D., Sugimoto, K., Koncz, C., Doerner, P., Umeda, M., and *Schnittger, A. (2016) The plant-specific CDKB1-CYCB1 complex mediates homologous recombination repair in Arabidopsis. EMBO J, 35, 2068-2086.
    https://www.embopress.org/doi/full/10.15252/embj.201593083
    Favero, D. S., Jacques, C. N., Iwase, A., Le, K. N., Zhao, J., Sugimoto, K., and *Neff, M. M. (2016) SUPPRESSOR OF PHYTOCHROME B4-#3 represses genes associated with auxin signaling to modulate hypocotyl growth. Plant Physiol., 171, 2701-16.
    http://www.plantphysiol.org/content/171/4/2701.full
    Cifuentes, M., Jolivet, S., Cromer, L., Harashima, H., Bulankova, P., Renne, C., Crismani, W., Nomura, Y., Nakagami, H., Sugimoto, K., Schnittger, A., Riha, K., and *Mercier, R. (2016) TDM1 regulation determines the number of meiotic divisions. PLoS Genet., e1005856 (22 pages).
    http://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1005856
    Review papers
    *Schnittger, A. and *Sugimoto, K. (2016) A journey to the interior of the cell. Curr Opin Plant Biol., 34, iv-vii.
    https://www.sciencedirect.com/science/article/pii/S1369526616301893
    Ikeuchi, M., Ogawa, Y., Iwase, A., and *Sugimoto, K. (2016) Plant regeneration: cellular origins and molecular mechanisms Development 143, 1442-1451.
    http://dev.biologists.org/content/143/9/1442
    Harashima, H. and *Sugimoto, K. (2016) Integration of developmental and environmental signals into cell proliferation and differentiation through RETINOBLASTOMA-RELATED 1 Curr. Opin. Plant Biol., 29, 95-103.
    http://www.sciencedirect.com/science/article/pii/S1369526615300054
  • -2015-
    Original papers
    Kumar, N., Harashima, H., Kalve, S., Bramsiepe, J., Wang, K., Sizani, B. L., Bertrand, L. L., Johnson, M. C., Faulk, C., Dale, R., Simmons, L. A., Churchman, M. L., Sugimoto, K., Kato, N., Dasanayake, M., Beemster, G., Schnittger, A., and Larkin, J. C. (2015) Functional conservation in the SIAMESE-RELATED family of Cyclin-dependent kinase inhibitors in land plants.
    Plant Cell, 27, 3065-3080.
    http://www.plantcell.org/content/27/11/3065.long
    #Ikeuchi, M., #Iwase, A., Rymen, B., Harashima, H., Shibata, M., Ohnuma, M., Breuer, C., Morao, A. K., de Lucas, M., De Veylder, L., Goodrich, J., Brady, S. M., Roudier F., and *Sugimoto, K. (2015) PRC2 represses dedifferentiation of mature somatic cells in Arabidopsis. Nature Plants, 15089.
    http://www.nature.com/articles/nplants201589
    Kobayashi, K., Suzuki, T., Iwata, E., Nakamichi, N., Suzuki, T., Chen, P., Ohtani, M., Ishida, T., Hosoya, H., Muller, S., Leviczky, T., Pettko-Szandtner, A., Darula, Z., Iwamoto, A., Nomoto, M., Tada, Y., Higashiyama, T., Demura, T., Doonan, J. H., Hauser, M. T., Sugimoto, K., Umeda, M., Magyar, Z., Bogre, L., and *Ito, M. (2015) Transcriptional repression by MYB3R proteins regulates plant organ growth. EMBO J., 34, 1992-2007.
    https://www.embopress.org/doi/full/10.15252/embj.201490899
    Narukawa, H., Yokoyama, R., Komaki, S., Sugimoto, K., and *Nishitani, K. (2015) Stimulation of cell elongation by tetraploidy in hypocotyls of dark-grown Arabidopsis seedlings. PLoS ONE 10, e0134547 (13 pages).
    http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0134547
    *Iwase, A., Mita, K., Nonaka, S., Ikeuchi, M., Koizuka, C., Ohnuma, M., Ezura, H., Imamura, J., and *Sugimoto, K. (2015) WIND1-based acquisition of regeneration competency in Arabidopsis and rapeseed. J. Plant Res., 128, 389-397.
    https://link.springer.com/article/10.1007%2Fs10265-015-0714-y
    Kimura, Y., Aoki, S., Ando, E., Kitatsuji, A., Watanabe, A., Ohnishi, M., Takahashi, K., Inoue, S., Nakamichi, N., Tamada, Y., and *Kinoshita, T. (2015) A flowering integrator, SOC1, affects stomatal opening in Arabidopsis thaliana. Plant Cell Physiol., 56, 640-649.
    https://academic.oup.com/pcp/article/56/4/640/2756391
    Review papers
    Ikeuchi, M., Iwase, A., and *Sugimoto, K. (2015) Control of plant cell differentiation by histone modification and DNA methylation. Curr. Opin. Plant. Biol., 28, 60-67.
    http://www.sciencedirect.com/science/article/pii/S1369526615001442
    *Sugimoto, K. (2015) Plant cell reprogramming as an adaptive strategy. J. Plant Res., 128, 345-347.
    http://link.springer.com/article/10.1007%2Fs10265-015-0718-7

Fukuda Group

Shinozaki Group

  • -2019-
    Original papers
    #Uehara, T. N., #Mizutani, Y., Kuwata, K., Hirota, T., Sato, A., Mizoi, J., Takao, S., Matsuo, H., Suzuki, T., Ito, S., Saito, A. N., Nishiwaki-Ohkawa, T., Yamaguchi-Shinozaki, K., Yoshimura, T., Kay, S. A., Itami, K., Kinoshita, T., *Yamaguchi, J., and *Nakamichi, N (2019) Casein kinase 1 family regulates PRR5 and TOC1 in the Arabidopsis circadian clock. Proc. Natl. Acad. Sci. U.S.A., 116, 11528-11536.
    https://doi.org/10.1073/pnas.1903357116
    Sato, H., Suzuki, T., Takahashi, F., Shinozaki, K, and *Yamaguchi-Shinozaki, K. (2019) NF-YB2 and NF-YB3 have functionally diverged and differentially induce drought and heat stress-specific genes. Plant Physiol., 180, 1677-1690.
    https://doi.org/10.1104/pp.19.00391
    Morimoto, K., Cole, K. S., Kourelis, J., Witt, C. H., Brown, D., Krahn, D., Stegmann, M., Kaschani, F., Kaiser, M., Burton, J., Mohammed, S., Yamaguchi-Shinozaki, K., Weerapana, E., and *van der Hoorn, R. A. L. (2019) Triazine probes targeting ascorbate peroxidases in plants. Plant Physiol., 180, 1848-1859.
    https://doi.org/10.1104/pp.19.00481
    Yoshida, T., Obata, T., Feil, R., Lunn, J. E., Fujita, Y., Yamaguchi-Shinozaki, K., and *Fernie, A. R. (2019) The role of abscisic acid signaling in maintaining the metabolic balance required for Arabidopsis growth under non-stress conditions. Plant Cell, 31, 84-105.
    http://www.plantcell.org/content/31/1/84
    Mizoi, J., Kanazawa, N., Kidokoro, S., Takahashi, F., Qin, F., Morimoto, K., Shinozaki, K., and *Yamaguchi-Shinozaki, K. (2019) Heat-induced inhibition of phosphorylation of the stress-protective transcription factor DREB2A promotes thermotolerance of Arabidopsis thaliana. J. Biol. Chem., 294, 902-917.
    https://doi.org/10.1074/JBC.RA118.002662
    Kudo, M., Kidokoro, S., Yoshida, T., Mizoi, J., Kojima, M., Takebayashi, Y., Sakakibara, H., Fernie, A. R., and *Yamaguchi-Shinozaki, K. (2019) A gene-stacking approach to overcome the trade-off between drought stress tolerance and growth in Arabidopsis. Plant J., 97, 240-256.
    https://onlinelibrary.wiley.com/doi/abs/10.1111/tpj.14110
    Tang, Z., Xu, M., Ito, H., Cai, J., Ma, X., *Qin, J., *Yu, D., and *Meng, Y. (2019) Deciphering the non-coding RNA-level response to arsenic stress in rice (Oryza sativa). Plant Signal. Behav., 14, 1629268 (11 pages).
    https://doi.org/10.1080/15592324.2019.1629268
    Yu, D., Lu, J., Shao, W., Ma, X., *Xie, T., Ito, H., *Wang, T., Xu, M., Wang, H., and *Meng, Y. (2019) MepmiRDB: a medicinal plant microRNA database. DATABASE, 2019, baz070 (6 pages).
    https://doi.org/10.1093/database/baz070
    Yu, D., Wan, Y.,Ito, H., Ma, X., Xie, T., Wang, T., Shao, C., and *Meng, Y. (2019) PmiRDiscVali: an integrated pipeline for plant microRNA discovery and validation. BMC Genomics, 20, 133 (7 pages).
    https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-019-5478-7
    Review papers
    Yoshida, T., Christmann, A., Yamaguchi-Shinozaki, K., Grill, E., and *Fernie, A. R. (2019) Revisiting the basal role of ABA – roles outside of stress. Trends Plant Sci., 24, 625-635.
    https://doi.org/10.1016/j.tplants.2019.04.008
    Books
    *Todaka, D., Takahashi, F., Yamaguchi-Shinozaki, K., and Shinozaki, K. (2019) Chapter Three - ABA-responsive gene expression in response to drought stress: cellular regulation and long-distance signaling. In "Advances in Botanical Research vol. 92" edited by Marion-Poll, A. and Seo, M. ELSEVIER, 83-113.
    https://doi.org/10.1016/bs.abr.2019.05.001
  • -2018-
    Original papers
    *Sato, H., Takasaki, H., Takahashi, F., Suzuki, T., Iuchi, S., Mitsuda, N., Ohme-Takagi, M., Ikeda, M., Seo, M., Yamaguchi-Shinozaki, K., and *Shinozaki, K. (2018) Arabidopsis thaliana NGATHA1 transcription factor induces ABA biosynthesis by activating NCED3 gene during dehydration stress. Proc. Natl. Acad. Sci. U.S.A., 115, E11178-E11187.
    http://www.pnas.org/content/115/47/E11178.full
    Kim, J. S., Yamaguchi-Shinozaki, K., and *Shinozaki, K. (2018) ER-anchored transcription factors bZIP17 and bZIP28 regulate root elongation. Plant Physiol., 176, 2221-2230.
    http://www.plantphysiol.org/content/176/3/2221.long
    *Takahashi, F., Suzuki, T., Osakabe, Y., Betsuyaku, S., Kondo, Y., Dohmae, N., Fukuda, H., Yamaguchi-Shinozaki, K., and *Shinozaki, K. (2018) A small peptide modulates stomatal control via abscisic acid in long-distance signaling. Nature, 556, 235-238.
    https://www.nature.com/articles/s41586-018-0009-2
    Yu, D., Xu, M., Ito, H., Shao, W., Ma, X., Wang, H., and *Meng, Y. (2018) Tracking microRNA processing signals by degradome sequencing data analysis. Front. Genet., 9, 546 (13 pages).
    https://www.frontiersin.org/articles/10.3389/fgene.2018.00546/full
    Masuta, Y., Kawabe, A., Nozawa, K., Naito, K., Kato, A., and *Ito, H. (2018) Characterization of a heat-activated retrotransposon in Vigna angularis. Breed. Sci., 68, 168-176.
    https://www.jstage.jst.go.jp/article/jsbbs/68/2/68_17085/_article
  • -2017-
    Original papers
    Yamada, K., Osakabe, Y., and *Yamaguchi-Shinozaki, K. (2017) A C-terminal motif contributes to the plasma membrane localization of Arabidopsis STP transporters. PLOS ONE, 12, e0186326 (13 pages).
    http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0186326
    #Morimoto, K., #Ohama, N., Kidokoro, S., Mizoi, J., Takahashi, F., Todaka, D., Mogami, J., Sato, H., Qin, F., Kim, J. S., Fukao, Y., Fujiwara, M., Shinozaki, K., and *Yamaguchi-Shinozaki, K. (2017) BPM-CUL3 E3 ligase modulates thermotolerance by facilitating negative regulatory domain-mediated degradation of DREB2A in Arabidopsis. Proc. Natl. Acad. Sci. U.S.A., 114, E8528-E8536.
    http://www.pnas.org/content/114/40/E8528.full
    #Sakuraba, Y., #Kim, E. Y., Han, S. H., Piao, W., An, G., Todaka, D., Yamaguchi-Shinozaki, K., and *Paek, N. C. (2017) Rice Phytochrome-Interacting Factor-Like1 (OsPIL1) is involved in the promotion of chlorophyll biosynthesis through feed-forward regulatory loops. J. Exp. Bot., 68, 4103-4114.
    https://academic.oup.com/jxb/article/68/15/4103/3952689/Rice-PhytochromeInteracting-FactorLike1-OsPIL1-is
    Kidokoro, S., Yoneda, K., Takasaki, H., Takahashi, F., Shinozaki, K., and *Yamaguchi-Shinozaki, K. (2017) Different cold-signaling pathways function in the responses to rapid and gradual decreases in temperature. Plant Cell, 29, 760-774.
    http://www.plantcell.org/content/29/4/760
    Todaka, D., Zhao, Y., Yoshida, T., Kudo, M., Kidokoro, S., Mizoi, J., Kodaira, K. S., Takebayashi, Y., Kojima, M., Sakakibara, H., Toyooka, K., Sato, M., Fernie, A. R., Shinozaki, K., and *Yamaguchi-Shinozaki, K. (2017) Temporal and spatial changes in gene expression, metabolite accumulation and phytohormone content in rice seedlings grown under drought stress conditions. Plant J., 90, 61-78.
    http://onlinelibrary.wiley.com/doi/10.1111/tpj.13468/full
    Urano, K., Maruyama, K., Jikumaru, Y., Kamiya, Y., Yamaguchi-Shinozaki, K., and *Shinozaki, K. (2017) Analysis of plant hormone profiles in response to moderate dehydration stress. Plant J., 90, 17-36.
    http://onlinelibrary.wiley.com/doi/10.1111/tpj.13460/full
    #Soma, F., #Mogami, J., Yoshida, T., Abekura, M., Takahashi, F., Kidokoro, S., Mizoi, J., Shinozaki, K., and *Yamaguchi-Shinozaki, K. (2017) ABA-unresponsive SnRK2 protein kinases regulate mRNA decay under osmotic stress in plants, Nature Plants, 3, 16204 (8 pages).
    http://www.nature.com/articles/nplants2016204
    *Maruyama, K., Ogata, T., Kanamori, N., Yoshiwara, K., Goto, S., Yamamoto, Y. Y., Tokoro, Y., Noda, C., Takaki, Y., Urawa, H., Iuchi, S., Urano, K., Yoshida, T., Sakurai, T., Kojima, M., Sakakibara, H., Shinozaki, K., and Yamaguchi-Shinozaki, K. (2017) Design of an optimal promoter involved in the heat-induced transcriptional pathway in Arabidopsis, soybean, rice, and maize. Plant J., 89, 671-680.
    http://onlinelibrary.wiley.com/doi/10.1111/tpj.13420/full
    Kudo, M., Kidokoro, S., Yoshida, T., Mizoi, J., Todaka, D., Fernie, A. R., Shinozaki, K., and *Yamaguchi-Shinozaki, K. (2017) Double overexpression of DREB and PIF transcription factors improves drought stress tolerance and cell elongation in transgenic plants. Plant Biotechnol. J., 15, 458-471.
    http://onlinelibrary.wiley.com/doi/10.1111/pbi.12644/full
    Nozawa, K., Kawagishi, Y., Kawabe, A., Sato, M., Masuta, Y., Kato, A., and *Ito, H. (2017) Epigenetic regulation of a heat-activated retrotransposon in Cruciferous Vegetables. Epigenomes, 1, 7 (11 pages).
    https://www.mdpi.com/2075-4655/1/1/7/htm
    Masuta, Y., Nozawa, K., Takagi, H., Yaegashi, H., Tanaka, K., Ito, T., Saito, H., Kobayashi, H., Matsunaga, W., Masuda, S., Kato, A., and *Ito, H. (2017) Inducible transposition of a heat-activated retrotransposon in tissue culture. Plant cell physiol., 58, 375-384.
    https://academic.oup.com/pcp/article/58/2/375/2737549
    Review papers
    #Ohama, N., #Sato, H., Shinozaki, K., and *Yamaguchi-Shinozaki, K. (2017) Transcriptional regulatory network of plant heat stress response. Trends Plant Sci., 22, 53-65.
    http://www.sciencedirect.com/science/article/pii/S1360138516301261
  • -2016-
    Original papers
    Shimazaki, T., Endo, T., Kasuga, M., Yamaguchi-Shinozaki, K., Watanabe, K. N., and *Kikuchi, A. (2016) Evaluation of the yield of abiotic-stress-tolerant AtDREB1A transgenic potato under saline conditions in advance of field trials. Breed. Sci., 66, 703-710.
    https://www.jstage.jst.go.jp/article/jsbbs/66/5/66_16054/_html
    Honna, P. T., Fuganti-Pagliarini, R., Ferreira, L. C., Molinari, M. D. C., Marin, S. R. R., de Oliveira, M. C. N., Farias, J. R. B., Neumaier, N., Mertz-Henning, L. M., Kanamori, N., Nakashima, K., Takasaki, H., Urano, K., Shinozaki, K., Yamaguchi-Shinozaki, K., Desidério, J. A., and *Nepomuceno, A. L. (2016) Molecular, physiological, and agronomical characterization, in greenhouse and in field conditions, of soybean plants genetically modified with AtGolS2 gene for drought tolerance. Mol. Breed., 36, 157 (17 pages).
    http://link.springer.com/article/10.1007/s11032-016-0570-z
    Sato, H., Todaka, D., Kudo, M., Mizoi, J., Kidokoro, S., Zhao, Y., Shinozaki, K., and *Yamaguchi-Shinozaki, K. (2016) The Arabidopsis transcriptional regulator DPB3-1 enhances heat stress tolerance without growth retardation in rice. Plant Biotechnol. J., 14, 1756-1767.
    http://onlinelibrary.wiley.com/doi/10.1111/pbi.12535/full
    Ohama, N., Kusakabe, K., Mizoi, J., Zhao, H., Kidokoro, S., Koizumi, S., Takahashi, F., Ishida, T., Yanagisawa, S., Shinozaki, K., and *Yamaguchi-Shinozaki, K. (2016) The transcriptional cascade in the heat stress response of Arabidopsis is strictly regulated at the expression levels of transcription factors. Plant Cell, 28, 181-201.
    http://www.plantcell.org/content/28/1/181
    Introduced in "In Brief"
    *Ito, H., Kim, J. M., Matsunaga, W., Saze, H., Matsui, A., Endo, T. A., Harukawa, Y., Takagi, H., Yaegashi, H., Masuta, Y., Masuda, S., Ishida, J., Tanaka, M., Takahashi, S., Morosawa, T., Toyoda, T., Kakutani, T., Kato, A., and Seki, M. (2016) A stress-activated transposon in Arabidopsis induces transgenerational abscisic acid insensitivity. Sci. Rep., 6, 23181 (12 pages).
    http://www.nature.com/articles/srep23181
    Masuda, S., Nozawa, K., Matsunaga, W., Masuta, Y., Kawabe, A., Kato, A., and *Ito, H. (2016) Characterization of a heat-activated retrotransposon in natural accessions of Arabidopsis thaliana. Genes Genet. Syst., 91, 293-299.
    https://www.jstage.jst.go.jp/article/ggs/91/6/91_16-00045/_article
  • -2015-
    Original papers
    Takasaki, H., Maruyama, K., Takahashi, F., Fujita, M., Yoshida, T., Nakashima, K., Myouga, F., Toyooka, K., *Yamaguchi-Shinozaki, K., and *Shinozaki, K. (2015) SNAC-As, stress-responsive NAC transcription factors, mediate ABA-inducible leaf senescence. Plant J., 84, 1114-1123.
    http://onlinelibrary.wiley.com/doi/10.1111/tpj.13067/full
    Kato, H., Komeda, Y., Saito, T., Ito, H., and *Kato, A. (2015) Role of the ACL2 locus in flower stalk elongation in Arabidopsis thaliana. Genes Genet. Syst., 90, 163-174.
    https://www.jstage.jst.go.jp/article/ggs/90/3/90_163/_html/-char/en
    Shida, T., Fukuda, A., Saito, T., Ito, H., and *Kato, A. (2015) AtRBP1, which encodes an RNA-binding protein containing RNA-recognition motifs, regulates root growth in Arabidopsis thaliana. Plant Physiol. Biochem., 92, 62-70.
    http://www.sciencedirect.com/science/article/pii/S0981942815300103
    Matsunaga, W., Ohama, N., Tanabe, N., Masuta, Y., Masuda, S., Mitani-Umeno, N., *Yamaguchi-Shinozaki, K., Ma, J. F., Kato, A., and *Ito, H. (2015) A small RNA mediated regulation of a stress-activated retrotransposon and the tissue specific transposition during the reproductive period in Arabidopsis. Front. Plant Sci., 6, 48 (12 pages).
    https://www.frontiersin.org/articles/10.3389/fpls.2015.00048/full
    Review papers
    Yoshida, T., Mogami, J., and *Yamaguchi-Shinozaki, K. (2015) Omics approaches toward defining the comprehensive abscisic acid signaling network in plants.
    Plant Cell Physiol., 56, 1043-1052.
    https://academic.oup.com/pcp/article/56/6/1043/1926357

Kakutani Group

  • -2019-
    Original papers
    *Rymen, B., Kawamura, A., Lambolez, A., Inagaki, S., Takebayashi, A., Iwase, A., Sakamoto, Y., Sako, K., Favero, D. S., Ikeuchi, M., Suzuki, T., Seki, M., Kakutani, T., Roudier, F., and *Sugimoto, K. (2019) Histone acetylation orchestrates wound-induced transcriptional activation and cellular reprogramming in Arabidopsis. Commun. Biol., 2, 404 (15 pages).
    https://www.nature.com/articles/s42003-019-0646-5
    Ito, T., Nishio, H., Tarutani, Y., Emura, N., Honjo, M. N., Toyoda, A., Fujiyama, A., Kakutani, T., and *Kudoh, H. (2019) Seasonal stability and dynamics of DNA methylation in plants in a natural environment. Genes, 10, E544 (13 pages).
    https://www.mdpi.com/2073-4425/10/7/544
    #Ishihara, H., *#Sugimoto, K., Tarr, P. T., Temman, H., Kadokura, S., Inui, Y., Sakamoto, T., Sasaki, T., Aida, M., Suzuki, T., Inagaki, S., Morohashi, K., Seki, M., Kakutani, T., Meyerowitz, E. M., and *Matsunaga, S. (2019) Primed histone demethylation regulates shoot regenerative competency. Nature Commun., 10, 1786 (15 pages).
    https://www.nature.com/articles/s41467-019-09386-5
  • -2018-
    Original papers
    *Yoshida, T., Tarutani, Y., Kakutani, T., and *Kawabe, A. (2018) DNA methylation diversification at the integrated organellar DNA-like sequence. Genes, 9, E602 (11 pages).
    https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6316516/
  • -2017-
    Original papers
    *#Hosaka, A., #Saito, R., Takashima, K., Sasaki, T., Fu, Y., Kawabe, A., Ito, T., Toyoda, A., Fujiyama, A., Tarutani, Y., and *Kakutani, T. (2017) Evolution of sequence-specific anti-silencing systems in Arabidopsis. Nature Commun., 8, 2161 (10 pages).
    https://www.nature.com/articles/s41467-017-02150-7
    *Inagaki, S., Takahashi, M., Hosaka, A., Ito, T., Toyoda, A., Fujiyama, A., Tarutani, Y., and *Kakutani, T. (2017) Gene-body chromatin modification dynamics mediate epigenome differentiation in Arabidopsis. EMBO J., 36, 970-980.
    http://emboj.embopress.org/content/36/8/970.full
  • -2016-
    Original papers
    *Ito, H., Kim, J. M., Matsunaga, W., Saze, H., Matsui, A., Endo, T. A., Harukawa, Y., Takagi, H., Yaegashi, H., Masuta, Y., Masuda, S., Ishida, J., Tanaka, M., Takahashi, S., Morosawa, T., Toyoda, T., Kakutani, T., Kato, A., and Seki, M. (2016) A stress-activated transposon in Arabidopsis induces transgenerational abscisic acid insensitivity. Sci. Rep., 6, 23181 (12 pages).
    http://www.nature.com/articles/srep23181
  • -2015-
    Original papers
    *#Ito, T., #Tarutani, Y., #To, T. K., Kassam, M., Duvernois-Berthet, E., Cortijo, S., Takashima, K., Saze, H., Toyoda, A., Fujiyama, A., Colot, V., and *Kakutani, T. (2015) Genome-wide negative feedback drives transgenerational DNA methylation dynamics in Arabidopsis. PLoS Genet., 11, e1005154 (26 pages).
    http://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1005154
    Review papers
    #To, T. K., #Saze, H., and *Kakutani, T. (2015) DNA methylation within transcribed regions. Plant Physiol., 168, 1219-1225.
    http://www.plantphysiol.org/content/168/4/1219

Shirasu Group

  • -2019-
    Original papers
    #Motomura, K., #Arae, T., Uramoto, H. A., Suzuki, Y., Takeuchi, H., Suzuki, T., Ichihashi, Y., Shibata, A., Shirasu, K., Takeda, A., Higashiyama, T., and *Chiba, Y. (2019) AtNOT1 is a novel regulator of gene expression during pollen development. Plant Cell Physiol., in press.
    https://doi.org/10.1093/pcp/pcz235
    Yoshida, S., Kim, S., Wafula, E. K., Tanskanen, J., Kim, Y. M., Honaas, L., Yang, Z., Spallek, T., Conn, C. E., Ichihashi, Y., Cheong, K., Cui, S., Der, J. P., Gundlach, H., Jiao, Y., Hori, C., Ishida, J. K., Kasahara, H., Kiba, T., Kim, M. S., Koo, N., Laohavisit, A., Lee, Y. H., Lumba, S., McCourt, P., Mortimer, J. C., Mutuku, J. M., Nomura, T., Sekimoto, Y. S., Seto, Y., Wang, Y., Wakatake, T., Sakakibara, H., Demura, T., Yamaguchi, S., Yoneyama, K., Manabe, R., Nelson, D. C., Schulman, A. H., Timko, M. P., dePamphilis, C. W., Choi, D., and *Shirasu, K. (2019) Genome sequence of Striga asiatica provides insight into the evolution of plant parasitism. Curr. Biol., 29, 3041-3052.
    https://doi.org/10.1016/j.cub.2019.07.086
  • -2018-
    Original papers
    Kadota, Y., Liebrand, T. W. H., Goto, Y., Sklenar, J., Derbyshire, P., Menke, F. L. H., Torres, M. A., Molina, A., Zipfel, C., *Coaker, G., and *Shirasu, K. (2018) Quantitative phosphoproteomic analysis reveals common regulatory mechanisms between effector‐ and PAMP‐triggered immunity in plants. New Phytol., 221, 2160-2175.
    https://doi.org/10.1111/nph.15523
    Mutuku, J. M., Cui, S., Hori, C., Takeda, Y., Tobimatsu, Y., Nakabayashi, R., Mori, T., Saito, K., Demura, T., Umezawa, T., Yoshida, S., and *Shirasu, K. (2018) The structural integrity of lignin is crucial for resistance against Striga hermonthica parasitism in rice. Plant Physiol., 179, 1796-1809.
    https://doi.org/10.1104/pp.18.01133
    *Asai, S., Furzer, O. J., Cevik, V., Kim, D. S., Ishaque, N., Goritschnig, S., Staskawicz, B. J., Shirasu, K., and *Jones, J. D. G. (2018) A downy mildew effector evades recognition by polymorphism of expression and subcellular localization. Nature Commun., 9, 5192 (11 pages).
    https://www.nature.com/articles/s41467-018-07469-3
    *Noutoshi, Y. and *Shirasu, K. (2018) A high-throughput chemical screening method for inhibitors and potentiators of hypersensitive cell death using suspension cell culture of Arabidopsis thaliana. Methods Mol. Biol., 1795, 39-47.
    https://link.springer.com/protocol/10.1007%2F978-1-4939-7874-8_4
    Wakatake, T., Yoshida, S., and *Shirasu, K. (2018) Induced cell fate transitions at multiple cell layers configure haustorium development in parasitic plants. Development, 145, dev164848 (11 pages). [Highlight] [Interview]
    http://dev.biologists.org/content/145/14/dev164848
    *Ichihashi, Y., Kusano, M., Kobayashi, M., Suetsugu, K., Yoshida, S., Wakatake, T., Kumaishi, K., Shibata, A., Saito, K., and *Shirasu, K. (2018) Transcriptomic and metabolomic reprogramming from roots to haustoria in the parasitic plant, Thesium chinense. Plant Cell Physiol., 59, 729-738.
    https://academic.oup.com/pcp/advance-article/doi/10.1093/pcp/pcx200/4769293
    Sato, K., Kadota, Y., Gan, P., Bino, T., Uehara, T., Yamaguchi, K., Ichihashi, I., Maki, N., Iwahori, H., Suzuki, T., *Shigenobu, S., and *Shirasu, K. (2018) High-quality genome sequence of the root-knot nematode Meloidogyne arenaria genotype A2-O. Genome Announc., 6, e00519-18 (2 pages).
    https://mra.asm.org/content/6/26/e00519-18
    Cui, S., Wada, S., Tobimatsu, Y., Takeda, Y., Saucet, S. B., Takano, T., Umezawa, T., Shirasu, K., and *Yoshida, S. (2018) Host lignin composition affects haustorium induction in the parasitic plants Phtheirospermum japonicum and Striga hermonthica. New Phytol., 218, 710-723.
    https://nph.onlinelibrary.wiley.com/doi/full/10.1111/nph.15033
    Uemura, A., Yamaguchi, N, Xu, Y., Wee, W., Ichihashi, Y., Suzuki, T., Shibata, A., Shirasu, K., and *Ito, T. (2018) Regulation of floral meristem activity through the interaction of AGAMOUS, SUPERMAN, and CLAVATA3 in Arabidopsis. Plant Reprod., 31, 89-105.
    https://link.springer.com/article/10.1007/s00497-017-0315-0
    *Ichihashi, Y., Fukushima, A., Shibata, A., and Shirasu, K. (2018) High impact gene discovery: simple strand-specific mRNA library construction and differential regulatory analysis based on gene co-expression network. Methods Mol. Biol., 1830, 163-189.
    https://link.springer.com/protocol/10.1007/978-1-4939-8657-6_11
    Review papers
    *Spallek, T., Gan, P., Kadota, Y., and *Shirasu, K. (2018) Same tune, different song - Cytokinins as virulence factors in plant-pathogen interactions? Curr. Opin. Plant Biol., 44, 82-87.
    https://www.sciencedirect.com/science/article/pii/S1369526617301966
  • -2017-
    Original papers
    Ishida, J. K., Yoshida, S., and *Shirasu, K. (2017) Quinone oxidoreductase 2 is involved in haustorium development of the parasitic plant Phtheirospermum japonicum. Plant Signal. Behav., 12, e1319029 (4 pages) .
    http://www.tandfonline.com/doi/full/10.1080/15592324.2017.1319029
    Xu, B., Cheval, C., Laohavisit, A.,Hocking, B., Chiasson, D., Olsson, T. S. G., *Shirasu, K., Faulkner, C., and Gilliham, M. (2017) A calmodulin-like protein regulates plasmodesmal closure during bacterial immune responses. New Phytol., 215, 77-84.
    http://onlinelibrary.wiley.com/doi/10.1111/nph.14599/full
    Ishida, J. K., Yoshida, S., and *Shirasu, K. (2017) Haustorium induction assay of the parasitic plant Phtheirospermum japonicum. Bio-protocol, 7, e2260 (9 pages).
    http://www.bio-protocol.org/e2260
    Gan, P., Nakata, N., Suzuki, T., and *Shirasu, K. (2017) Markers to differentiate species of anthracnose fungi identify Colletotrichum fructicola as the predominant virulent species in strawberry plants in Chiba Prefecture of Japan. J. Gen. Plant Path., 83, 14-22.
    https://link.springer.com/article/10.1007/s10327-016-0689-0
    Gan, P., Narusaka, M., Tsushima, A., Narusaka, Y., Takano, Y., and *Shirasu, K. (2017) Draft genome assembly of Colletotrichum chlorophyti, a pathogen of herbaceous plants. Genome Announc., 5, e01733-16.
    https://mra.asm.org/content/5/10/e01733-16
    #Spallek, T., #Melnyk, C. W., Wakatake, T., Zhang, J., Sakamoto, Y., Kiba, T., Yoshida, S., Matsunaga, S., Sakakibara, H., and *Shirasu, K. (2017) Interspecies hormonal control of host root morphology by parasitic plants. Proc. Natl. Acad. Sci. U.S.A., 114, 5283-5288.
    http://www.pnas.org/content/114/20/5283
    Review papers
    *López-Ráez, J. A., Shirasu, K., and Foo, E. (2017) Strigolactones in plant interactions with beneficial and detrimental organisms: the yin and yang. Trends in Plant Sci., 22, 527-537.
    http://www.cell.com/trends/plant-science/abstract/S1360-1385(17)30062-6
  • -2016-
    Original papers
    Yamada, K., Yamaguchi, K., Shirakawa, T., Nakagami, H., Mine, A., Ishikawa, K., Fujiwara, M., Narusaka, M., Narusaka, Y., Ichimura, K., Kobayashi, Y., Matsui, H., Nomura, Y., Nomoto, M., Tada, Y., Fukao, Y., Fukamizo, T., Tsuda, K., Shirasu, K., Shibuya, N., and *Kawasaki, T. (2016) The Arabidopsis CERK1-associated kinase PBL27 connects chitin perception to MAPK activation. EMBO J., 35, 2468-2483.
    http://emboj.embopress.org/content/35/22/2468
    Saucet, S. B. and *Shirasu, K. (2016) Molecular parasitic plant-host interactions. PLoS Pathog., 12, e1005978 (6 pages).
    http://journals.plos.org/plospathogens/article?id=10.1371/journal.ppat.1005978
    Ishida, J. K., Wakatake, T., Yoshida, S., Takebayashi, Y., Kasahara, H., Wafula, E., dePamphilis, C. W., Namba, S., and *Shirasu, K. (2016) Local auxin biosynthesis mediated by a YUCCA flavin monooxygenase regulates the haustorium development in the parasitic plant Phtheirospermum japonicum. Plant Cell, 28, 1795-1814.
    http://www.plantcell.org/content/28/8/1795
    Gan, P., Narusaka, M., Kumakura, N., Tsushima, A., Takano, Y., Narusaka, Y., and *Shirasu, K. (2016) Genus-wide comparative genome analyses of Colletotrichum species reveal specific gene family losses and gains during adaptation to specific infection lifestyles. Genome Biol. Evol., 8, 1467-1481.
    https://academic.oup.com/gbe/article/8/5/1467/2939589
    Cui, S., Wakatake, T., Hashimoto, K., Saucet, S. B., Toyooka, K., *Yoshida, S., and *Shirasu, K. (2016) Haustorial hairs are specialized root hairs that support parasitism in the facultative parasitic plant, Phtheirospermum japonicum. Plant Physiol., 170, 1492-1503.
    http://www.plantphysiol.org/content/170/3/1492.full
    Review papers
    Yoshida, S., Cui, S., Ichihashi, Y., and Shirasu, K. (2016) The haustorium, a specialized invasive organ in parasitic plants. Annu. Rev. Plant Biol., 67, 643-667.
    https://doi.org/10.1146/annurev-arplant-043015-111702
  • -2015-
    Original papers
    Adachi, H., Nakano, T., Miyagawa., N., Ishihama, N., Yoshioka, M., Katou, Y., Yaeno, T., Shirasu, K., and *Yoshioka, H. (2015) WRKY transcription factors phosphorylated by MAPK regulate a plant immune NADPH oxidase in Nicotiana benthamiana. Plant Cell, 27, 2645-2663.
    http://www.plantcell.org/content/27/9/2645
    Conn, C. E., Bythell-Douglas, R., Neumann, D., Yoshida, S., Whittington, B., Westwood, J. H., Shirasu, K., Bond, C. S., Dyer, K. A., and *Nelson, D. C. (2015) Convergent evolution of strigolactone perception enabled host detection in parasitic plants. Science, 349, 540-543.
    http://www.sciencemag.org/content/349/6247/540.full
    Mutuku, J. M., Yoshida, S., Shimizu, T., Ichihashi, Y., Wakatake., T., Takahashi., A., Seo, M., and *Shirasu, K. The WRKY45-dependent signaling pathway is required for resistance against Striga hermonthica parasitism. (2015) Plant Physiol., 168, 1152-1163.
    http://www.plantphysiol.org/content/168/3/1152
    Review papers
    *Asai, S. and *Shirasu, K. (2015) Plant cells under siege: plant immune system versus pathogen effectors. Curr. Opin. Plant Biol., 28, 1-8.
    http://www.sciencedirect.com/science/article/pii/S1369526615001284
    Ichihashi, Y., Mutuku, J. M., Yoshida, S., and *Shirasu, K. (2015) Transcriptomics exposes the uniqueness of parasitic plants. Brief. Funct. Genomics, 14, 275-282.
    https://academic.oup.com/bfg/article/14/4/275/202385
    *Kadota, Y., Shirasu, K., and Zipfel, C. (2015) Regulation of the NADPH oxidase RBOHD during plant immunity. Plant Cell Physiol., 56, 1472-1480.
    https://academic.oup.com/pcp/article/56/8/1472/1845322
    Books
    Mutuku, J. M., Spallek, T., and Shirasu, K. Striga: physiology, effects, and genomics. (2015) YEARBOOK OF SCIENCE & TECHNOLOGY, 312-314.