Research Results - Associated research group (FY2016 to 2017)

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

 
Arimura group Ashikari group Buzas Group Fujii group
Kanaoka group Kawasaki group Kiba group Kimura group
Matsushita group Miura group Nagano group Notaguchi group
Saijo group Seki group Suzaki group Takahashi group
Takezawa group Uchida group Yamaguchi group

Arimura group

  • -2017-
    Original papers
    Nemoto, K., Ramadan, A., Arimura, G., Imai, K., Tomii, K., Shinozaki, K., and Sawasaki, T. (2017) Tyrosine phosphorylation of the GARU E3 ubiquitin ligase promotes gibberellin signalling by preventing GID1 degradation. Nature Commun., 8, 1004. (15 pages).
    https://www.nature.com/articles/s41467-017-01005-5
    Ozawa, R., Endo, H., Iijima, M., Sugimoto, K., Takabayashi, T., Gotoh, T. and Arimura, G. (2017) Intraspecific variation among Tetranychid mites for ability to detoxify and to induce plant defenses. Sci. Rep., 7, 43200.
    https://www.nature.com/articles/srep43200
    Review papers
    Yazaki, K., Arimura, G., Ohnishi, T. (2017) 'Hidden' terpenoids in plants: their biosynthesis, localisation and ecological roles. Plant Cell Physiol., 58, 1615-1621.
    https://academic.oup.com/pcp/article/58/10/1615/4096626
    Books
    Arimura, G. and Pearse, I. (2017) From the lab bench to the forest: ecology and defence mechanisms of volatile-mediated "talking trees." In "Advances in Botanical Research vol. 82. Communication between Plants, and between Plants and Other Organisms" edited by Becard, G. Elsevier, Amsterdam, the Netherland, 3-17.
  • -2016-
    Books
    Arimura, G. and Maffei, M. E. (2016) Plant specialized metabolism: genomics, biochemistry, and biological functions. CRC Press, Boca Raton, FL, USA, 376.
    Arimura, G. and Maffei, M. E. (2016) Introduction to plant specialized metabolism. In "Plant Specialized Metabolism: Genomics, Biochemistry, and Biological Functions" edited by Arimrua, G. and Maffei, M.E. CRC Press, 1-7.
    Arimura, G., Matsui, K., Koeduka, T., Holopainen, J.K. (2016) Biosynthesis and regulation of plant volatiles, and their functional roles in ecosystem interactions and global environmental changes. In "Plant Specialized Metabolism: Genomics, Biochemistry, and Biological Functions" edited by Arimrua, G. and Maffei, M.E. CRC Press, 185-237.

Ashikari group

  • -2017-
    Original papers
    Bessho-Uehara, K., Furuta, T., Masuda, K., Yamada, S., Angeles-Shim, R., Ashikari, M., *Takashi, T. (2017) Construction of rice chromosome segment substitution lines harboring Oryza barthii genome and evaluation of yield-related traits. Breeding Science, 67, 408-415.
    https://www.jstage.jst.go.jp/article/jsbbs/67/4/67_17022/_article
    Gamuyao, R., Nagai, K., Ayano, M., Mori, Y., Minami, A., Kojima, M., Suzuki, T., Sakakibara, H., Higashiyama, T., Ashikari, M., *Reuscher, S. (2017) Hormone distribution and transcriptome profiles in bamboo shoots provide insights on bamboo stem emergence and growth. Plant Cell Physiol., 58, 702-716.
    https://academic.oup.com/pcp/article/58/4/702/2993903
  • -2016-
    Original papers
    Furuta, T., Bessho-Uehara, K., Angeles-Shim, R., Shim, J., Nagai, K., Ashikari, M.,*Takashi, T. (2016) Development of chromosome segment substitution lines harboring Oryza nivara genomic segments in Koshihikari and evaluation of yield-related traits. Breeding Science, 66, 845-850.
    https://www.jstage.jst.go.jp/article/jsbbs/66/5/66_16131/_article
    *Kanako Bessho- Uehara, *Diane R. Wang, Tomoyuki Furuta, Anzu Minami, Keisuke Nagai, Rico Gamuyao, Kenji Asano, Rosalyn B. Angeles-Shim, Yoshihiro Shimizu, Madoka Ayano, Norio Komeda, Kazuyuki Doi, Kotaro Miura, Yosuke Toda, Toshinori Kinoshita, Satohiro Okuda, Tetsuya Higashiyama, Mika Nomoto, Yasuomi Tada, Hidefumi Shinohara, Yoshikatsu Matsubayashi, Anthony Greenberg, Jianzhong Wu, Hideshi Yasui, Atsushi Yoshimura, Hitoshi Mori, Susan R. McCouch & Motoyuki Ashikari (2016) Loss of function at RAE2, a previously unidentified EPFL, is required for awnlessness in cultivated Asian rice, PNAS, 113, 8969-8974.
    http://www.pnas.org/content/early/2016/07/26/1604849113

Buzas Group

Fujii group

  • -2016-
    Original papers
    Kubo, K., Tsukahara, M., Fujii, S., Murasem K., Wada, Y., Entani, T., Iwano, M., and *Takayama, S. (2016) Cullin1-P is an essential component of non-self recognition system in self-incompatibility in Petunia. Plant Cell Physiol., 57, 2403-2416.
    http://pcp.oxfordjournals.org/content/early/2016/08/26/pcp.pcw152.long
    *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
    Review papers
    Fujii, S., Kubo, K., and *Takayama, S. (2016) Non-self- and self-recognition models in plant self-incompatibility. Nature Plants, 2, 16130.
    http://www.nature.com/articles/nplants2016130

Kawasaki group

  • -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

Kiba group

  • -2017-
    Original papers
    Pudasaini, A., Shim, J. S., Song, Y. H., Shi, H., Kiba, T., Somers, D. E., Imaizumi, T., and *Zoltowski, D. E. (2017) Kinetics of the LOV domain of ZEITLUPE determine its circadian function in Arabidopsis. eLIFE, 6, e21646 (27 pages).
    https://elifesciences.org/articles/21646#abstract
    Osugi, O., Kojima, M., Takebayashi, Y., Ueda, N., Kiba, T., and *Sakakibara, H. (2017) Systemic transport of trans-zeatin and its precursor have differing roles in Arabidopsis shoots. Nature Plants, 3 , 17112.
    https://www.nature.com/articles/nplants2017112
    #Spallek, T., #Melnyk, C., W., Wakatake, T., Zhang, J., Sakamoto, Y., Kiba, T., Yoshida, S., Matsunaga, S., Sakakibara, H. and *Shirasu, K. (2017) Inter-species 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
  • -2016-
    Original papers
    *Kiba, T. and Henriques, R. (2016) Assessing protein stability under different light and circadian conditions. Methods Mol. Biol., 398, 141-152.
    https://link.springer.com/protocol/10.1007%2F978-1-4939-3356-3_13
    *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.long
    Review papers
    *Kiba, T. and *Krapp, A. (2016) Plant nitrogen acquisition under low availability: regulation of uptake and root architecture. Plant Cell Physiol., 57, 707-714.
    https://academic.oup.com/pcp/article/57/4/707/2461115

Kimura group

  • -2017-
    Original papers
    Yoshiyama, K. O., Kaminoyama, K., Sakamoto, T., and *Kimura, S. (2017) Increased phosphorylation of Ser-Gln sites on SUPPRESSOR OF GAMMA RESPONSE1 strengthens the DNA damage response in Arabidopsis thaliana. Plant Cell, 29, 3255-3268.
    http://www.plantcell.org/content/29/12/3255
    *Nakamasu, A., Suematsu, N. J., and Kimura, S. (2017) Asymmetries in leaf branch are associated with differential speeds along growth axes: A theoretical prediction. Developmental Dynamics, 246, 981-991.
    http://onlinelibrary.wiley.com/doi/10.1002/dvdy.24587/full
    Kawakatsu, Y., Nakayama, H., Kaminoyama, K., Igarashi, K., Yasugi, M., Kudoh, H., Nagano A. J., Yano K, Kubo N, and Kimura, S. (2017) A GLABRA1 ortholog on LG A9 controls trichome number in the Japanese leafy vegetables Mizuna and Mibuna (Brassica rapa subsp. Nipposinicai L. H. Bailey): evidence from QTL analysis. Journal of Plant Research, 130, 539-550.
    https://link.springer.com/article/10.1007%2Fs10265-017-0917-5
    Review papers
    Nakayama, H., Sinha, N., and *Kimura, S. (2017) How do plants and phytohormones accomplish heterophylly, leaf phenotypic plasticity, in response to environmental cues. Front. Plant Sci., 8, 1717 (7 pages).
    https://www.frontiersin.org/articles/10.3389/fpls.2017.01717/full

Matsushita group

  • -2017-
    Original papers
    #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

Miura group

  • -2017-
    Original papers
    Shimatani, Z., Kashojiya, S., Takayama, M., Terada, R., Arazoe, T., Ishii, H., Teramura, H., Yamamoto, T., Komatsu, H., Miura, K., Ezura, H., Nishida, K., Ariizumi, T., and Kondo, A. (2017) Targeted base editing in rice and tomato using a CRISPR-Cas9 cytidine deaminase fusion. Nature Biotechnol., 35, 441-443.
    http://www.nature.com/nbt/journal/v35/n5/abs/nbt.3833.html?lang=en

Nagano group

  • -2016-
    Original papers
    #*Hoshino, A., #Jayakumar, V., Nitasaka, E., Toyoda, A., Noguchi, H., Itoh, T., Shin-I, T., Minakuchi, Y., Koda, Y., Nagano, A. J., Yasugi, M., Honjo, M., Kudoh, H., Seki, M., Kamiya, A., Shiraki, T., Carninci, P., Asamizu, E., Nishide, H., Tanaka, S., Park, K.I., Morita, Y., Yokoyama, K., Uchiyama, I., Tanaka, Y., Tabata, S., Shinozaki, K., Hayashizaki, Y., Kohara, Y., Suzuki, Y., Sugano, S., Fujiyama, A., Iida, S. and *Sakakibara, Y. (2016) Genome sequence and analysis of the Japanese morning glory Ipomoea nil. Nature Commun., 7, 13295. (10 pages).
    http://www.nature.com/articles/ncomms13295

Notaguchi group

  • -2016-
    Original papers
    #*Kasahara, R. D., #Notaguchi, M., Nagahara, S., Suzuki, T., Susaki, D., Honma, Y., Maruyama, D., Higashiyama, T. (2016) Pollen tube contents initiate ovule enlargement and enhance seed coat development without fertilization. Sci. Adv., 2, e1600554 (7 pages).
    http://advances.sciencemag.org/content/2/10/e1600554.full

Saijo group

  • -2017-
    Original papers
    Ariga, H., Katori, T., Tsuchimatsu, T., Hirase, T., Tajima, Y., Parker, J. E., Alcázar R, Koornneef, M., Hoekenga, O., Lipka, A. E., Gore, M. A., Sakakibara, H., Kojima, M., Kobayashi, Y., Iuchi, S., Kobayashi, M., Shinozaki, K., Sakata, Y., Hayashi, T., Saijo, Y., and *Taji, T. (2017) NLR locus-mediated trade-off between abiotic and biotic stress adaptation in Arabidopsis. Nature Plants, 3, 17072 (8 pages).
    https://www.nature.com/articles/nplants201772
    Review papers
    #Yasuda, S., #Okada, K., and *Saijo, Y. (2017) A look at plant immunity through the window of the multitasking coreceptor BAK1. Curr. Opin. Plant Biol., 38, 10-18.
    http://www.sciencedirect.com/science/article/pii/S1369526617300110?via%3Dihub

Seki group

  • -2017-
    Original papers
    Ueda, M., Matsui, A., Tanaka, M., Nakamura, T., Abe, T., Sako, K., Sasaki, T., Kim, J.M., Ito, A., Nishino, N., Shimada, H., Yoshida, M. and *Seki, M. (2017) The distinct roles of class I and II RPD3-like histone deacetylases in salinity stress response. Plant Physiol., 175, 1760-1773.
    http://www.plantphysiol.org/content/175/4/1760
    Li, W., Nguyen, K., Chu, D.H., Ha, C.V., Watanabe, Y., Osakabe, Y., Leyva-Gonzalez, M., Sato, M., Toyooka, K., Voges, L., Tanaka, M., Seki, M., Seo, M., Yamaguchi, S., Nelson, D., Herrera-Estrella, L. and *Tran, L.S. (2017) The karrikin receptor KAI2 promotes drought resistance in Arabidopsis thaliana. PLoS Genet., 13, e1007076 (23 pages).
    http://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1007076
    Shirai, K., Matsuda, F., Nakabayashi, R., Okamoto, M., Tanaka, M., Fujimoto, A., Shimizu, M., Shinozaki, K., Seki, M., Saito, K. and *Hanada, K. (2017) A highly specific genome-wide association study integrated with transcriptome data reveals the contribution of copy number variations to specialized metabolites in Arabidopsis thaliana accessions. Mol. Biol. Evol., 34, 3111-3122.
    https://academic.oup.com/mbe/article-abstract/34/12/3111/4110007?redirectedFrom=fulltext
    Matsui, A., Iida, K., Tanaka, M., Yamaguchi, K., Mizunashi, K., Kim, J. M., Takahashi, S., Kobayashi, N., Shigenobu, S., Shinozaki, K. and *Seki, M. (2017) Novel stress-inducible antisense RNAs of protein-coding loci are synthesized by RNA-dependent RNA polymerase. Plant Physiol., 175, 457-472.
    http://www.plantphysiol.org/content/175/1/457.long
    Nguyen, H. M., Sako, K., Matsui, A., Suzuki, Y., Mostofa, M. G., Ha, C. V., Tanaka, M., Tran, L. S. P., Habu, Y. and *Seki, M. (2017) Ethanol enhances high-salinity stress tolerance by detoxifying reactive oxygen species in Arabidopsis thaliana and rice. Front. Plant Sci., 8, 1001 (10 pages).
    http://journal.frontiersin.org/article/10.3389/fpls.2017.01001/full
    #*Kim, J. M., #To, K. T., 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., Endo, T., 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
    Nguyen, C. C., Nakaminami, K., Matsui, A., Watanabe, S., Kanno, Y., Seo, M. and *Seki, M. (2017) Overexpression of oligouridylate binding protein 1b results in ABA hypersensitivity. Plant Signal. Behav., 12, e1282591 (10 pages).
    https://www.tandfonline.com/doi/full/10.1080/15592324.2017.1282591
    Patanun, O., Ueda, M., Itouga, M., Kato, Y., Utsumi, Y., Matsui, A., Tanaka, M., Utsumi, C., Sakakibara, H., Yoshida, M., Narangajavana, J., and *Seki, M. (2017) The histone deacetylase inhibitor suberoylanilide hydroxamic acid alleviates salinity stress in cassava. Front. Plant Sci, 7, 2039.
    https://www.frontiersin.org/articles/10.3389/fpls.2016.02039/full
    #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

Suzaki group

  • -2016-
    Original papers
    Nishida, H., Handa, Y., Tanaka, S., *Suzaki, T. and *Kawaguchi, M. (2016) Expression of the CLE-RS3 gene suppresses root nodulation in Lotus japonicus. J. Plant Res., 129, 909-919.
    http://link.springer.com/article/10.1007%2Fs10265-016-0842-z
    Pfeiffer, A., Janocha, D., Dong, Y., Medzihradszky, A., Schöne, S., Daum, G.,Suzaki, T., Forner, J., Langenecker, T., Rempel, E., Schmid, M., Wirtz, M., Hell, R., and *Lohmann, J.U. (2016) Integration of light and metabolic signals for stem cell activation at the shoot apical meristem. eLife, 5, e17023 (21 pages).
    https://elifesciences.org/content/5/e17023

Takahashi group

  • -2017-
    Original papers
    #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 *Shinozaki, K. Y. (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
    Kidokoro, S., Yoneda, K., Takasaki, H., Takahashi, F., Shinozaki, K., and *Shinozaki, K. Y. (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
    #Soma, F., #Mogami, J., Yoshida, T., Abekura, M., Takahashi, F., Kidokoro, S., Mizoi, J., Shinozaki, K., and *Shinozaki, K. Y. (2017) ABA-unresponsive SnRK2 protein kinases regulate mRNA decay under osmotic stress in plants. Nature Plants, 3, 16204.
    https://www.nature.com/articles/nplants2016204
  • -2016-
    Original papers
    Ohama, N., Kusakabe, K., Mizoi, J., Zhao, H., Kidokoro, S., Koizumi, S., Takahashi, F., Ishida, T., Yanagisawa, S., Shinozaki, K., and *Shinozaki, K. Y. (2016) The transcriptional cascade in the heat stress response of Arabidopsis is strictly regulated at the level of transcription factor expression. Plant Cell, 28, 181-201.
    http://www.plantcell.org/content/28/1/181

Takezawa group

  • -2016-
    Original papers
    Ghosh, T. K., Kaneko, M., Akter, K., Murai, S., Komatsu, K., Ishizaki, K., Yamato, T. K., Kohchi, T. and *Takezawa, D. (2016) Abscisic acid-induced gene expression in the liverwort Marchantia polymorpha is mediated by evolutionarily conserved promoter elements. Physiol. Plant., 156, 407-420.
    https://onlinelibrary.wiley.com/doi/10.1111/ppl.12385

Uchida group

  • -2016-
    Original papers
    Tameshige, T., Okamoto, S., Tasaka, M., *Torii, K. U., and *Uchida, N. (2016) Impact of erecta mutation on leaf serration differs between Arabidopsis accessions. Plant Signal. Behav., 12, e1261231 (3 pages).
    https://www.tandfonline.com/doi/full/10.1080/15592324.2016.1261231
    Tameshige, T., Okamoto, S., Lee, J. S., Aida, M., Tasaka, M., *Torii, K. U., and *Uchida, N. (2016) A secreted peptide and its receptors shape the auxin response pattern and leaf margin morphogenesis. Curr. Biol., 26, 2478-2485.
    http://bit.ly/2h6oGWB
    #Ogawa, T., #Mori, A., Igari, K., Morita, M. T., *Tasaka, M., and *Uchida, N. (2016) Efficient in planta detection and dissection of de novo mutation events in the Arabidopsis thaliana disease resistance gene UNI. Plant Cell Physiol., 57, 1123-1132.
    https://academic.oup.com/pcp/article/57/6/1123/2461008

Yamaguchi group

  • -2017-
    Original papers
    #Yamaguchi, N., #Huang, J., Xu, Y., Tanoi, K., and *Ito, T. (2017) Fine-tuning of auxin homeostasis governs the transition from floral stem cell maintenance to gynoecium formation. Nature Commun., 8, 1125 (15 pages).
    https://www.nature.com/articles/s41467-017-01252-6