PhD Students

2023

Journal Article

Johanndrees, O.; Baggs, E. L.; Uhlmann, C.; Locci, F.; Laessle, H.; Melkonian, K.; Käufer, K.; Dongus, J. A.; Nakagami, H.; Krasileva, K. V. et al.; Parker, J. E.; Lapin, D.: Variation in plant Toll/Interleukin-1 receptor domain protein dependence on ENHANCED DISEASE SUSCEPTIBILITY 1. Plant Physiology 191, kiac480, pp. 626 - 642 (2023)

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Nishikawa, M.; Katsu, K.; Koinuma, H.; Hashimoto, M.; Neriya, Y.; Matsuyama, J.; Yamamoto, T.; Suzuki, M.; Matsumoto, O.; Matsui, H. et al.; Nakagami, H.; Maejima, K.; Namba, S.; Yamaji, Y.: Interaction of EXA1 and eIF4E Family Members Facilitates Potexvirus Infection in Arabidopsis thaliana. Journal of Virology (2023)

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Yotsui, I.; Matsui, H.; Miyauchi, S.; Iwakawa, H.; Melkonian, K.; Schlueter, T.; Michavila, S.; Kanazawa, T.; Nomura, Y.; Stolze, S. C. et al.; Jeon, H.-W.; Yan, Y.; Harzen, A.; Sugano, S. S.; Shirakawa, M.; Nishihama, R.; Ichihashi, Y.; Gimenez Ibanez, S.; Shirasu, K.; Ueda, T.; Kohchi, T.; Nakagami, H.: LysM-mediated signaling in Marchantia polymorpha highlights the conservation of pattern-triggered immunity in land plants. Current Biology (2023)

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2022

Journal Article

Bowman, J. L.; Arteaga-Vazquez, M.; Berger, F.; Briginshaw, L. N.; Carella, P.; Aguilar-Cruz, A.; Davies, K. M.; Dierschke, T.; Dolan, L.; Dorantes-Acosta, A. E. et al.; Fisher, T. J.; Flores-Sandoval, E.; Futagami, K.; Ishizaki, K.; Jibran, R.; Kanazawa, T.; Kato, H.; Kohchi, T.; Levins, J.; Lin, S.-S.; Nakagami, H.; Nishihama, R.; Romani, F.; Schornack, S.; Tanizawa, Y.; Tsuzuki, M.; Ueda, T.; Watanabe, Y.; Yamato, K. T.; Zachgo, S.: The renaissance and enlightenment of Marchantia as a model system. Plant Cell 27, pp. 3512 - 3542 (2022)

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Dongus, J. A.; Bhandari, D. D.; Penner, E.; Lapin, D.; Stolze, S. C.; Harzen, A.; Patel, M.; Archer, L.; Dijkgraaf, L.; Shah, J. et al.; Nakagami, H.; Parker, J. E.: Cavity surface residues of PAD4 and SAG101 contribute to EDS1 dimer signaling specificity in plant immunity. The Plant Journal 110 (5), pp. 1415 - 1432 (2022)

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Matsumoto, A.; Schlueter, T.; Melkonian, K.; Takeda, A.; Nakagami, H.; Mine, A.: p A versatile Tn7 transposon-based bioluminescence tagging tool for quantitative and spatial detection of bacteria in plants. Plant Communications 3 (1), 100227 (2022)

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Journal Article

Melkonian, K.; Stolze, S. C.; Harzen, A.; Nakagami, H.: miniTurbo-based interactomics of two plasma membrane-localized SNARE proteins in Marchantia polymorpha. New Phytologist 235 (2), pp. 786 - 800 (2022)

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Vinegra de la Torre, N.; Vayssières, A.; Obeng-Hinneh, E.; Neumann, U.; Zhou, Y.; Lazaro, A.; Roggen, A.; Sun, H.; Stolze, S. C.; Nakagami, H. et al.; Schneeberger, K.; Timmers, T.; Albani, M.: FLOWERING REPRESSOR AAA(+) ATPase 1 is a novel regulator of perennial flowering in Arabis alpina. New Phytologist 236, pp. 729 - 744 (2022)

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2021

Journal Article

Andrej, B.; Lenka, B.; Buchler, L.; Stolze, S.; Sobh, A.; Kraus, M.; Nakagami, H.; Driessen, C.: Genome-wide CRISPR/Cas9 screening identifies proteasome-related specific vulnerabilities as potential treatment options of proteasome inhibitor-resistant multiple myeloma. Clinical Lymphoma Myeloma and Leukemia 21, pp. S88 - S89 (2021)

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Journal Article

Besse, A.; Besse, L.; Buchler, L.; Stolze, S. C.; Sobh, A.; Kraus, M.; Nakagami, H.; Driessen, C.: Essential Drug Targets and Pathways in PI-Resistant MM Cells. Blood 138, 1577 (2021)

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Iwakawa, H.; Melkonian, K.; Schluter, T.; Jeon, H.-W.; Nishihama, R.; Motose, H.; Nakagami, H.: Agrobacterium-Mediated Transient Transformation of Marchantia Liverworts. Plant and Cell Physiology 62 (11), pp. 1718 - 1727 (2021)

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Journal Article

Kimura, T.; Haga, K.; Nomura, Y.; Higaki, T.; Nakagami, H.; Sakai, T.: Phosphorylation of NONPHOTOTROPIC HYPOCOTYL3 affects photosensory adaptation during the phototropic response. Plant Physiology 187 (2), pp. 981 - 995 (2021)

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Ma, K.-W.; Niu, Y.; Jia, Y.; Ordon, J.; Copeland, C.; Emonet, A.; Geldner, N.; Guan, R.; Stolze, S. C.; Nakagami, H. et al.; Garrido-Oter, R.; Schulze-Lefert, P.: Coordination of microbe–host homeostasis by crosstalk with plant innate immunity. Nature Plants (2021)

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Pruitt, R. N.; Locci, F.; Wanke, F.; Zhang, L.; Saile, S. C.; Joe, A.; Karelina, D.; Hua, C.; Fröhlich, K.; Wan, W.-L. et al.; Hu, M.; Rao, S.; Stolze, S. C.; Harzen, A.; Gust, A. A.; Harter, K.; Joosten, M. H. A. J.; Thomma, B. P. H. J.; Zhou, J.-M.; Dangl, J. L.; Weigel, D.; Nakagami, H.; Oecking, C.; Kasmi, F. E.; Parker, J. E.; Nürnberger, T.: The EDS1–PAD4–ADR1 node mediates Arabidopsis pattern-triggered immunity. Nature (2021)

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Sanagi, M.; Aoyama, S.; Kubo, A.; Lu, Y.; Sato, Y.; Ito, S.; Abe, M.; Mitsuda, N.; Ohme-Takagi, M.; Kiba, T. et al.; Nakagami, H.; Rolland, F.; Yamaguchi, J.; Imaizumi, T.; Sato, T.: Low nitrogen conditions accelerate flowering by modulating the phosphorylation state of FLOWERING BHLH 4 in Arabidopsis. Proceedings of the National Academy of Sciences of the United States of America 118 (19), e2022942118 (2021)

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Sun, X.; Lapin, D.; Feehan, J. M.; Stolze, S. C.; Kramer, K.; Dongus, J. A.; Rzemieniewski, J.; Blanvillain-Baufumé, S.; Harzen, A.; Bautor, J. et al.; Derbyshire, P.; Menke, F. L. H.; Finkemeier, I.; Nakagami, H.; Jones, J. D. G.; Parker, J. E.: Pathogen effector recognition-dependent association of NRG1 with EDS1 and SAG101 in TNL receptor immunity. Nature Communications 12 (1), 3335 (2021)

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Yan, J.; Li, S.; Kim, Y. J.; Zeng, Q.; Radziejwoski, A.; Wang, L.; Nomura, Y.; Nakagami, H.; Somers, D. E.: TOC1 clock protein phosphorylation controls complex formation with NF-YB/C to repress hypocotyl growth. EMBO Journal 40 (24), e108684 (2021)

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2020

Journal Article

Kimura, S.; Hunter, K.; Vaahtera, L.; Tran, H. C.; Citterico, M.; Vaattovaara, A.; Rokka, A.; Stolze, S. C.; Harzen, A.; Meissner, L. et al.; Wilkens, M. M. T.; Hamann, T.; Toyota, M.; Nakagami, H.; Wrzaczek, M.: CRK2 and C-terminal Phosphorylation of NADPH Oxidase RBOHD Regulate Reactive Oxygen Species Production in Arabidopsis([OPEN]). The Plant Cell 32 (4), pp. 1063 - 1080 (2020)

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Journal Article

Koide, E.; Suetsugu, N.; Iwano, M.; Gotoh, E.; Nomura, Y.; Stolze, S. C.; Nakagami, H.; Kohchi, T.; Nishihama, R.: Regulation of Photosynthetic Carbohydrate Metabolism by a Rat-Like Kinase in the Liverwort Marchantia polymorpha. Plant and Cell Physiology 61 (3), pp. 631 - 643 (2020)

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Journal Article

Li, X.; Sanagi, M.; Lu, Y.; Nomura, Y.; Stolze, S. C.; Yasuda, S.; Saijo, Y.; Schulze, W.X.; Feil, R.; Stitt, M. et al.; Lunn, J. E.; Nakagami, H.; Sato, T.; Yamaguchi, J.: Protein Phosphorylation Dynamics Under Carbon/Nitrogen-Nutrient Stress and Identification of a Cell Death-Related Receptor-Like Kinase in Arabidopsis. Frontiers in Plant Scienc 11, 377 (2020)

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Journal Article

Matsui, H.; Iwakawa, H.; Hyon, G.-S.; Yotsui, I.; Katou, S.; Monte, I.; Nishihama, R.; Franzen, R.; Solano, R.; Nakagami, H.: Isolation of Natural Fungal Pathogens from Marchantia polymorpha Reveals Antagonism between Salicylic Acid and Jasmonate during Liverwort-Fungus Interactions. Plant and Cell Physiology 61 (2), pp. 265 - 275 (2020)

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Journal Article

Nobori, T.; Wang, Y.; Wu, J., J.; Stolze, S. C.; Tsuda, Y.; Finkemeier, I.; Nakagami, H.; Tsuda, K.: Multidimensional gene regulatory landscape of a bacterial pathogen in plants. Nature Plants (2020)

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Journal Article

Sang, Q.; Pajoro, A.; Sun, H.-Q.; Song, B.; Yang, X.; Stolze, S. C.; Andrés Lalaguna, F.; Schneeberger, K.; Nakagami, H.; Coupland, G.: Mutagenesis of a Quintuple Mutant Impaired in Environmental Responses Reveals Roles for CHROMATIN REMODELING4 in the Arabidopsis Floral Transition. The Plant Cell (2020)

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Journal Article

Stolze, S. C.; Nakagami, H.: Targeted quantification of phosphopeptides by parallel reaction monitoring (PRM). Plant Proteomics. Methods in Molecular Biology 2139, pp. 213 - 224 (2020)

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2019

Journal Article

Carella, P.; Gogleva, A.; Hoey, D. J.; Bridgen, A. J.; Stolze, S. C.; Nakagami, H.; Schornack, S.: Conserved Biochemical Defenses Underpin Host Responses to Oomycete Infection in an Early-Divergent Land Plant Lineage. Current Biology 29 (14), pp. 2282 - 2294.e5 (2019)

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Journal Article

Hu, Z.; Ghosh, A.; Stolze, S. C.; Horváth, M.; Bai, B.; Schaefer, S.; Zündorf, S.; Liu, S.; Harzen, A.; Hajheidari, M. et al.; Sarnowski, T. J.; Nakagami, H.; Koncz, Z.; Koncz, C.: Gene modification by fast-track recombineering for cellular localization and isolation of components of plant protein complexes. The Plant Journal (2019)

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Ishikawa, S.; Barrero, J.M.; Takahashi, F.; Nakagami, H.; Peck, S.C.; Gubler, F.; Shinozaki, K.; Umezawa, T.: Comparative phosphoproteomic analysis reveals a decay of ABA signaling in barley embryos during after-ripening. Plant and Cell Physiology (2019)

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Nobori, T.; Wang, Y.; Wu, J.; Stolze, S. C.; Tsuda, Y.; Finkemeier, I.; Nakagami, H.; Tsuda, K.: In planta bacterial multi-omics analysis illuminates regulatory principles underlying plant-pathogen interactions. bioRxiv (2019)

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Journal Article

Nobori, T.; Wang, Y.; Wu, J.; Stolze, S. C.; Tsuda, Y.; Finkemeier, I.; Nakagami, H.; Tsuda, K.: Multidimensional gene regulatory landscape of a bacterial pathogen in plants. Nature Plants (2019)

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Sano, N.; Takebayashi, Y.; To, A.; Mhiri, C.; Rajjou, L.; Nakagami, H.; Kanekatsu, M.: Shotgun proteomic analysis highlights roles of long-lived mRNAs and de novo transcribed mRNAs upon imbibition in rice embryos. Plant and Cell Physiology (2019)

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Uemura, T.; Nakano, R. T.; Takagi, J.; Wang, Y.; Kramer, K.; Finkemeier, I.; Nakagami, H.; Tsuda, K.; Ueda, T.; Schulze-Lefert, P. et al.; Nakano, A.: A Golgi-Released Subpopulation of the Trans-Golgi Network Mediates Protein Secretion in Arabidopsis. Plant Physiology 179 (2), pp. 519 - 532 (2019)

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Yang, C.; Hamamura, Y.; Sofroni, K.; Böwer, F.; Stolze, S. C.; Nakagami, H.; Nakagami, H.; Schnittger, A.: SWITCH 1/DYAD is a WINGS APART-LIKE antagonist that maintains sister chromatid cohesion in meiosis. Nature Communications 10, 1755 (2019)

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2018

Journal Article

Fichman, Y.; Koncz, Z.; Reznik, N.; Miller, G.; Szabados, L.; Kramer, K.; Nakagami, H.; Fromm, H.; Koncz, C.; Zilberstein, A.: SELENOPROTEIN O is a chloroplast protein involved in ROS scavenging and its absence increases dehydration tolerance in Arabidopsis thaliana. Plant Science 270, pp. 278 - 291 (2018)

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Journal Article

Myouga, F.; Takahashi, K.; Tanaka, R.; Nagata, N.; Kiss, A. Z.; Funk, C.; Nomura, Y.; Nakagami, H.; Jansson, S.; Shinozaki, K.: Stable Accumulation of Photosystem II Requires ONE-HELIX PROTEIN1 (OHP1) of the Light Harvesting-Like Family. Plant Physiology 176 (3), pp. 2277 - 2291 (2018)

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Oide, M.; Okajima, K.; Nakagami, H.; Kato, T.; Sekiguchi, Y.; Oroguchi, T.; Hikima, T.; Yamamoto, M.; Nakasako, M.: Blue light-excited LOV1 and LOV2 domains cooperatively regulate the kinase activity of full-length phototropin2 from Arabidopsis. Journal of Biological Chemistry 293 (3), pp. 963 - 972 (2018)

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Yokoo, S.; Inoue, S.; Suzuki, N.; Amakawa, N.; Matsui, H.; Nakagami, H.; Takahashi, A.; Arai, R.; Katou, S.: Comparative analysis of plant isochorismate synthases reveals structural mechanisms underlying their distinct biochemical properties. Bioscience Reports 38, BSR20171457 (2018)

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2017

Journal Article

Bowman, J. L.; Kohchi, T.; Yamato, K. T.; Jenkins, J.; Shu, S.; Ishizaki, K.; Yamaoka, S.; Nishihama, R.; Nakamura, Y.; Berger, F. et al.; 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.-I.; Ishida, S.; Jia, Q.; 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.; Rovekamp, 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.; Schmutz, J.: Insights into Land Plant Evolution Garnered from the Marchantia polymorpha Genome. Cell 171 (2), pp. 287 - 304.e15 (2017)

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Furlan, G.; Nakagami, H.; Eschen-Lippold, L.; Jiang, X.; Majovsky, P.; Kowarschik, K.; Hoehenwarter, W.; Lee, J.; Trujillo, M.: Changes in PUB22 Ubiquitination Modes Triggered by MITOGEN-ACTIVATED PROTEIN KINASE3 Dampen the Immune Response. The Plant Cell 29 (4), pp. 726 - 745 (2017)

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Matsui, H.; Nomura, Y.; Egusa, M.; Hamada, T.; Hyon, G.-S.; Kaminaka, H.; Watanabe, Y.; Ueda, T.; Trujillo, M.; Shirasu, K. et al.; Nakagami, H.: The GYF domain protein PSIG1 dampens the induction of cell death during plant-pathogen interactions. PLoS Genetics 13 (10), e1007037 (2017)

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Publications of H. Nakagami

Journal Article (39)

Book Chapter (1)