発表論文 Publications

[2021] [2020] [2019] [2018] [2017] [2016] [2015] [2014] [2013] [2012] [2011] [2010] [2009] [2008] [2007] [2006] [2005] [2004] [2003] [2002] [2001以前]


Kohchi, T., Yamato, K.T., Ishizaki, K., Yamaoka, S., and Nishihama, R. Development and Molecular Genetics of Marchantia polymorpha. Annu. Rev. Plant Biol. (2021) in ress. doi: 10.1146/annurev-arplant-082520-094256. 

Suzuki, H., Kohchi, T., and Nishihama, R. Auxin biology in Bryophyta: A simple platform with versatile functions. Estelle, M., Ljung, K., Leyser, O., and Weijers, D (ed) Auxin Signaling, Cold Spring Harbor Laboratory Press, Perspectives in Biology series. (in press)

Takizawa, R., Hatada, M., Moriwaki, Y., Abe, S., Yamashita, Y., Arimitsu, R., Yamato, K. T., Nishihama, R., Kohchi, T., Koeduka, T., Chen, F., and Matsui, K. Fungal-type terpene synthases in Marchantia polymorpha are involved in sesquiterpene biosynthesis in oil body cells. Plant Cell Physiol., 13,  (in press). doi: 10.1093/pcp/pcaa175.


Kato, H., Mutte, S.K., Suzuki, H., Crespo, I., Das, S., Radoeva, T., Fontana, M., Yoshitake, Y., Hainiwa, E., van den Berg, W., Lindhoud, S., Ishizaki, K., Hohlbein, J., Borst, J.W., Boer, D.R., Nishihama, R., Kohchi, T., and Weijers, D. Design principles of a minimal auxin response system. Nat. Plants 6, 473-482 (2020). doi: 10.1038/s41477-020-0662-y 陸上植物に共通かつ最小のオーキシン応答機構をもつ基部陸上植物ゼニゴケを用いることで、オーキシン依存的に遺伝子発現を活性化する因子と、競合的に働く抑制因子によって感度が調整されるという仕組みがオーキシン応答の根底にあることを見出しました。 [大学HP] [full text]

Nishihama, R. and Naramoto, S. Apical stem cells sustaining prosperous evolution of land plants. J. Plant Res. 133, 279-282 (2020). doi: 10.1007/s10265-020-01198-9. [full text]

Suzuki, H., Harrison, C.J., Shimamura, M., Kohchi, T., and Nishihama, R. Positional cues regulate dorsal organ formation in the liverwort Marchantia polymorpha. J. Plant Res. 133, 311-321 (2020). doi: 10.1007/s10265-020-01180-5 蘚類や葉状性苔類では葉は1つのメロファイト(頂端細胞の娘細胞の系譜からなる細胞群)に由来して形成されるが、苔類ゼニゴケでは少なくとも背側に形成される気室や杯状体といった器官は複数のメロファイトから構成されることをクローナル解析により明らかにしました。位置情報に依存した器官形成の仕組みは、植物が陸上化した時点で備わっていた可能性が示唆されました。 [full text]

Koide, E., Suetsugu, N., Iwano, M., Gotoh, E., Nomura, Y., Stolze, S.C., Nakagami, H., Kohchi, T., and Nishihama, R. Regulation of photosynthetic carbohydrate metabolism by a Raf-like kinase in the liverwort Marchantia polymorpha. Plant Cell Physiol. 61, 631-643 (2020). doi: 10.1093/pcp/pcz232 リン酸化プロテオーム解析により光合成依存的にリン酸化されるRaf様プロテインキナーゼを同定し、それが糖、特にスクロースの代謝制御に関わる光合成信号伝達因子であることを見出しました。

Kanazawa, M., Ikeda, Y., Nishihama, R., Yamaoka, S., Lee, N.H., Yamato, K.T., Kohchi, T., and Hirayama, T. Regulation of the poly(A) status of mitochondrial mRNA by poly(A)-specific ribonuclease is conserved among land plants. Plant Cell Physiol. 61, 470-480 (2020). doi: 10.1093/pcp/pcz212

Matsui, H., Iwakawa, H., Hyon, G.S., Yotsui, I., Katou, S., Monte, I., Nishihama, R., Franzen, R., Solano, R., and Nakagami, H. Isolation of natural fungal pathogens from Marchantia polymorpha reveals antagonism between salicylic acid and jasmonate during liverwort-fungus interactions. Plant Cell Physiol. 61, 265-275 (2020). doi: 10.1093/pcp/pcz187

Montgomery, S.A., Tanizawa, Y., Galik, B., Wang, N., Ito, T., Mochizuki, T., Akimcheva, S., Bowman, J.L., Cognat, V., Maréchal-Drouard, L., Ekker, H., Hong, S.F., Kohchi, T., Lin, S.S., Liu, L.D., Nakamura, Y., Valeeva, L.R., Shakirov, E.V., Shippen, D.E., Wei, W.L., Yagura, M., Yamaoka, S., Yamato, K.T., Liu, C., and Berger, F. Chromatin organization in early land plants reveals an ancestral association between H3K27me3, transposons, and constitutive heterochromatin. Curr. Biol. 30, 573-588.e7 (2020). doi: 10.1016/j.cub.2019.12.015

Hirakawa, Y., Fujimoto, T., Ishida, S., Uchida, N., Sawa, S., Kiyosue, T., Ishizaki, K., Nishihama, R., Kohchi, T., Bowman, J. L. Induction of multichotomous branching by CLAVATA peptide in Marchantia polymorpha. Curr Biol. 30:3833-3840 (2020). doi: 10.1016/j.cub.2020.07.016.

Kanazawa, T., Morinaka, H., Ebine, K., Shimada, T. L., Ishida, S., Minamino, N., Yamaguchi, K., Shigenobu, S., Kohchi, T., Nakano, A., and Ueda, T. The liverwort oil body is formed by redirection of the secretory pathway. Nature Comm. 11, 6152 (2020). Doi: https://doi.org/10.1038/s41467-020-19978-1


Hisanaga, T., Yamaoka, S., Kawashima, T., Higo, A., Nakajima, K., Araki, T., Kohchi, T., and Berger, F. Building new insights in plant gametogenesis from an evolutionary perspective. Nat. Plants. 5, 663-669 (2019). doi: 10.1038/s41477-019-0466-0

Inoue. K., Nishihama. R., and Kohchi. T. Phytochrome and light signaling in Marchantia. Methods Mol. Biol. 2026, 215-223 (2019). doi: 10.1007/978-1-4939-9612-4_18

Komatsu, A., Nishihama, R., and Kohchi, T. Observation of phototropic responses in the liverwort Marchantia polymorpha. Methods Mol. Biol. 1924, 53-61 (2019). doi: 10.1007/978-1-4939-9015-3_6

Inoue, K., Nishihama, R., Araki, T. and Kohchi, T. Reproductive induction is a far-red high irradiance response that is mediated by phytochrome and PHYTOCHROME INTERACTING FACTOR in Marchantia polymorpha. Plant Cell Physiol. 60, 1136–1145 (2019). doi:10.1093/pcp/pcz029

Hisanaga, T.,† Okahashi, K.,† Yamaoka, S., Kajiwara, T., Nishihama, R., Shimamura, M., Yamato, K. T., Bowman, J. L., Kohchi, T.,* and Nakajima, K.* A cis-acting bidirectional transcription switch controls sexual dimorphism in the liverwort. EMBO J. 38, e100240 (2019). †Co-first authors, *Co-corresponding authors

Monte, I., Franco-Zorrilla, J. M., García-Casado, G., Zamarreño, A. M., García-Mina, J. M., Nishihama, R., Kohchi. T., and Solano R. A Single JAZ repressor controls the jasmonate pathway in Marchantia polymorpha. Mol. Plant 12, 185-198 (2019). doi: 10.1016/j.molp.2018.12.017

Hirakawa,Y., Uchida, N., Yamaguchi, Y. L., Tabata, R., Ishida, S., Ishizaki, K., Nishihama, R., Kohchi, T., Sawa, S., and Bowman, J.L. Control of proliferation in the haploid meristem by CLE peptide signaling in Marchantia polymorpha. PLoS Genet. 15, e1007997 (2019). doi: 10.1371/journal.pgen.1007997

Aki, S. S., Mikami, T., Naramoto, S., Nishihama, R., Ishizaki, K., Kojima, M., Takebayashi, Y., Sakakibara, H., Kyozuka, J., Kohchi, T., and Umeda, M. Cytokinin signaling is essential for organ formation in Marchantia polymorpha. Plant Cell Physiol. 60, 1842-1854 (2019) pcz100. doi: 10.1093/pcp/pcz100

Aki, S. S., Nishihama, R., Kohchi, T., and Umeda, M. Cytokinin signaling coordinates development of diverse organs in Marchantia polymorpha. Plant Sig. Behav. 14, 1668232 (2019). doi: 10.1080/15592324.2019.1668232

Kondou, Y., Miyagi, Y., Morito, T., Fujihira, K., Miyauchi, W., Moriyama, A., Terasawa, T., Ishida, S., Iwabuchi, K., Kubo, H., Nishihama, R., Ishizaki, K., and Kohchi, T. Physiological function of photoreceptor UVR8 in UV-B tolerance in the liverwort Marchantia polymorpha. Planta. 249:1349-1364 (2019). doi: 10.1007/s00425-019-03090-w

Tsuzuki, M., Futagami, K., Shimamura, M., Inoue, C., Kunimoto, K., Oogami, T., Tomita, Y., Inoue, K., Kohchi, T., Yamaoka, S., Araki, T., Hamada, T. and Watanabe, Y. An early arising role of the microRNA156/529-SPL module in reproductive development revealed by the liverwort Marchantia polymorpha. Curr. Biol. 29, 3307-3314 (2019). doi: 10.1016/j.cub.2019.07.084



Sugano, S., Nishihama, R., Shirakawa, M., Takagi, J., Matsuda, Y., Ishida, S., Shimada, T., Hara-Nishimura, I., Osakabe, K., and Kohchi, T. Efficient CRISPR/Cas9-based genome editing and its application to conditional genetic analysis in Marchantia polymorpha. PLOS One 13, e0205117 (2018). doi: 10.1371/journal.pone.0205117 Cas9のコドン最適化でゼニゴケのゲノム編集効率が大きく改善されました。広く利用されているゼニゴケゲノム編集ベクターpMpGE010や条件的変異体の分離法について報告しています。[Link]

Yamaoka, S., Nishihama, R., Yoshitake, Y., Ishida, S., Okahashi, K., Bao, H., Nishida, H., Yamaguchi, K., Shigenobu, S., Ishizaki, K., Yamato, K. T., and Kohchi, T.  Generative cell specification requires transcription factors evolutionarily conserved in land pants. Curr. Biol., 28, 479-486.e5. (2018). https://doi.org/10.1016/j.cub.2017.12.053 まずゼニゴケの変異体から有性生殖プログラムの開始に必須な遺伝子を同定し、その機能がシロイヌナズナでは雄原細胞の運命決定に関与することを示しました。陸上植物の生殖細胞系列の決定機構をコケと被子植物を解析することで明らかにした成果で、京大HPでも紹介しています。

Sugano, S.S. and Nishihama, R. CRISPR/Cas9-based genome editing of transcription factor genes in Marchantia polymorpha. Methods Mol Biol. 1830, 109-126 (2018). doi: 10.1007/978-1-4939-8657-6_7

Kato, H., Nishihama, R., Weijers, D., and Kohchi, T. Evolution of nuclear auxin signaling; lessons from genetic studies with basal land plants. J. Exp. Bot. 69, 291-301 (2018).

Monte, I., Ishida, S., Zamarreno, A. M., Hamberg, M., Franco-Zorrilla, J. M., Garcia-Casado, G., Gouhier-Darimont, G., Reymond, P., Takahashi, K., Garcia-Mina, J. M., Nishihama, R., Kohchi, T., and Solano, R. Ligand-receptor co-evolution shaped the jasmonate pathway in land plants. Nat. Chem. Biol. 14, 480-488 (2018). doi: 10.1038/s41589-018-0033-4  研究科HP

Ikeda, Y., Nishihama, R., Yamaoka, S., Arteaga-Vazquez, M. A., Aguilar-Cruz, A., Grimanelli, D., Pogorelcnik, R., Martienssen, R. A., Yamato, K. T., Kohchi, T., Hirayama, T., and Mathieu, O. Loss of CG methylation in Marchantia polymorpha causes disorganization of cell division and reveals unique DNA methylation regulatory mechanisms of non-CG methylation. Plant Cell Physiol. 59, 2421-2431 (2018). doi: 10.1093/pcp/pcy161

Ohtani, K., Ishizaki, K., Nishihama, R., Takatani, S., Kohchi, T., Takahashi, T., and Motose, H. An evolutionarily conserved NIMA-related kinase directs rhizoid tip growth in the basal land plant Marchantia polymorpha. Development, 145, dev154617 (2018). doi: 10.1242/dev.154617

Kubo, H., Nozawa, S., Hiwatashi, T., Kondou Y., Nakabayashi, R., Mori, T., Saito, K., Takanashi, K., Kohchi, T. and Ishizaki, K. Biosynthesis of riccinoidins and marchantins is regulated by R2R3 MYB transcription factors in Marchantia polymorpha. J. Plant Res. 131, 849-864 (2018). doi: 10.1007/s10265-018-1044-7

Akashi, H., Okamura, E., Nishihama, R., Kohchi, T. and Hirai, M. Y. Identification and biochemical characterization of the serine biosynthetic enzyme 3-phosphoglycerate dehydrogenase in Marchantia polymorpha. Front. Plant Sci. 9, 956 (2018). https://doi.org/10.3389/fpls.2018.00956

Togawa, T., Adachi, T., Harada, D., Mitani, T., Tanaka, D., Ishizaki, K., Kohchi, T., and Yamato, K. T. Cryopreservation of Marchantia polymorpha spermatozoa. J. Plant Res. 131, 1047-1054 (2018). https://doi.org/10.1007/s10265-018-1059-0

Furuya, T., Hattori, K., Kimori, Y., Ishida, S., Nishihama, N., Kohchi, T., and Tsukaya, H. ANGUSTIFOLIA contributes to the regulation of three-dimensional morphogenesis in the liverwort Marchantia polymorpha. Development 145, dev161398 (2018).  doi: 10.1242/dev.161398

Mano, S., Nishihama, R., Ishida, S., Hikino, K., Kondo, M., Nishimura, M., Yamato, K. T., Kohchi, T., and Nakagawa, T. Novel Gateway binary vectors for rapid tripartite DNA assembly and promoter analysis with various reporters and tags in the liverwort Marchantia polymorpha. PLOS ONE 13, e0204964 (2018). doi: 10.1371/journal.pone.0204964 [Link]

Higo, A., Kawashima, T., Borg, M., Zhao, M., López-Vidriero, I., Sakayama, H., Montgomery, S. A., Sekimoto, H., Hackenberg, D., Shimamura, M., Nishiyama, T., Sakakibara, K., Tomita, Y., Togawa, T., Kunimoto, K., Suzuki, Y., Osakabe, A., Yamato, K. T., Ishizaki, K., Nishihama, N., Kohchi, T., Franco-Zorrilla, J. M., Twell, D. Berger, F., and Araki, T. Transcription factor DUO1 generated by neo-functionalization is associated with evolution of sperm differentiation in plants. Nat. Commun. 5283 (2018).

Eklund, D.M., Kanei, M., Flores-Sandoval, E., Ishizaki, K., Nishihama, R., Kohchi, T., Lagercrantz, U., Bhalerao, R. P., Sakata, Y., and Bowman, J. L. An evolutionarily conserved abscisic acid signaling pathway regulates dormancy in the liverwort Marchantia polymorpha. Curr. Biol., 28, 3691-3699 (2018). doi: 10.1016/j.cub.2018.10.018.

西浜竜一、河内孝之 新しいモデル生物:苔類ゼニゴケ 領域融合レビュー 7, e008 (2018). doi: 10.7875/leading.author.7.e008



Kato, H., Kouno, M., Takeda, M., Suzuki, H., Ishizaki, K., Nishihama, R., and Kohchi, T. The Roles of the Sole Activator-type Auxin Response Factor in Pattern Formation of Marchantia polymorpha. Plant Cell Physiol., 58, 1642-1651 (2017).

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. 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., 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. Insights into land plant evolution garnered from the Marchantia polymorpha genome. Cell 171, 287-304 (2017).  dx.doi.org/10.1016/j.cell.2017.09.030  *Co-corresponding authors ゼニゴケゲノム解析から得られた陸上植物進化に関する知見を報告した国際共同研究です。京大HPでも取り上げられました。[Open Access]

Inoue, K., Nishihama, R., and Kohchi, T. Evolutionary origin of phytochrome responses and signaling in land plants. Plant Cell Environ. 40, 2502-2508 (2017).

Linde, A. M.*, Eklund, D. M.*, Kubota, K.*, Pederson, E. R. A., Holm, K., Gyllenstrand, N., Nishihama, R., Cronberg, N., Muranaka, T., Oyama, T., Kohchi, T., and Lagercrantz, U. Early evolution of the land plant circadian clock, New Phytol.40, 2502-2508 (2017). *Co-first author

Minamino, N., Kanazawa, T., Nishihama, R., Yamato K. T., Ishizaki, K., Nakano, A., and Ueda, T., Dynamic reorganization of the endomembrane system during spermatogenesis in Marchantia polymorpha. J. Plant Res. 130, 433-441 (2017).

Tawfik, M. M., Yamato, K. T., Kohchi, T., Koeduka, T. and Matsui, K. n-Hexanal and (Z)-3-hexenal are formed from arachidonic acid and linolenic acid by a lipoxygenase in Marchantia polymorpha L. Biosci. Biotechnol. Biochem. 81, 1148-1155 (2017).

Yokota, T., Ohnishi T., Shibata, K., Asahina, M., Nomura, T., Fujita, T., Ishizaki, K., and Kohchi, T. Occurrence of brassinosteroids in non-flowering land plants, liverwort, moss, lycophyte and fern. Phytochem.136, 46-55 (2017).

Nagaoka, N., Yamashita, A., Kurisu, R., Watari, Y., Ishizuna, F., Tsutsumi, N., Ishizaki, K., Kohchi, T., and Arimura, S. DRP3 and ELM1 are required for mitochondrial fission in the liverwort Marchantia polymorpha. Sci. Rep. 7, 4600 (2017).

Uda, Y., Goto, Y., Oda, S, Kohchi, T., Matsuda, M. and Aoki, K. An efficient synthesis of phycocyanobilin in mammalian cells for optogenetic control of cell signaling. Proc. Natl. Acad. Sci. USA., 14, 11962-11967 (2017). フィトクロム発色団生合成遺伝子を動物細胞で発現させることで、外からの発色団の添加なしにPhy-PIFを用いた光遺伝学解析ができることを示した共同研究です。基生研HPでも取り上げられています。


Suetsugu, N., Takemiya, A., Kong, S.-G., Higa, T., Komatsu, A., Shimazaki, K. Kohchi, T. and Wada, M.
RPT2/NCH1 subfamily of NPH3-like proteins is essential for the chloroplast accumulation response in land plants.
Proc. Natl. Acad. Sci. USA
113, 10424-10429 (2016), doi:10.1073/pnas.1602151113
京大HPで紹介されています Link

Inoue, K., Nishihama, R., Kataoka, H., Hosaka, M., Manabe, R., Nomoto, M., Tada, Y., Ishizaki, K., and Kohchi, T.
Phytochrome signaling is mediated by PHYTOCHROME INTERACTING FACTOR in the liverwort Marchantia polymorpha.
Plant Cell, 28, 1406-1421 (2016). doi: http://dx.doi.org/10.1105/tpc.15.01063

Ishizaki, K., Nishihama, R., Yamato, K. T., and Kohchi, T.
Molecular genetic tools and techniques for Marchantia polymorpha research.
Plant Cell Physiol.,
57, 262-270 (2016). doi:10.1093/pcp/pcv097

Nishihama, R., Ishida, S., Urawa, H., Kamei, Y., and Kohchi, T.
Conditional gene expression/deletion systems for Marchantia polymorpha using its own heat-shock promoter and the Cre/loxP-mediated site-specific recombination.
Plant Cell Physiol.
, 57, 271-280 (2016). doi:10.1093/pcp/pcv102

Kasahara, M., Suetsugu, N., Urano, Y., Yamamoto, C., Ohmori, M., Takada, Y., Okuda, S., Nishiyama, T., Sakayama, H., Kohchi, T., and Takahashi, F.,
An adenylyl cyclase with a phosphodiesterase domain in basal plants with a motile sperm system.
Sci. Rep., 6, 39232 (2016). doi;10.1038/srep39232

Koi, S., Hisanaga, T., Sato, K., Shimamura, M., Yamato, K. T., Ishizaki, K., Kohchi, T., and Nakajima, K.
An evolutionarily conserved plant RKD factor controls germ cell differentiation.
Curr. Biol.
26, 1775-1781 (2016). DOI: http://dx.doi.org/10.1016/j.cub.2016.05.013

Berger, F., Bowman, J. and Kohchi, T.
Curr. Biol.
26, 186-187 (2016). doi: 10.1016/j.cub.2015.12.013.

Bowman, J. L., Araki, T. and Kohchi, T.
: Past, Present and Future.
Plant Cell Physiol., 57, 205-209 (2016). doi:10.1093/pcp/pcw023

Bowman, J. L., Araki, T., Arteaga-Vazquez, M. A., Berger, F., Dolan, L., Haseloff, J., Ishizaki, K., Kyozuka, J., Lin, S., Nagasaki, H., Nakagami, H., Nakajima, K., Nakamura, Y., Ohashi-Ito, K., Sawa, S., Shimamura, M., Solano, R., Tsukaya, H., Ueda, T., Watanabe, Y., Yamato, K. T., Zachgo, S. and  Kohchi, T.
The naming of names: guidelines for gene nomenclature in Marchantia.
Plant Cell Physiol. 57, 257-261 (2016). doi:10.1093/pcp/pcv193

Tanaka, D., Ishizaki, K., Kohchi, T., and Yamato, K. T.
Cryopreservation of gemmae from the liverwort Marchantia polymorpha L.,
Plant and Cell Physiol
57, 300-306 (2016). doi:10.1093/pcp/pcv173

Kanazawa, T., Era, A., Minamino, N., Shikano, Y., Fujimoto, M., Uemura, T., Nishihama, R., Yamato, K. T., Ishizaki, K., Nishiyama, T., Kohchi, T., Nakano, A., and Ueda, T.
SNARE Molecules in Marchantia polymorpha: Unique and Conserved Features of the Membrane Fusion Machinery.
Plant Cell Physiol., 57, 307-324 (2016). doi: 10.1093/pcp/pcv076

Higo, A., Niwa, M., Yamato, K. T., Yamada, L., Sawada, H., Sakamoto, T., Kurata, T., Shirakawa,M., Endo, M., Shigenobu, S., Yamaguchi, K., Ishizaki, K., Nishihama, R., Kohchi, T. and Takashi Araki, T.
Transcriptional Framework of Male Gametogenesis in the Liverwort Marchantia polymorpha L.
Plant Cell Physiol. 57, 325-338 (2016) doi:10.1093/pcp/pcw005

Lin, P., Lu, C., Shen, B., Lee, G., Bowman, J. L., Arteaga-Vazquez, M. A., Liu, L. D., Hong, S., Lo, C., Su, G., Kohchi, T., Ishizaki, K., Zachgo, S., Althoff, F., Takenaka, M., and Lin, S.
Identification of miRNAs and their targets in the liverwort Marchantia polymorpha by integrating RNA-Seq and degradome analyses.
Plant Cell Physiol.
57, 339-358 (2016). doi:10.1093/pcp/pcw020

Tsuzuki, M., Nishihama, R., Ishizaki, K.,Kurihara, Y., Matsui, M., Bowman, J. L., Kohchi, T., Hamada, T., and Watanabe, Y.
Profiling and characterization of small RNAs in the liverwort, Marchantia polymorpha, belonging to the first diverged land plants.
Plant Cell Physiol.
57, 359-372 (2016). doi:10.1093/pcp/pcv182

Lo, J., Tsednee, M., Lo, Y., Yang, S., Hu, J., Ishizaki, K., Kohchi, T., Lee D., and Yeh, K.
Evolutionary analysis of iron (Fe) acquisition system in Marchantia polymorpha. New Phytologist 211, 205-209 (2016) doi: 10.1111/nph.13922

Proust, H., Honkanen, S., Jones, V., Morieri, G., Prescott, H., Kelly, S., Ishizaki, K., Kohchi, T., and Dolan, L.
RSL class I genes controlled the development of epidermal structures in the common ancestor of land plants.
Curr. Biol.
26, 93-99 (2016).

植物の陸上進出と成長相転換(セミナー室 フロリゲンと光周性花成-5)
化学と生物 54, 591-597 (2016).

山岡尚平、河内孝之、植物における日長による成長相転換制御のメカニズムとその進化 BSJ-Review 7B:78-86 (2016).


Ishizaki, K., Nishihama, R., Ueda, M., Inoue, K., Ishida, S., Nishimura, Y., Shikanai, T., and Kohchi, T.
Development of gateway binary vector series with four different selection markers for the liverwort Marchantia polymorpha.
PLOS One, 10, e0138876 (2015). doi:10.1371/journal.pone.0138876 [Link]

Kato, H., Ishizaki, K., Kouno, M., Shirakawa, M., Bowman, J. L., Nishihama, R., and Kohchi, T.
Auxin-mediated transcriptional system with a minimal set of components is critical for morphogenesis through the life cycle in Marchantia polymorpha.
PLOS Genet.
11, e1005084 (2015). doi: 10.1371/journal.pgen.1005084.

Eklund, D. M., Ishizaki, K., Flores-Sandoval, E., Kikuchi, S., Takebayashi, Y.,  Tsukamoto, S., Hirakawa, Y., Kato, H., Kouno, M., Bhalerao, R. P., Lagercrantz, U., Kasahara, H., Kohchi, T., Bowman, J. L.
Auxin produced by the IPA pathway is essential for liverwort development and acts as an evolutionary conserved regulator of dormancy in land plants.
Plant Cell
, 27, 1650-1669 (2015)..

Nishihama, R., Ishizaki, K., Hosaka, M., Matsuda, Y., Kubota, A., and Kohchi, T.
Phytochrome-mediated regulation of cell division and growth during regeneration and sporeling development in the liverwort Marchantia polymorpha.
J. Plant Res. 128, 407-421 (2015).

Lind, C., Dreyer, I., López-Sanjurjo, E. J., von Meyer, K., Ishizaki, K., Kohchi, T., Lang, D., Zhao, Y., Kreuzer, I., Al-Rasheid, K. A., Ronne, H., Reski, R., Zhu, J. K., Geiger, D., Hedrich, R.
Stomatal Guard Cells Co-opted an Ancient ABA-Dependent Desiccation Survival System to Regulate Stomatal Closure.
Curr. Biol
. 25, 928-935 (2015). doi: 10.1016/j.cub.2015.01.067.

Yoshitake, Y., Yokoo, T., Saito, H., Tsukiyama, T., Quan, X., Zikihara, K., Katsura, H., Tokutomi, S., Aboshi, T., Mori, N., Inoue, H., Nishida, H., Kohchi, T., Teraishi, M., Okumoto, Y., and Tanisaka, T.
The effects of phytochrome-mediated light signals on the developmental acquisition of photoperiod sensitivity in rice.
Sci Rep
. 5, 7709 (2015). doi: 10.1038/srep07709

Yamamoto, Y., Takahashi, T., Ishizaki, K., Kohchi, T., Matsuura, H. and Takahashi, K.
Functional analysis of allene oxide cyclase, MpAOC, in the liverwort Marachnatia.
116, 48-56 (2015).

Kageyama, A., Ishizaki, K., Kohchi, T., Matsuura, H., Takahashi, K.
Abscisic acid induces biosynthesis of bisbibenzyls and tolerance to UV-C in the liverwort Marchantia polymorpha,
Phytochemistry, 117, 547-553 (2015). doi:10.1016/j.phytochem.2015.05.009

Kawashima, T., Lorković, Z. J., Nishihama, R., Ishizaki, K., Axelsson, E., Yelagandula, R., Kohchi, T., Berger, F.
Diversification of histone H2A variants during plant evolution.
Tren Plant Sci. (2015). doi:10.1016/j.tplants.2015.04.005

Koeduka, T, Ishizaki, K., Mwenda, C. M., Hori, K., Sasaki-Sekimoto, Y., Ohta, H., Kohchi, T., and Matsui, K.
Biochemical characterization of allene oxide synthases from the liverwort Marchantia polymorpha and green microalgae Klebsormidium flaccidum provides insight into the evolutionary divergence of the plant CYP74 family.
Planta, 242, 1175-1186 (2015). doi: 10.1007/s00425-015-2355-8

Ghosh, T., Kaneko, M., Akter, K., Murai, S., Komatsu, K., Ishizaki, K., Yamato, K. T., Kohchi, T., and Takezawa, D.
Abscisic acid-induced gene expression in the liverwort Marchantia polymorpha is mediated by evolutionarily conserved promoter elements.
Physiologia Plantarum, in press
DOI: 10.1111/ppl.12385.

BSJ-Review 6A:51-62 (2015).

苔類ゼニゴケ 植物の生長調節50, 96-102 (2015)


Komatsu, A., Terai, M., Ishizaki, K., Suetsugu, N., Tsuboi, H., Nishihama, R., Yamato, K. T., Wada, M., and Kohchi, T.
Phototropin encoded by a single-copy gene mediates chloroplast photorelocation movements in the liverwort Marchantia polymorpha L.
Plant Physiol., 166, 411-427 (2014). 
doi: 10.1104/pp.114.245100.

Yasui, Y. and Kohchi, T.
VASCULAR PLANT ONE-ZINC FINGER1 and VOZ2 repress the FLOWERING LOCUS C clade members to control flowering time in Arabidopsis
Biosci. Biotechnol. Biochem. 78, 1850-1855 (2014).

Kubota, A., Kita, S., Ishizaki, K., Nishihama, R., Yamato, K. T. and Kohchi, T.
Co-option of a photoperiodic growth-phase transition system during land plant evolution.
Nature Comm. 5, 3668 (2014). 
doi: 10.1038/ncomms4668

Sugano, S. S.*, Shirakawa, M.,* Takagi, J., Matsuda, Y., Shimada, T., Hara-Nishimura, I.** and Kohchi, T.**
CRISPR/Cas9 mediated targeted mutagenesis in the liverwort Marchantia polymorpha L.
Plant Cell Physiol., 55, 475-481 (2014). 
 doi: 10.1093/pcp/pcu014 * equal contribution, ** co-corresponding authours

Shirakawa, M., Ueda, H., Nagano, A. J., Shimada, T., Kohchi, T., and Hara-Nishimura, I.
FAMA is an essential component for differentiations of two distinct cell types, myrosin cell and guard cell in Arabidopsis,
Plant Cell
, 26, 4039-4052 (2014).

Shirakawa, M., Ueda, H., Shimada, T., Kohchi, T., and Hara-Nishimura, I.
Myrosin cell development is regulated by endocytosis machinery and PIN1 polarity in leaf primordia of Arabidopsis thaliana.
Plant Cell, 26, 4462-4482 (2014).

Shirakawa, M., Ueda, H., Koumoto, Y., Fuji, K., Nishiyama, C., Kohchi, T., Hara-Nishimura, I., and Shimada, T.
CONTINUOUS VASCULAR RING (COV1) is a trans-golgi network localized membrane protein required for golgi morphology and vacuolar protein sorting.
Plant Cell Physiol., 55, 764-772 (2014)

Althoff, F., Kopischke, S., Zobell, O., Ide, K., Ishizaki, K., Kohchi, T. and Zachgo, S.
Comparison of the MpEF1a and CaMV35 promoters for application in Marchantia polymorpha overexpression studies.
Transgenic Res. 23, 233-246 (2014). doi: 10.1007/s11248-013-9746-z
ゼニゴケの研究で過剰発現に用いるEF1aおよびCaMV35Sプロモーターの特徴を比較した共同研究です。 EF1aは頂端ノッチで強く発現するのに対して、35Sは弱いことを示しました。

Kihara, H., Tanaka, M., Yamato, K. T., Horibata, A., Yamada, A., Kita, S., Ishizaki, K., Kajikawa, M., Fukuzawa, H., Kohchi, T., Akakabe, Y., and Matsui, K.
Arachidonic acid-dependent carbon-eight volatile synthesis from wounded liverwort (Marchantia polymorpha).
Phytochem., 107, 42-49 (2014).

植物の生長調節、49, 49-58 (2014).

生化学 86: 508-5122014.


Ishizaki, K., Mizutani, M., Shimamura, M., Masuda, A., Nishihama, R., and Kohchi, T.
Essential role of the E3 ubiquitin ligase NOPPERABO1 in schizogenous intercellular space formation in the liverwort Marchantia polymorpha,
Plant Cell
25, 4075-4084 (2013). 
doi: http:/​/​dx.​doi.​org/​10.​1105/​tpc.​113.​117051 
ゼニゴケnopperabo1 (nop1)変異体は細胞間隙である気室および気室孔が形成されないため、表面が滑らかな葉状体を形成します。この変異体の解析から植物の離生細胞間隙形成に細胞膜付近に局在するE3-リガーゼを介する特異的タンパク質分解が関与する仕組みが見えてきました。

Nishihama, R and Kohchi, T. 
Evolutionary insights into photoregulation of the cell cycle in the green lineage.
Curr. Opinion Plant Biol.16, 630-637 (2013)

Ishizaki, K., Johzuka-Hisatomi, Y., Ishida, S., Iida, S., and Kohchi, T.
Homologous recombination-mediated gene targeting in the liverwort Marchantia polymorpha L.
Sci. Rep. 
3, 1532 DOI: 10.1038/srep01532 (2013). 

Kubota, A., Ishizaki, K., Hosaka, M., and Kohchi, T. Efficient 
-mediated transformation of the liverwort Marchantia polymorpha using regenerating thalli.
Biosci. Biotechnol. Biochem. 77, 167-172 (2013). 

Kanazawa, T., Ishizaki, K., Kohchi, T., Hanaoka, M., and Tanaka, K. 
Characterization of Four Nuclear-Encoded Plastid RNA Polymerase Sigma Factor Genes in the Liverwort Marchantia polymorpha: Blue-Light and Multiple-Stress Responsive SIG5 was Acquired Early in the Emergence of Terrestrial Plants.
Plant Cell Physiol., 54, 1736-1748 (2013). doi:10.1093/pcp/pct119

Ueda, M., Takami, T., Peng, L., Ishizaki, K., Kohchi, T., Shikanai, T., and Nishimura, Y.
Subfunctionalization of sigma factors during the evolution of land plants based on mutant analysis of liverwort (Marchantia polymorpha L.) MpSIG1.
Genome Biol Evol., 5, 1836-1848 (2013).

Ogasawara, Y., Ishizaki, K., Kohchi, T., and Kodama, Y.
Cold-induced organelle relocation in the liverwort Marchantia polymorpha L.
Plant Cell Environ
. 36, 1520-1528
 (2013). doi: 10.1111/pce.12085.

基部陸上植物の光応答戦略 -フィトクロムを介した光形態形成の分子機構-
BSJ-Review 4:37-44


Yasui, Y., Mukougawa, K., Uemoto, M., Yokofuji, A., Suzuri, R., Nishitani, A., and Kohchi, T.
The phytochrome-interacting VASCULAR PLANT ONE-ZINC FINGER1 and VOZ2 redundantly regulate flowering in Arabidopsis.
Plant Cell 24, 3248-3263 (2012).
シロイヌナズナのphyB相互作用因子として単離したVOZ1 VOZ2が核内で

Ishizaki, K., Nonomura, M., Kato, H., Yamato, K. T., and Kohchi, T.
Visualization of auxin-mediated transcriptional activation using a common auxin-responsive reporter system in the liverwort Marchantia polymorpha.
J. Plant Res.
125, 643-651 (2012).

Ueda, M., Kuniyoshi, T., Yamamoto, H., Sugimoto K., Ishizaki, K., Kohchi, T., Nishimura, Y., and Shikanai, T.
Composition and physiological function of the chloroplast NADH dehydrogenase-like complex in Marchantia polymorpha.
Plant J. 72, 683-693 (2012).

Okumura, M., Inoue, S. I., Takahashi, K., Ishizaki, K., Kohchi, T., Kinoshita, T.
Characterization of the plasma membrane H+-ATPase in the liverwort Marchantia polymorpha.
Plant Physiol.
159, 826-834 (2012).

BSJ-Review 3, 58-70

BSJ-Review 3, 71-83

生物工学、90: 600-603 (2012).


Ishizuka, T., Kamiya, A., Suzuki, H., Narikawa, R., Noguchi, T., Kohchi, T., Inomata, K., and Ikeuchi M.
The Cyanobacteriochrome, TePixJ, isomerizes its own chromophore by converting phycocyanobilin to phycoviolobilin.
. 50, 953-961 (2011).


Ohnishi, N., Mukherjee, B., Tsujikawa, T., Yanase, M., Nakano, H., Moroney, J.V., Fukuzawa, H.*
Expression of a low-CO2-inducible protein, LCI1, increases inorganic carbon uptake in the green alga Chlamydomonas reinhardtii.
Plant Cell 22, 3105-3117 (2010).

Yamano, T., Tsujikawa, T., Hatano, K., Ozawa, S., Takahashi, Y., Fukuzawa, H.*
Light and low-CO2 dependent LCIB/LCIC complex localization in the chloroplast supports the carbon-concentrating mechanism in Chlamydomonas reinhardtii.
Plant Cell Physiol. 51, 1453-1468 (2010).

Araujo W.L.*, Ishizaki K.*, Nunes-Nesi A., Larson T.R., Tohge T., Krahnert I., Witt S., Obata T., Schauer N., Graham I.A., Leaver C.J., and Fernie A.R.
Identification of the 2-hydroxyglutarate and isovaleryl-CoA dehydrogenases as alternative electron donors linking lysine catabolism to the electron transport chain of Arabidopsis mitochondria.
Plant Cell 22, 1549-1563 (2010)
*These authors contributed equally to this work.

Sugishima, M., Okamoto, Y., Noguchi, M., Kohchi, T., Tamiaki, H., and Fukuyama, K.
Crystal Structures of the Substrate-Bound Forms of Red Chlorophyll Catabolite Reductase: Implications for Site-Specific and Stereospecific Reaction.
J. Mol. Biol. 402, 879-891 (2010)

Gisk, B., Yasui, Y., Kohchi, T., and Frankenberg-Dinkel, N.
Characterization of the heme oxygenase protein family in Arabidopsis thaliana reveals a diversity of functions.
Boichem. J. 425, 425-434 (2010).

Tougane, K., Komatsu, K., Bhyan, S. B., Sakata, Y., Ishizaki, K., Yamato, K. T., Kohchi, T., and Takezawa, D.
Evolutionarily conserved regulatory mechanisms of abscisic acid signaling in land plants: characterization of ABSCISIC ACID INSENSITIVE1-like type-2C protein phosphatase of the liverwort Marchantia polymorpha L.
Plant Physiol. 152, 1529-1543 (2010).


Kubo, T., Kaida, S., Abe, J., Saito, T., Fukuzawa, H. and Matsuda, Y.*
The Chlamydomonas hatching enzyme, sporangin, is expressed in specific phases of the cell cycle and is localized to the flagella of daughter cells within the sporangial cell wall.
Plant Cell Physiol. 50: 572 - 583 (2009)

 Uchida, H., Yamashita, H., Kajikawa, M., Ohyama, K. Nakayachi, O., Sugiyama, R., Yamato, K.T., Muranaka, T., Fukuzawa, H., Takemura, M., and Ohyama, K.*
Cloning and characterization of a squalene synthase gene from a petroleum plant, Euphorbia tirucalli L.
Planta 229: 1243-1252 (2009).

Ohyama, K., Takemura. M., Oda, K., Fukuzawa, H., Kohchi, T., Nakayama, S., Ishizaki, K., Fujisawa, M., and Yamato, K.
Gene content, organization and molecular evolution of plant organellar genomes and sex chromosomes: insights from the case of the liverwort Marchantia polymorpha.
Proc. Jpn. Acad. Ser. B. Phys. Biol. Sci. 85, 108-124 (2009).

Sugishima, M., Kitamori, Y., Noguchi, M., Kohchi, T., and Fukuyama, K.
Crystal structure of red chlorophyll catabolite reductase: enlargement of the ferredoxin-dependent bilin reductase family.
J. Mol. Biol. 389, 376-387 (2009).

Era, A., Tominaga, M., Ebine, K., Awai, C., Saito, C., Ishizaki, K., Yamato, K. T., Kohchi, T., Nakano, A., and Ueda, T.
Application of Lifeact reveals F-actin dynamics in Arabidopsis thaliana and the liverwort, Marchantia polymorpha.
Plant Cell Physiol. 50, 1041-1048 (2009).


Chiyoda, S., Ishizaki, K., Kataoka, H., Yamato, K.T., and Kohchi, T.
Direct transformation of the liverwort Marchantia polymorpha L. by particle bombardment using immature thalli developing from spores.
Plant Cell Rep. 27. 1467-1473 (2008). doi: 10.1007/s00299-008-0570-5

Ishizaki, K., Chiyoda, S., Yamato, K.T., and Kohchi, T.
Agrobacterium-mediated transformation of the haploid liverwort Marchantia polymorpha L., an emerging model for plant biology.
Plant Cell Physiol., 49, 1084-1091 (2008); doi: 10.1093/pcp/pcn085

Yamano, T., Miura, K., Fukuzawa, H.
Expression analysis of genes associated with the induction of the carbon-concentrating mechanism in Chlamydomonas reinhardtii.
Plant Physiol., 147, 340-354 (2008)

Kajikawa, M., Matsui, K., Ochiai, M., Tanaka, Y., Kita, Y., Ishimoto, M., Kohzu, Y., Shoji, S., Yamato, K. T., Ohyama, K., Fukuzawa, H., Kohchi, T.
Production of arachidonic and eicosapentaenoic acids in plants using bryophyte fatty acid delta6-desaturase, delta6-elongase, and delta5-desaturase genes.
Biosci. Biotechnol. Biochem., 72, 435-444 (2008)

Kohinata T, Nishino H, Fukuzawa H.
Significance of Zinc in a Regulatory Protein, CCM1, Which Regulates the Carbon-Concentrating Mechanism in Chlamydomonas reinhardtii.
Plant Cell Physio,l. 49, 273-283 (2008)


Chiyoda, S., Linley, P. J., Yamato, K. T., Fukuzawa, H., Yokota, A., and Kohchi, T.
Simple and efficient plastid transformation system for the liverwort Marchantia polymorpha L. suspension-culture cells.
Transgenic Res., 16, 41-49 (2007).

Yamato, K.T., Ishizaki, K., Fujisawa, M., Okada, S., Nakayama, S., Fujishita, M., Bando, H., Yodoya, K., Hayashi, K., Bando, T., Hasumi, A., Nishio, T., Sakata, R., Yamamoto, M., Yamaki, A., Kajikawa, M., Yamano, T., Nishide, T., Choi, S.-H., Shimizu-Ueda, Y., Hanajiri, T., Sakaida, M., Kohno, K., Takenaka, M., Yamaoka, S., Kuriyama, C., Kohzu, Y., Nishida, H., Brennicke, A., Shin-i, T., Kohara, Y., Kohchi, T., Fukuzawa, H. and Ohyama, K.
Gene organization of the liverwort Y chromosome reveals distinct sex chromosome evolution in a haploid system.
Proc. Natl. Acad. Sci. USA, 104, 6472-6477 (2007).

Ishizuka, T., Narikawa, R., Kohchi, T., Katayama, M., and Ikeuchi, M.
Cyanobacteriochrome TePixJ of Thermosynechococcus elongatus harbors phycoviolobilin as a chromophore.
Plant Cell Physiol. 48, 1385-1390 (2007).

Vanholme, B., Grunewald, W., Bateman, A., Kohchi, T., and Gheysen, G.
The tify family previously known as ZIM.
Trends Plant Sci. 12, 239-244. (2007).

Merchant, S.S., et al.
The Chlamydomonas genome reveals evolutionary insights into key animal and plant functions.
Science 318: 245-250 (2007)

Burey,S. C., V. Poroyko, Z. N. Ergen, S. Fathi-Nejad, C. Schuler, N. Ohnishi, H. Fukuzawa, H. J. Bohnert, W. Loelhardt Acclimation to low [CO2] by an inorganic carbon-concentrating mechanism in Cyanophora paradoxa.
Plant Cell & Environment 30:1422-1435 (2007)

Hanawa, Y., Watanabe, M., Karatsu, Y., Fukuzawa, H., Shiraiwa, Y.
Induction of a high-CO2 inducible, periplasmic protein, H43, and its application as a high-CO2 responsive marker for study on high-CO2 sensing mechanism in Chlamydomonas reinhardtii.
Plant Cell Physiol. 48:299-309 (2007)

Ozaki, H., Ikeuchi, M., Ogawa, T., Fukuzawa, H., and Sonoike, K.
Large Scale Analysis of Chlorophyll Fluorescence Kinetics in Synechocystis sp. PCC 6803: Identification of the Factors Involved in the Modulation of Photosystem Stoichiometr.
Plant Cell Physiol. 48: 451-458 (2007)


Kajikawa, M., Yamato, K.T., Sakai, Y., Fukuzawa, H., Ohyama, K., and Kohchi T.
Isolation and functional characterization of fatty acid Δ5-elongase gene from the liverwort Marchantia polymorpha L.
FEBS Lett. 580, 149-154 (2006).

Kajikawa, M., Yamato, K.T., Kohzu, Y., Shoji, S., Sakai, Y., and Fukuzawa, H.
A front-end desaturase from the green alga Chlamydomonas reinhardtii produces pinolenic and coniferonic acids by ω13 desaturation.
Plant Cell Physiol.,47, 64-73 (2006).

Mukougawa, K., Kanamoto, H., Kobayashi, T., Yokota, A., and Kohchi, T.
Metabolic engineering to produce phytochromes with phytochromobilin, phycocyanobilin, or phycoerythrobilin chromophore in Escherichia coli.
FEBS Lett., 580, 1333-1338 (2006).

Yoshihara, S., Shimada, T., Matsuoka, D., Zikihara, K., Kohchi, T. and Tokutomi, S.
Reconstitution of blue/green reversible photoconversion of a cyanobacterial photoreceptor, PixJ1 in phycocyanobilin producing E. coli.
Biochem. 45,3775-3784 (2006).

Linley, P. J., Landsberger, M., Kohchi, T., Cooper, J. B., and Terry, M. J.
The molecular basis of heme oxygenase deficiency in the pcd1 mutant of pea.
FEBS J. 273, 2594-2606 (2006).


Kucho, K., Okamoto, K., Tabata, S., Fukuzawa, H., and Ishiura, M.
Identification of novel clock-controlled genes by cDNA macroarray analysis in Chlamydomonas reinhardtii.
Plant Mol. Biol. 57, 889-906 (2005).

Uchida, H., Isono, K., Tomizawa, K., Iwano, M., Yamashita, H., Fukuzawa, H., Ohyama, K., and Yokota, A.
Synthesis of Rubisco gene products is upregulated by increasing the copy number of rbcL gene in Chlamydomonas chloroplast genome, without increased accumulation of the two Rubisco subunits.
Plant Biotech. 22, 145-149 (2005).

Kajikawa, M., Yamato, K.T., Fukuzawa, H., Sakai, Y., Uchida, H., and Ohyama, K.
Cloning and characterization of a cDNA encoding b-amyrin synthase from petroleum plant Euphorbia tirucalli L. Phytochemistry 66, 1759-1766 (2005).

Muramoto, T., Kami, C., Kataoka, H., Iwata, N., Linley, P. J., Mukougawa, K., Yokota, A., and Kohchi, T.
The tomato photomorphogenetic mutant, aurea, is deficient in phytochromobilin synthase for phytochrome chromophore biosynthesis.
Plant Cell Physiol. 46, 661-665 (2005).

Yamakawa, S., Ando, K., Yoshida, K., Yokota, A., Shinmyo, A., and Kohchi, T.
Phylogenetic profiling of Arabidopsis genes by monitoring spatial gene expression using cDNA microarrays.
Plant Biotech. 22, 55-58 (2005).

Kohchi, T., Kataoka, H., and Linley, P. J.
Biosynthesis of chromophores for phytochrome and related photoreceptors in photosynthetic organisms.
Plant Biotech. 22, 409-413 (2005).


Yoshioka, S., Taniguchi, F., Miura, K., Inoue, T., Yamano, T., and Fukuzawa, H. (2004). The novel Myb transcription factor LCR1 regulates the CO2-responsive gene Cah1, encoding a periplasmic carbonic anhydrase in Chlamydomonas reinhardtii. Plant Cell 16, 1466-1477.

Miura, K., Yamano, T., Yoshioka, S., Kohinata, T. (D3, RA), Inoue, Y., Taniguchi, F., Asamizu, E., Nakamura, Y., Tabata, S., Yamato, K.T., Ohyama, K., and Fukuzawa, H. (2004). Expression profiling-based identification of CO2-responsive genes regulated by CCM1 controlling a carbon-concentrating mechanism in Chlamydomonas reinhardtii. Plant Physiol. 135, 1595-1607.

Yamaoka, S., Takenaka, M., Hanajiri, T., Shimizu-Ueda, Y., Nishida, H., Yamato, K.T., Fukuzawa, H., and Ohyama, K. (2004). A mutant with constitutive sexual organ development in Marchantia polymorpha L. Sexual Plant Reproduction, 16, 253-257.

Kajikawa, M. (D3, RA), Yamato, K.T., Kohzu, Y. (M2), Nojiri, M., Sakuradani, E., Shimizu, S., Sakai, Y., Fukuzawa, H., and Ohyama, K. (2004). Isolation and characterization of Δ6-desaturase, an ELO-like enzyme and Δ5-desaturase from the liverwort Marchantia polymorpha and production of arachidonic and eicosapentataenoic acids in the methylotrophic yeast Pichia pastoris. Plant Mol. Biol. 54, 335-352.

Asamizu, E., Nakamura, Y., Miura, K., Fukuzawa, H., Fujiwara, S., Hiroo, M., Iwamoto, K.,  Matsuda, Y., Minagawa, J., Shimogawara, K., Takahashi, Y., and Tabata, S. (2004). Establishment of publicly available cDNA material and information resource of Chlamydomonas reinhardtii (Chlorophyta), to facilitate gene function analysis. Phycologia, 43, 722-726.

Abe, J., Kubo, T., Takagi, Y., Saito, T., Miura, K., Fukuzawa, H., and Matsuda, Y. (2004). The transcriptional program of synchronous gametogenesis in Chlamydomonas reinhardtii. Curr. Genetics 46, 304-315.

Kajikawa, M., Yamato, K.T., Kohzu, Y., Sakata, R., Fukuzawa, H., Uchida, H., and Ohyama, K. (2004). Expressed sequence tags from callus of Euphorbia tirucalli: A resource for genes involved in triterpenoid and sterol biosynthesis. Plant Biotech. 21, 349-353.

Uchida, H., Nakayachi, O., Otani, M., Kajikawa, M., Kohzu, Y., Yamato, K.T., Fukuzawa, H., Shimada, T., and Ohyama, K. (2004). Plant regeneration from internode explants of Euphorbia tirucalli. Plant Biotech. 21, 397-399.

Asadulghani, Nitta, K., Kaneko, Y., Kojima, K., Fukuzawa, H., Kosaka, H., and Nakamoto, H. (2004). Comparative analysis of the hspA mutant and wild-type Synechocystis sp. Strain PCC6803 under salt stress: evaluation of the role of hspA in salt-stress management. Archives of Microbiol. 182, 487-497.

Ando, K. Yamakawa, S., Miyashita, K., Yoshida, K., Yokota, A., Shinmyo, A., and Kohchi, T. (2004). Efficient construction of cDNA microarrays utilizing normalized cDNA libraries of Arabidopsis thaliana. J. Biosci. Bioeng. 97, 85-88.

Shikata, M., Matsuda, Y., Ando, K., Nishii, A., Takemura, M., Yokota, A., and Kohchi, T. (2004). Characterization of Arabidopsis ZIM, a member of a novel plant-specific GATA factor gene family. J. Exp. Bot. 55, 631-639.

Kami, C., Mukougawa, K., Muramoto, T., Yokota, A., Shinomura, T., Lagarias, J. C., and Kohchi, T. (2004). Complementation of phytochrome chromophore-deficient Arabidopsis by expression of phycocyanobilin:ferredoxin oxidoreductase. Proc. Natl. Acad. Sci. USA 101, 1099-1104.

Sawada, K., Hasegawa, M., Tokuda, L., Kameyama, J., Kodama, O., Kohchi, T., Yoshida, K., and Shinmyo, A. (2004). Enhanced resistance to blast fungus and bacterial blight in transgenic rice constitutively expressing OsSBP, a rice homologue of mammalian selenium-binding proteins. Biosci. Biotechnol. Biochem. 68, 873-880.

Yamakawa, S., Ando, K., Chisaka, A., Yoshida, K., Shinmyo, A., and Kohchi, T. (2004). Systematic transient assays of promoter activities for leaf-specific genes identified by gene-exoression profiling with cDNA microarrays in Arabidopsis thaliana. J. Biosci. Bioeng., 98, 140-143.

Sawers, R.J., Linley, P.J., Gutierrez-Marcos, J.F., Delli-Bovi, T., Farmer, P.R., Kohchi, T., Terry, M.J., and Brutnell, T.P. (2004) The Elm1 (ZmHy2) gene of maize encodes a phytochromobilin synthase. Plant Physiol. 136, 2771-2781.

Hattan, J., Kanamoto, H., Takemura, M., Yokota, A., and Kohchi, T. (2004). Molecular characterization of the cytoplasmic interacting protein of the receptor kinase IRK expressed in the inflorescence and root apices of Arabidopsis. Biosci. Biotechnol. Biochem. 68, 2598-2606.


Kucho, K., Yoshioka, S., Taniguchi, F., Ohyama, K., and Fukuzawa, H. (2003). Cis-acting elements and DNA-binding proteins involved in CO2-responsive transcriptional activation of Cah1 encoding a periplasmic carbonic anhydrase in Chlamydomonas reinhardtii. Plant Physiol. 133, 783-793.

Kajikawa, M. (D2, RA), Yamaoka, S., Yamato, K.T., Kanamaru, H., Sakuradani, E., Shimizu, S., Fukuzawa, H., and Ohyama, K. (2003). Functional analysis of a β-ketoacyl-CoA synthase gene, MpFAE2, by gene silencing in the liverwort Marchantia polymorpha L. Biosci. Biotechnol. Biochem. 67, 605-612.

Suzuki, T., Yamasaki, K., Fujita, S., Oda, K., Iseki, M., Yoshida, K., Watanabe, M., Daiyasu, H., Toh H., Asamizu, E., Tabata, S., Miura, K., Fukuzawa, H., Nakamura, S., and Takahashi, T. (2003). Archeal-type rhodopsins in Chlamydomonas: model structure and intracellular localization. Bioch. Biophys. Res. Com. 301, 711-717.

Kajikawa, M., Yamato, K.T., Kanamaru, H., Sakuradani, E., Shimizu, S., Fukuzawa, H., Sakai, Y., and Ohyama, K. (2003). MpFAE3, a β-Ketoacyl-CoA synthase gene in the liverwort Marchantia polymorpha L., is preferentially involved in elongation of palmitic acid to stearic acid. Biosci. Biotechnol. Biochem. 67, 1667-1674.

Fujisawa, M., Nakayama, S., Nishio, T., Fujishita, M., Hayashi, K., Ishizaki, K., Kajikawa, M., Yamato, K.T., Fukuzawa, H., and Ohyama, K. (2003). Evolution of ribosomal DNA unit on the X chromosome independent of autosomal units in the liverwort Marchantia polymorpha. Chromosome Res. 11, 695-703.

Nakazato, E., Fukuzawa, H., Tabata, S., Takahashi H., and Tanaka, K. (2003). Identification and expression analysis of cDNA encoding a chloroplast recombination protein REC1, the chloroplast RecA homologue in Chlamydomonas reinhardtii. Biosci. Biotechnol. Biochem. 67, 2608-2613.

Hyodo, H., Yamakawa, S., Takeda, Y., Tsuduki, M., Yokota, A., Nishitani, K., and Kohchi, T. (2003). Active gene expression of a xyloglucan endotransglycosylase/hydrolase gene, XTH9, in inflorescence apices is related to cell elongation in Arabidopsis thaliana. Plant Mol. Biol. 52, 473-482.

Fujita, H., Takemura, M., Tani, E., Nemoto, K., Yokota, A., and Kohchi, T. (2003). An Arabidopsis MADS-box protein, AGL24 is specifically bound to and phosphorylated by meristematic receptor-like kinase. Plant Cell Physiol. 44, 735-742.

Shikata, M., Takemura, M., Yokota, A., and Kohchi, T. (2003). Arabidopsis ZIM, a plant-specific GATA factor, can function as a transcriptional activator. Biosci. Biotechnol. Biochem., 67, 2495-2497.


Miura, K., Kohinata, T, Yoshioka, S., Ohyama, K., and Fukuzawa, H. (2002). Regulation of a carbon concentrating mechanism through CCM1 in Chlamydomonas reinhardtii. Functional Plant Biol. 29, 211-219.

Shibata,M., Katoh, H., Sonoda, M., Ohkawa, H., Shimoyama, M., Fukuzawa, H., Kaplan, A., and Ogawa, T. (2002). Genes essential to sodium-dependent bicarbonate transport in cyanobacteria: Function and phylogenetic analysis. J. Biol. Chem. 277, 18658?18664.

Kasahara, M., Swartz, T,E., Olney, M.A., Onodera, A., Mochizuki, Y., Fukuzawa, H., Asamizu, E., Tabata, S., Kanegae, H., Takano, M., Christie, J.M., Nagatani, A., and Briggs, W. (2002). Photochemical properties of the flavin mononucleotide-binding domains of the phototropins from Arabidopsis, rice, and Chlamydomonas reinhardtii. Plant Physiol. 129, 762-773.

Ishizaki, K. , Shimizu-Ueda, Y., Okada, S., Yamamoto, M., Fujisawa, M., Yamato, K.T., Fukuzawa, H., and Ohyama, K. (2002). Multicopy genes uniquely amplified in the Y-chromosome-specific repeats of the liverwort, Marchantia polymorpha. Nucl. Acids Res. 30, 4675-4681.

Kanamoto, H., Hattan, J., Takemura, M., Yokota, A., and Kohchi, T. (2002). Molecular cloning for a putative receptor-like protein kinase with a leucine-rich repeat expressed in inflorescence and root apices from Arabidopsis. Plant Biotech., 19, 113-120.

Terry, M.J., Linley, P.J., and Kohchi, T. (2002). Making light of it: the role of plant haem oxygenase in phytochrome chromophore synthesis. Biochem. Soc. Trans. 30, 604-609.

Muramoto, T., Tsurui, N., Terry, M.J., Yokota, A., and Kohchi, T. (2002). Expression and biochemical properties of a ferredoxin-dependent heme oxygenase required for phytochrome chromophore synthesis. Plant Physiol. 130, 1958-1966.

Kitajima, S., Ueda, M., Sano, S., Miyake, C., Kohchi, T., Tomizawa, K., Shigeoka, S., and Yokota, A. (2002). Stable form of ascorbate peroxidase from the red alga Galdieria partita similar to both chloroplast and cytosolic isomers of higher plants. Biosci. Biotechnol. Biochem., 66, 2367-2375.


Kohchi, T., Mukougawa, K., Masuda, M., Yokota, A., Frankenberg, N., Lagarias, J. C. The Arabidopsis HY2 gene encodes phytochromobilin synthase, a ferredoxin-dependent biliverdin reductase. Plant Cell, 13, 425-436 (2001).

**Frankenberg, N., Mukougawa, K., Kohchi, T., Lagarias, J. C. Functional genomic analysis of the HY2 family of ferredoxin-dependent bilin reductases from oxygenic photosynthetic organisms. Plant Cell, 13, 965-978 (2001).

*Bruker, G., Zeidler, Z., Kohchi, T., Hartmann E., Lamparter, T. Microinjection of heme oxygenase genes rescues phytochrome-chromophore-deficient mutants of the moss Ceratodon purpureus. Planta, 210, 529-535 (2000).

Nishii, A., Takemura, M., Fujita, H., Shikata, M., Yokota, A., Kohchi, T. Characterization of a novel gene encoding a putative single zinc-finger protein, ZIM, expressed during reproductive phase in Arabidopsis thaliana. Biosci. Biotechnol. Biochem., 64, 1402-1409 (2000).

Hyodo, H., Takemura, M., Yokota, A., Ohyama, K., Kohchi, T. Systematic isolation of highly transcribed genes in inflorescence apices in Arabidopsis thaliana from an equalized cDNA library. Biosci. Biotechnol. Biochem., 64, 1538-1541 (2000).

Kawasaki, S., Miyake, C., Kohchi, T., Fujii, S., Uchida, M., Yokota, A. Responses of wild watermelon to drought stress: accumulation of an ArgE homologue and citrulline in leaves during water deficits. Plant Cell Physiol, 41, 864-873 (2000).

Muramoto, T., Kohchi, T., Yokota, A., Hwang, I., Goodman, H. M. The Arabidopsis photomorphogenic mutant hy1 is deficient in phytochrome chromophore biosynthesis as a result of a mutation in a plastid heme oxygenase. Plant Cell, 11, 335-348 (1999).

Kohchi, T., Fujishige, K., Ohyama, K. Construction of an equalized cDNA library from Arabidopsis thaliana. Plant J., 8, 771-776 (1995).

Oda, K., Yamato, K., Ohta, E., Nakamura, Y., Takemura, M., Nozato, N., Akashi, K., Kanegae, T., Ogura, Y., Kohchi, T., Ohyama, K. Gene organization deduced from the complete sequence of liverwort Marchantia polymorpha mitochondrial DNA. J. Mol. Biol., 223, 1-7 (1992).

Ohyama, K., Fukuzawa, H., Kohchi, T., Sano, T., Sano, S., Shirai, H., Umesono, K., Shiki, T., Takeuchi, M., Chang, Z., Aota, S., Inokuchi, H., Ozeki, H. Structure and organization of Marchantia polymorpha chloroplast genome, I. Cloning and Gene Identification. J. Mol. Biol., 203, 281-298 (1988).

Umesono, K., Inokuchi, H., Shiki, T., Takeuchi, M., Chang, Z., Fukuzawa, H., Kohchi, T., Shirai, H., Ohyama, K., Ozeki, H. Structure and organization of Marchantia polymorpha chloroplast genome, II. Gene organization of the large single copy region from rps'12 to atpB. J. Mol. Biol., 203, 299-331 (1988).

Fukuzawa, H., Kohchi, T., Sano, T., Shirai, H., Umesono, K., Inokuchi, H., Ozeki, H. , Ohyama, K. Structure and organization of Marchantia polymorpha chloroplast genome, III. Gene organization of the large single copy region from rbcL to trnI(CAU). J. Mol. Biol., 203, 333-351 (1988).

Kohchi, T., Shirai, H., Fukuzawa, H., Sano, T., Komano, T., Umesono, K., Inokuchi, H., Ozeki, H., Ohyama, K. Structure and organization of Marchantia polymorpha chloroplast genome, IV. Inverted repeat and small single copy regions. J. Mol. Biol., 203, 353-372 (1988).

Kohchi, T., Umesono, K., Ogura, Y., Komine, Y., Nakahigashi, K., Komano, T., Yamada, Y., Ozeki, H., Ohyama, K. A nicked group II intron and trans-splicing in liverwort, Marchantia polymorpha, chloroplasts. Nucl. Acids. Res., 16, 10025-10036 (1988).

Kohchi, T., Yoshida, T., Komano, T., Ohyama, K. Divergent mRNA transcription in the chloroplast psbB operon. EMBO J., 7, 885-891 (1988).

Kohchi, T., Ogura, Y., Umesono, K., Yamada, Y., Komano, T., Ozeki, H., Ohyama, K. Ordered processing and splicing in a polycistronic transcript in liverwort chloroplasts.  Curr. Genet., 14, 147-154 (1988).

Ohyama, K., Fukuzawa, H., Kohchi, T., Shirai, H., Sano, T., Sano, S., Umesono, K., Shiki, Y., Takeuchi, M., Chang, Z., Aota, S., Inokuchi, H., Ozeki, H. Chloroplast gene organization deduced from complete sequence of liverwort Marchantia polymorpha chloroplast DNA. Nature, 322, 572-574 (1986).

Fukuzawa, H., Kohchi, T., Shirai, H., Ohyama, K., Umesono, K., Inokuchi, H., Ozeki, H. Coding sequences for chloroplast ribosomal protein S12 from the liverwort, Marchantia polymorpha, are separated far apart on the different DNA strands. FEBS Lett., 186, 11-15 (1986).

著書 (抜粋)

河内孝之、フィトクロム発色団生合成、細胞工学別冊植物細胞工学シリーズ16, 58-64 (2001).

竹村美保、河内孝之、受容体型キナーゼを介した細胞間コミュニケーション、蛋白質核酸酵素47, 1735-1739 (2002).

河内孝之、葉緑体機能発現と光制御の分子機構に関する研究、日本農芸化学会誌76, 930-935 (2002).

山川清栄、河内孝之、吉田和哉、新名惇彦、マイクロアレイを用いた植物プロモーターの網羅的探索、バイオインダストリー、21 (12), 51-63 (2004).

Takayuki Kohchi, Evolutionary selection of phytochrome chromophore, in Light sensing in plants, M. Wada, K. Shimazaki, M. Iino eds. Springer, 21-36 (2005).