Integrated analysis of cyanobacteriochromes in diversity and molecular regulation of cyanobacterial photoresponses

2013 Fiscal Year Final Research Report

• Project/Area Number: 23370014
• Research Category: Grant-in-Aid for Scientific Research (B)
• Allocation Type: Single-year Grants
• Section: 一般
• Research Field: Plant molecular biology/Plant physiology
• Research Institution: The University of Tokyo
• Principal Investigator: IKEUCHI Masahiko 東京大学, 総合文化研究科, 教授 (20159601)
• Co-Investigator(Renkei-kenkyūsha): FUKUYAMA Keiichi 大阪大学, 大学院・理学研究科, 教授 (80032283)
• Project Period (FY): 2011-04-01 – 2014-03-31
• Keywords: 受容体 / 結晶構造 / シグナル伝達 / c-di-GMP / フィトクロム / シアノバクテリオクロム

Research Abstract

We found that cyanobacteria possess diverse photoreceptors and cyanobacteriochromes are unique in perception of wide range of light color. We focused on biochemical, structural and physiological aspects of cyanobacteriochromes in order to integrate the light signaling system at molecular level. We determined the crystal structures of two cyanobacteriochromes and revealed the atomic basis for the color tuning and intramolecular signaling. We determined enzymatic regulation of the cyanobacteriochromes to produce or degrade a second messenger molecule, cyclic diguanylic acid, which induces cellulose production and cellular aggregation in thermophilic cyanobacteria. We also elucidated the molecular contribution of the cyanobacteriochromes to the cellular aggregation by combinatorial mutagenesis studies. Thus, a set of cyanobacteriochromes integrates various light signals into the cellulose production and cellular aggregation by direct regulation of cyclic diguanylic acid.

Research Products

• [Journal Article] Attachment of phycobilisomes in an antenna-photosystem I supercomplex of cyanobacteria (2014)
  • Author(s): Watanabe, M., Semchonok, D. A., Webber-Birungi, M., Ehira, S., Kondo, K., Narikawa, R., Ohmori, M., Boekema, E. J. and Ikeuchi, M.
  • Journal Title: Proc. Natl. Acad. Sci. USA Volume: 111 Pages: 2512-2517
  • Peer Reviewed
• [Journal Article] Klebsormidium flaccidum genome reveals primary factors for plant terrestrial adaptation (2014)
  • Author(s): K. Hori, F. Maruyama, T. Fujisawa, T. Togashi, N. Yamamoto, M. Seo, S. Sato, T. Yamada, H. Mori, N. Tajima, T. Moriyama, M. Ikeuchi, M. Watanabe, H. Wada, K. Kobayashi, M. Saito, T. Masuda, Y. Sasaki-Sekimoto, K. Mashiguchi, K. Awai, M. Shimojima, S. Masuda, M. Iwai, T. Nobusawa, T. N., S. Kondo, H. Saito, R. Sato, M. Murakawa, Y. Ihara, Y. Oshima-Yamada, K. Ohtaka, M. Satoh, K. Sonobe, M. Ishii, R. Ohtani, M. Kanamori-Sato, R. Honoki, D. Miyazaki, H. Mochizuki, J. Umetsu, K. Higashi, D. Shibata, Y. Kamiya, N. Sato, Y. Nakamura, S. Tabata, S. Ida, K. Kurokawa, and H. Ohta
  • Journal Title: Nature Comm Volume: (In press)
  • Peer Reviewed
• [Journal Article] CugP is a novel ubiquitous non-GalU-type bacterial UDP-glucose pyrophosphorylase found in cyanobacteria (2014)
  • Author(s): Maeda, K., Narikawa, R., Ikeuchi, M
  • Journal Title: J. Bacteriol. Volume: (In press)
  • Peer Reviewed
• [Journal Article] Phycobilisome : architecture of a light-harvesting supercomplex (2013)
  • Author(s): Watanabe M., and Ikeuchi, M
  • Journal Title: Photosynth. Res Volume: 116 Pages: 265-276
  • Peer Reviewed
• [Journal Article] Structures of cyanobacteriochromes from phototaxis regulators AnPixJ and TePixJ reveal general and specific photoconversion mechanism (2013)
  • Author(s): Narikawa, R., Ishizuka, T., Muraki, N., Shiba, T., Kurisu, G. and Ikeuchi, M
  • Journal Title: Proc. Natl. Acad. Sci. USA Volume: 110 Pages: 918-23
  • Peer Reviewed
• [Journal Article] Green/red cyanobacteriochromes regulate complementary chromatic acclimation via a protochromic photocycle (2013)
  • Author(s): Hirose, Y., Rockwell, N. C., Nishiyama, K., Narikawa, R., Ukaji, Y., Inomata, K., Lagarias, J. C., Ikeuchi, M
  • Journal Title: Proc. Natl. Acad. Sci. U. S. A Volume: 110 Pages: 4974-4979
  • Peer Reviewed
• [Journal Article] The role of extracellular polysaccharides produced by the terrestrial cyanobacterium Nostoc sp. strain HK-01 in NaCl tolerance (2012)
  • Author(s): Yoshimura, H., Kotake, T., Aohara, T., Tsumuraya, Y., Ikeuchi, M. and Ohmori, M
  • Journal Title: J. Appl. Phycol Volume: 24 Pages: 237-243
  • Peer Reviewed
• [Journal Article] A deletion mutation in the spacing within the psaA core promoter enhances transcription in a cyanobacterium Synechocystis sp. PCC 6803 (2012)
  • Author(s): Midorikawa, T., Narikawa, R., and Ikeuchi, M
  • Journal Title: Plant Cell Physiol Volume: 53 Pages: 164-172
  • Peer Reviewed
• [Journal Article] Phycobilisome model with novel skeleton-like structures in a glaucocystophyte Cyanophora paradoxa (2012)
  • Author(s): Watanabe, M., Sato, M., Kondo, K., Narikawa, R. and Ikeuchi, M
  • Journal Title: Biochim. Biophys. Acta Volume: 1817 Pages: 1428-1435
  • Peer Reviewed
• [Journal Article] Identification of substrain-specific mutations by massively parallel whole-genome resequencing of Synechocystis sp. PCC 6803 (2012)
  • Author(s): Kanesaki, Y., Shiwa, Y., Tajima, N., Suzuki, M., Watanabe, S., Sato, N., Ikeuchi, M., and Yoshikawa, H
  • Journal Title: DNA Res Volume: 19 Pages: 67-79
  • Peer Reviewed
• [Journal Article] Thiol-based photocycle of the blue and teal light-sensing cyanobacteriochrome Tlr1999 (2012)
  • Author(s): Enomoto, G., Hirose, Y., Narikawa, R., and Ikeuchi, M
  • Journal Title: Biochemistry Volume: 51 Pages: 3050-3058
  • Peer Reviewed
• [Journal Article] Proteases are associated with a minor fucoxanthin chlorophyll a/c-binding protein from the diatom, Chaetoceros gracilis (2012)
  • Author(s): R. Nagao, T. Tomo, E. Noguchi, T. Suzuki, A. Okumura, R. Narikawa, I. Enami and M. Ikeuchi
  • Journal Title: Biochim. Biophys. Acta Volume: 1817 Pages: 2110-2117
  • Peer Reviewed
• [Journal Article] Time-resolved tracking of interprotein signal transduction : Synechocystis PixD-PixE complex as a sensor of light intensity (2012)
  • Author(s): Tanaka K, Nakasone Y, Okajima K, Ikeuchi M, Tokutomi S, Terazima M.
  • Journal Title: J Am Chem Soc Volume: 134 Pages: 8336-9
  • Peer Reviewed
• [Journal Article] Cell surface-associated proteins in the filamentous cyanobacterium Anabaena sp. strain PCC 7120 (2012)
  • Author(s): Yoshimura H, Ikeuchi M, Ohomori M.
  • Journal Title: Microbes Environ Volume: 27 Pages: 538-43
  • Peer Reviewed
• [Journal Article] Deletion of psbJ leads to accumulation of Psb27-Psb28 photosystem II complexes in Thermosynechococcus elongatus (2012)
  • Author(s): Nowaczyk MM, Krause K, Mieseler M, Sczibilanski A, Ikeuchi M, Rögner M
  • Journal Title: Biochim Biophys Acta Volume: 1817 Pages: 1339-45
  • Peer Reviewed
• [Journal Article] Cloning, expression, crystallization and preliminary X-ray studies of the ferredoxin-NAD(P) + reductase from the thermophilic cyanobacterium Thermosynechococcus elongatus BP-1 (2012)
  • Author(s): Liauw P, Mashiba T, Kopczak M, Wiegand K, Muraki N, Kubota H, Kawano Y, Ikeuchi M, Hase T, Rögner M, Kurisu G
  • Journal Title: Acta Crystallogr Sect F Struct Biol Cryst Commun Volume: 68 Pages: 1048-51
  • Peer Reviewed
• [Journal Article] Novel supercomplex organization of Photosystem I in Anabaena and Cyanophora paradoxa (2011)
  • Author(s): Watanabe, M., Kubota, H., Wada, H., Narikawa, R. and Ikeuchi, M
  • Journal Title: Plant Cell Physiol Volume: 52 Pages: 162-168
  • Peer Reviewed
• [Journal Article] The cyanobacteriochrome, TePixJ, isomerizes its own chromophore by converting phycocyanobilin to phycoviolobilin (2011)
  • Author(s): Ishizuka, T., Kamiya, A., Suzuki, H., Narikawa, R., Noguchi, T., Kohchi, T., Inomata, K., and Ikeuchi, M
  • Journal Title: Biochemistry Volume: 50 Pages: 953-961
  • Peer Reviewed
• [Journal Article] Roles of PsbI and PsbM in photosystem II dimer formation and stability studied by deletion mutagenesis and X-ray crystallography (2011)
  • Author(s): Kawakami, K., Umena, Y., Iwai, M., Kawabata, Y., Ikeuchi, M., Kamiya, N. and Shen, J. -R.
  • Journal Title: Biochim. Biophys. Acta Volume: 1807 Pages: 319-325
  • Peer Reviewed
• [Journal Article] Macromolecular crowding effects on reactions of TePixD (Tll0078) (2011)
  • Author(s): Toyooka T, Tanaka K, Okajima K, Ikeuchi M, Tokutomi S, and Terazima M.
  • Journal Title: Photochem Photobiol Volume: 87 Pages: 584-9
  • Peer Reviewed
• [Journal Article] Cellulose accumulation and a cellulose synthase gene are responsible for cell aggregation in the cyanobacterium Thermosynechococcus vulcanus RKN (2011)
  • Author(s): Kawano, Y., Saotome, T., Ochiai, Y., Katayama, M., Narikawa, R. and Ikeuchi, M
  • Journal Title: Plant Cell Physiol Volume: 52 Pages: 957-66
  • Peer Reviewed
• [Journal Article] Genetic engineering of the group 2 sigma factor SigE widely activates the expressions of sugar catabolic genes in Synechocystis sp. PCC 6803 (2011)
  • Author(s): Osanai, T., Oikawa, A., Azuma, M., Tanaka, K., Saito, K., Hirai, M. Y., and Ikeuchi, M
  • Journal Title: J Biol Chem Volume: 286 Pages: 30962-71
  • Peer Reviewed
• [Journal Article] Light-induced conformational change and transient dissociation reaction of the BLUF photoreceptor Synechocystis PixD (Slr1694) (2011)
  • Author(s): Tanaka, K., Nakasone, Y., Okajima, K., Ikeuchi, M., Tokutomi, S., and Terazima, M.
  • Journal Title: J. Mol. Biol Volume: 409 Pages: 773-85
  • Peer Reviewed
• [Journal Article] A way to sense light intensity : Multiple-excitation of the BLUF photoreceptor TePixD suppresses conformational change (2011)
  • Author(s): Tanaka, K., Nakasone, Y., Okajima, K., Ikeuchi, M., Tokutomi, S., and Terazima, M.
  • Journal Title: FEBS Lett Volume: 585 Pages: 786-90
  • Peer Reviewed
• [Journal Article] Genomic structure of the cyanobacterium Synechocystis sp. PCC 6803 strain GT-S (2011)
  • Author(s): Tajima, N., Sato, S., Maruyama, F., Kaneko, T., Sasaki, N. V., Kurokawa, K., Ohta, H., Kanesaki, Y., Yoshikawa, H., Tabata, S., Ikeuchi, M., and Sato, N
  • Journal Title: DNA Res Volume: 18 Pages: 393-9
  • Peer Reviewed
• [Journal Article] Photoconversion mechanism of a green/red photosensory cyanobacteriochrome AnPixJ : time-resolved optical spectroscopy and FTIR analysis of the AnPixJ-GAF2 domain (2011)
  • Author(s): Fukushima Y, Iwaki M, Narikawa R, Ikeuchi M, Tomita Y, Itoh S.
  • Journal Title: Biochemistry Volume: 50 Pages: 6328-39
  • Peer Reviewed
• [Journal Article] Photosystem II gold nanoparticle conjugate as a nanodevice for the development of artificial light-driven water-splitting systems (2011)
  • Author(s): Noji, T. Suzuki., H., Gotoh, T., Iwai, M., Ikeuchi, M., Tomo, T. and Noguchi, T
  • Journal Title: J. Phys. Chem. Lett Volume: 2 Pages: 2448-2452
  • Peer Reviewed
• [Journal Article] Novel photosensory two-component system (PixA-NixB-NixC) involved in the regulation of positive and negative phototaxis of cyanobacterium Synechocystis sp. PCC 6803 (2011)
  • Author(s): Narikawa, R., Suzuki, F., Yoshihara, S., Higashi, S., Watanabe, M. and Ikeuchi, M.
  • Journal Title: Plant Cell Physiol Volume: 52 Pages: 2214-2224
  • Peer Reviewed
• [Presentation] Chromatic sensors in cyanobacteria (2013)
  • Author(s): M. Ikeuchi
  • Organizer: Australia 6th Asia and Oceania Conference on Photobiology
  • Place of Presentation: Sydney
  • Year and Date: 20131011-13
  • Invited
• [Presentation] A novel bifunctional cyanobacteriochrome (2013)
  • Author(s): M. Ikeuchi
  • Organizer: German conference on photoreceptors
  • Place of Presentation: Sydney
  • Year and Date: 20130922-25
  • Invited
• [Presentation] Color tuning in cyanobacterial life (2013)
  • Author(s): M. Ikeuchi
  • Organizer: Cyanobacterial Workshop
  • Place of Presentation: St. Louis, USA
  • Year and Date: 20130808-11
  • Invited
• [Presentation] Structure and Color Development mechanism of Cyanobacteriochromes (2013)
  • Author(s): M. Ikeuchi
  • Place of Presentation: ベルリン自由大学
  • Year and Date: 2013-09-20
  • Invited
• [Presentation] Light-induced biofilm formation and EPS production in cyanobacteria (2012)
  • Author(s): J Tamura, R Nomura, T Saotome, Y Kawano, G Enomoto, T Shimada, R Narikawa, M Ikeuchi
  • Place of Presentation: Naantali, Finland
  • Year and Date: 20120908-13
  • Invited
• [Presentation] Diversity of Cyanobacteriochromes and photoresponses in cyanobacteria --photocycle of double Cys-type (2012)
  • Author(s): M. Ikeuchi
  • Organizer: Gordon Research Conferences : Photosensory Receptors & Signal Transduction
  • Place of Presentation: GRC, Galveston, USA
  • Year and Date: 20120122-27
  • Invited
• [Book] 藻類オイル生産技術研究の最前線 (2013)
  • Author(s): 広瀬侑, 池内昌彦
  • Total Pages: 163-173
  • Publisher: エヌ・ティー・エス
• [Book] 理系総合のための生命科学第3版 (2013)
  • Author(s): 池内昌彦
  • Publisher: 羊土社
• [Book] 藻類ハンドブック (2012)
  • Author(s): 池内昌彦
  • Publisher: エヌ・ティー・エス
• [Remarks]
  • URL: https://sites.google.com/site/whatsnewikeuchilab/