Research & Activities


explanatory notes : Author, "Title," Journal, Abstract (PDF)

Deep Earth Science

M. A. Siegler, R. S. Miller, J. T. Keane, M. Laneuville, D. A. Paige, I. Matsuyama, D. J. Lawrence, A. Crotts & M. J. Poston. Lunar true polar wander inferred from polar hydrogen, Nature, 531, 480-484, doi:10.1038/nature17166, 2016.

Tateno, S., Kuwayama, Y., Hirose, K., Ohishi, Y., Crystal structure of Fe-Si alloy in the Earth's inner core, Earth and Planetary Science Letters, 418, 11-19, 2015.

Labrosse, S., Hernlund, J., Hirose, K., Fractional melting and freezing in the deep mantle and implications for the formation of a basal magma ocean, in "Early Earth: Accretion and Differentiation", AGU monograph, 212, 111-130, 2015.

Gomi, H., Hirose, K., Electrical resistivity and thermal conductivity of hcp Fe-Ni alloys under high pressure: Implications for thermal convection in the Earth's core, Physics of the Earth and Planetary Interiors, doi:10.1016/j.pepi.2015.04.003, 2015.

Minobe, S., Nakajima, Y., Hirose, K., Ohishi, Y., Stability and compressibility of a new iron-nitride β-Fe7N3 to core pressures, Geophysical Research Letters, 42, doi:10.1002/2015GL064496, 2015.


Planet Formation Theory

Genda, H. (2016) Origin of Earth's Oceans: An Assessment of the Total Amount, History and Supply of Water. Geochemical Journal 50, 27-42. doi:10.2343/geochemj.2.0398

Genda, H. (2015) Impact simulations with SPH method. Planetary People 24, 191-200 (in Japanese).

Brasser, R., Wang, J.-H. 2015. An updated estimate of the number of Jupiter-family comets using a simple fading law. Astronomy and Astrophysics 573, A102.

Brasser, R., Schwamb, M. E. 2015. Re-assessing the formation of the inner Oort cloud in an embedded star cluster - II. Probing the inner edge. Monthly Notices of the Royal Astronomical Society 446, 3788-3796.

Gomes, R. S., Soares, J. S., Brasser, R. 2015. The observation of large semi-major axis Centaurs: Testing for the signature of a planetary-mass solar companion. Icarus 258, 37-49.


Geology Geochemistry

Ross N. Mitchell, Timothy D. Raub, Samuel C. Silva, & Joseph L. Kirschvink. Was the Cambrian explosion both an effect and an artifact of true polar wander? American J. Science, Vol. 315, December, 2015, P. 945-957, DOI 10.2475/10.2015.02

Endo Y, Danielache S, Ueno Y, Hattori S, Johnson MS, Yoshida N, Kjaergaard HG., 2015, Photoabsorption cross-section measurements of 32S, 33S, 34S and 36S sulfur dioxide from 190 to 220 nm: Journal of Geophysical Research, Atmosphere, Volume 120, Issue 6, p. 2546-2557.

Ueno Y, Danielache S, Yoshida N., 2015, Decoding Redox Evolution Before Oxygenic Photosynthesis Based on the Sulfur-Mass Independent Fractionation (S-MIF) Record: Origins of Life and Evolution of the Biosphere, Volume 45, Issue 3, p. 371-374.

"Thermo-compression of pyrope-grossular garnet solid solutions: non-linear compositional dependence" WEI DU, SIMON M. CLARK, AND DAVID WALKER. American Mineralogist (in press)

Yuichiro Ueno 2014. Coping with low ocean sulfate, Chile Triple Junction Area. Science Vol. 346 no. 6210 pp. 703-704.


Extraterrestrial Observation

Scharf, C., Virgo, N., Cleaves II, J. M., Kimura, J., and 33 coauthors, A Strategy for Origins of Life Research, Astrobiology 15, 1031-1042, doi:10.1089/ast.2015.1113, 2015.

Kimura, T.; Badman, S. V.; Tao, C.; Yoshioka, K.; Murakami, G.; Yamazaki, A.; Tsuchiya, F.; Bonfond, B.; Steffl, A. J.; Masters, A.; Kasahara, S.; Hasegawa, H.; Yoshikawa, I.; Fujimoto, M.; Clarke, J. T.Transient internally driven aurora at Jupiter discovered by Hisaki and the Hubble Space Telescope, Geophys. Res. Lett., DOI: 10.1002/2015GL063272, 2015.

Kimura, J., Kitadai, N., Polymerization of building blocks of life on Europa and other icy moons, Astrobiology 15, 430-441, doi:10.1089/ast.2015.1306, 2015.

Yuka Fujii, Jun Kimura, James Dohm, and Makiko Ohtake. Astrobiology. September 2014, 14(9): 753-768. doi:10.1089/ast.2014.1165.

Koji Tsumura, Ko Arimatsu, Eiichi Egami, Yutaka Hayano, Chikatoshi Honda, Jun Kimura, Kiyoshi Kuramoto, Shuji Matsuura, Yosuke Minowa, Kensuke Nakajima, Taishi Nakamoto,
Mai Shirahata, Jason Surace, Yasuto Takahashi, and and Takehiko Wada, Near-infrared Brightness of the Galilean Satellites Eclipsed in Jovian Shadow: A New Technique to
Investigate Jovian Upper Atmosphere, The Astrophysical Journal 789, 122, 2014.


Geomicrobiology Physiology

Mikika Maekawa, Rina Honoki, Yuta Ihara, Ryoichi Sato, Akira Oikawa, Yuri Kanno, Hiroyuki Ohta, Mitsunori Seo, Kazuki Saito, Shinji Masuda, "Impact of the plastidial stringent response in plant growth and stress responses" Nature Plants 15167, (2015), DOI: 10.1038/nplants.2015.167.

Masako Iwai, Koichi Hori, Yuko Sasaki-Sekimoto, Mie Shimojima and Hiroyuki Ohta. "Manipulation of oil synthesis in Nannochloropsis strain NIES-2145 with a phosphorus starvation-inducible promoter from Chlamydomonas reinhardtii" Frontiers in Microbiology (2015), DOI : 10.3389/fmicb.2015.00912.

Yusuke Tsukatani, Yuu Hirose, Jiro Harada, Naomi Misawa, Keita Mori, Kazuhito Inoue, and Hitoshi Tamiaki (2015) Complete genome sequence of the bacteriochlorophyll b-producing photosynthetic bacterium Blastochloris viridis. Genome Announc. 3, pii: e01006-15. DOI:10.1128/genomeA.01006-15

Tsukatani, Y., and Masuda, S. (2015) Elucidation of genetic backgrounds necessary for chlorophyll a biosynthesis toward artificial creation of oxygenic photosynthesis. Orig. Life Evol. Biosph. 45, 367-369. DOI: 10.1007/s11084-015-9446-1

Tsukatani, Y., Harada, J., Nomata, J., Yamamoto, H., Fujita, Y., Mizoguchi, T., and Tamiaki, H. (2015) Rhodobacter sphaeroides mutants overexpressing chlorophyllide a oxidoreductase of Blastochloris viridis elucidate functions of enzymes in late bacteriochlorophyll biosynthetic pathways. Sci. Rep. 5, 9741. DOI: 10.1038/srep09741


Genome Environment Database

森宙史,山田拓司,黒川顕(2013)ヒトメタゲノムの大規模コホート研究 (Large scale cohort study of human microbiome),生物の科学「遺伝」,67(3):279-282.

Sudo N, Soma A, Muto A, Iyoda S, Suh M, Kurihara N, Abe H, Tobe T, Ogura Y, Hayashi T, Kurokawa K, Ohinishi M, Sekine Y (2013) A novel small regulatory RNA accelerates cell motility in enterohemorrhagic Escherichia coli. J. Gen. Appl. Microbiol. In press.

Sawabe T, Ogura Y, Matsumura Y, Gao F, Amin A, Mino S, Nakagawa S, Sawabe T, Kumar R, Fukui Y, Satomi M, Matsushima R, Thompson F, Gomez-Gil B, Christen R, Maruyama F, Kurokawa K, Hayashi T (2013) Updating the Vibrio clades defined by multilocus sequence phylogeny: Proposal of eight new clades, and the description of Vibrio tritonius sp. nov.. Frontiers in Aquatic Microbiol. 4:1-14. doi:10.3389/fmicb.2013.00414

Mori H, Maruyama F, Kato H, Toyoda A, Dozono A, Ohtsubo Y, Nagata Y, Fujiyama A, Tsuda M, Kurokawa K (2013) Design and experimental application of a novel non-degenerate universal primer set that amplifies prokaryotic 16S rRNA genes with a low possibility to amplify eukaryotic rRNA genes. DNA Res., Epub. doi:10.1093/dnares/dst052.

Zheng H., Bodington D., Zhang C., Miyanaga K., Tanji Y., Hongoh Y.*, Xing X.-H.* (2013) Comprehensive phylogenetic diversity of [FeFe]-hydrogenase genes in termite gut microbiota. Microbes and Environments (in press)


Prebiotic Chemistry

Scharf, C., Virgo, N., Cleaves, H.J., II, Aono, M., Aubert-Kato, N., Aydinoglu, A., Barahona, A., Barge, L.M., Benner, S.A., Biehl, M., Brasser, R., Butch, C.J., Chandru, K., Cronin, L., Danielache, S., Fischer, J., Hernlund, J., Hut, P., Ikegami, T., Kimura, J., Kobayashi, K., Mariscal, C., McGlynn, S., Menard, B., Packard, N., Pascal, R., Pereto, J., Rajamani, S., Sinapayen, L., Smith, E., Switzer, C., Takai, K., Tian, F., Ueno, Y., Voytek, M., Witkowski, O., and Yabuta, H. (2015) A strategy for origins of life research. Astrobiology 15, doi:10.1089/ast.2015.1113

Jun Wang, Peter V. Bonnesen, E. Rangel, E. Vallejo, Ariadna Sanchez-Castillo, H. James Cleaves, Arthur P. Baddorf, Bobby G. Sumpter, Minghu Pan, Petro Maksymovych & Miguel Fuentes-Cabrera (2015) Supramolecular polymerization of a prebiotic nucleoside provides insights into the creation of sequence-controlled polymers. Scientific Reports 5:18891 | DOI: 10.1038/srep18891

Guttenberg N, Laneuville M, Ilardo M, Aubert-Kato N (2015) Transferable Measurements of Heredity in Models of the Origins of Life. PLoS ONE 10(10): e0140663. doi:10.1371/journal.pone.0140663

M. Naruse, M. Berthel, A. Drezet, S. Huant, M. Aono, H. Hori, S.-J. Kim, "Single-photon decision maker," Scientific Reports 5, 13253 (2015).

S.-J. Kim, M. Aono, E. Nameda, "Efficient decision-making by volume-conserving physical object," New Journal of Physics 17, 083023 (2015).


Synthetic Biology

Y. Kuruma, T. Ueda, "The PURE system for the cell-free synthesis of membrane proteins.", Nature Protocols 10, 1328-1344., doi:10.1038/nprot.2015.082 (2015).

Yutetsu Kuruma, Creation of Simple Biochemical Systems to Study Early Cellular Life, Orig. Life Evol. Biosph. (2015).

Kana Ishimatsu, Takashi Hata, Atsushi Mochizuki, Ryoji Sekine, Masayuki Yamamura, and Daisuke Kiga, "General Applicability of Synthetic Gene-Overexpression for Cell-Type Ratio Control via Reprogramming.", ACS Synthetic Biology, 3(9), p638-644 (2014)

P. L. Luisi, and Y. Kuruma, Open Questions on the Origin of Life (OQOL)-Introduction to the Special Issue : A workshop in Association with the Origins 2014 Meeting, Orig. Life Evol. Biosph. (2015).

H. Matsubayashi, Y. Kuruma, T. Ueda, Cell-Free Synthesis of SecYEG Translocon as the Fundamental Protein Transport Machinery, Orig. Life Evol. Biosph. (2015).