International Publications

In press

IODP Exp. 337  Bowden, S. A., Mohamed, A. Y., Edilbi, A. N. F., Lin, Y.-L., Morono, Y., Hinrichs, K.-U., and Inagaki, F. Modeling the Shimokita deep coalbed biosphere over deep geological time: Starvation, stimulation, material balance and population models. Basin Research, published online in Aug. 2019. doi:10.1111/bre.12399

2020

192. IODP Exp. 329  Morono, Y., Ito, M., Hoshino, T., Terada, T., Hori, T., Ikehara, M., D'Hondt, S., and Inagaki, F. (2020) Aerobic microbial life persists in oxic marine sediment as old as 101.5 million years. Nature Communications, 11, 3626.

191. IODP Exp. 370  Tsang, M.-Y., and Inagaki, F. (2020) Microbial life deep under the seafloor—A story of not giving up. Frontiers for Young Minds, 8, 70.

190. Chikyu SCORE Exp. 910  Kubo, Y., Inagaki, F., Tonai, S., Uramoto, G.-I., Takano, O., Yamada, Y., and the Expedition 910 Scientific Party. (2020) New Chikyu Shallow Core Program (SCORE): Exploring mass transport deposits and the subseafloor biosphere off Cape Erimo, northern Japan. Scientific Drilling, 27, 25-33.

 

189.  IODP Exp. 329  Suzuki, Y., Yamashita, S., Kouduka, M., Ao, Y., Mukai, H., Mitsunobu, S., Kagi, H., D’Hondt, S., Inagaki, F., Morono, Y., Hoshino, T., Tomioka, N., and Ito, M. (2020) Deep microbial proliferation at the basalt interface in aged oceanic crust. Communications Biology3, 136.

 

188.  IODP Exp. 370  Tsang, M.-Y., Bowden, S. A., Wang, Z., Mohammed, A., Tonai, S., Muirhead, D., Yang, K., Yamamoto, Y., Kamiya, N., Okutsu, N., Hirose, T., Kars, M., Schubotz, F., Ijiri, A., Yamada, Y., Kubo, Y., Morono, Y., Inagaki, F., Heuer, V. B., and Hinrichs, K.-U. (2020) Hot fluids, burial metamorphism and thermal histories in the underthrust sediments at IODP 370 Site C0023, Nankai accretionary complex. Mar. Petrol. Geol., 112, 104080.

2019

187.  IODP Exp. 370  Tonai, S., Kubo, Y., Tsang, M.-Y., Bowden, S., Ide, K., Hirose, T., Kamiya, N., Yamamoto, Y., Yang, K., Yamada, Y., Morono, Y., Heuer, V., and Inagaki, F. (2019) A new method for quality control of geological cores by X-ray Computed Tomography and its application in IODP Expedition 370. Front. Earth Sci., 7, 117.

 

186.  IODP Exp. 370  Kim, J., Dong, H., Yang, K., Park, H., Elliott, W. C., Spivack, A., Kool, T., Kim, G., Morono, Y., Henkel, S., Inagaki, F., Zeng, Q., Hoshino, T., and Heuer, V. B. (2019) Naturally occurring, microbially induced smectite-to-illite reaction. Geology, 47(6), 535-539.

 

185.  IODP Exp. 337, 370, Chikyu CK06-06  Pan, D., Morono, Y., Inagaki, F., and Takai, K. (2019) An improved method for extracting viruses from sediment: Detection of far more viruses in the subseafloor than previously reported. Front. Microbiol., 10, 878.

 

184.  ODP/IODP  Koppers, A. A. P., Escutia, C., Inagaki, F., Pälike, H., Saffer, D. M., and Thomas, D. (2019) Quo Vadis: Look into the future. Oceanography32(1), 218–219.

 

183.  ODP/IODP  Inagaki, F., and Taira, A. (2019) Illuminating planetary habitability with the future scientific ocean drilling. Oceanography, 32(1), 212-216.

 

182.  ODP/IODP  D’Hondt, S., Inagaki, F., Orcutt, B. N., and Hinrichs, K.-U. (2019) IODP advances in understanding of subseafloor life. Oceanography32(1), 198–207.

 

181.  ODP/IODP  Inagaki, F.  (2019) Introduction to Theme 4: Microbial life deep beneath the seafloor. Oceanography, 32(1), 196-197.

 

180.  ODP/IODP  Koppers, A. A. P., Escutia, C., Inagaki, F., Pälike, H., Saffer, D. M., and Thomas, D. (2019) Introduction to the special issue on scientific ocean drilling: Looking to the future. Oceanography32(1), 14–15.

 

179.  ODP/IODP  Koppers, A. A. P., Escutia, C., Inagaki, F., Pälike, H., Saffer, D. M., and Thomas, D. (Eds.) (2019) Special Issue on the Scientific Ocean Drilling: Looking to the Future. Oceanography, 32(1), 1-244.

 

178. Morono, Y., Wishart, J., Ito, M., Ijiri, A., Hoshino, T., Torres, M., Verba, C., Terada, T., Inagaki, F., and Colwell, F. (2019) Microbial metabolism and community dynamics in hydraulic fracturing fluids recovered from deep hydrocarbon-rich shale. Front. Microbiol., 10, 376.

 

177.  ODP Leg 201, IODP Exp. 301, 307, 308, 315, 316, 329, 346, 347, 353, 354, Chikyu CK06-06  Wörmer, L., Hoshino, T., Bowles, M. W., Viehweger, B., Adhikari, R. R., Xiao, N., Uramoto, G.-I., Könneke, M., Lazar, C. S., Morono, Y., Inagaki, F., and Hinrichs, K.-U. (2019) Microbial dormancy in the marine subsurface: Global endospore abundance and response to burial. Science Advances, 5, eaav1024.

 

 

176.  IODP Exp. 337  Imachi, H., Tasumi, E., Takaki, Y., Hoshino, T., Schubotz, F., Gan, S., Tu, T.-H., Saito, Y., Yamanaka, Y., Ijiri, A., Matsui, Y., Miyazaki, M., Morono, Y., Takai, K., Hinrichs, K.-U., and Inagaki, F. (2019) Cultivable microbial community in 2-km-deep, 20-million-year-old subseafloor coalbeds through ~1000 days anaerobic bioreactor cultivation. Scientific Reports9, 2305.

 

175.  IODP Exp. 317, 329  Uramoto, G.-I., Morono, Y., Tomioka, N., Wakaki, S., Wagai, R., Uesugi, K., Takeuchi, A., Hoshino, M., Suzuki, Y., Shiraishi, F., Mitsunobu, S., Suga, H., Takeichi, Y., Takahashi, Y., and Inagaki, F. (2019) Significant contribution of subseafloor microparticles to the global manganese budget. Nature Communications, 10, 400.

 

  • Press Release: Discovery of abundant ferromanganese microparticles in oxic pelagic sediments: New insights into the global budget of metallic elements. Japan Agency for Marine-Earth Science and Technology, February 6, 2019.

 

174. Estes, E. R., Pockalny, R., D'Hondt, S., Inagaki, F., Morono, Y., Murray, R. W., Nordlund, D., Spivack, A. J., Wankel, S. D., Xiao, N., and Hansel, C. M. (2019) Persistent organic in oxic subseafloor sediment. Nature Geoscience, 12, 126-131.

 

 

173. Stamenković, V., Beegle, L. W., Zacny, K., Arumugam, D. D., Baglioni, P., Barba, N., Baross, J., Bell, M.-S., Bhartia, R., Blank, J. G., Botston, P. J., Breuer, D., Brinckerhoff, W., Burgin, M., Cooper, I., Cormarkovic, C., Davila, A., Edwards, C., Fisher, W. W., Glavin, D. P., Grimm, B., Inagaki, F., Komarek, T., Malaska, M., Ménez, B., Michalski, J., Mischna, M., Moser, D., Mustard, J., Onstott, T. C., Orphan, V. C., Osburn, M. R., Plaut, J., Plesa, A.-C., Putzig, N., Rogers, K. L., Rothchild, L., Russell, M., Sapers, H., Sherwood Lollar, B., Spohn, T., Tarnas, J. D., Tuite, M., Viola, D., Ward, L. M., Wilcox, B., and Woolley, R. (2019) The next frontier for planetary and human exploration. Nature Astronomy, 3, 116–120.

 

172.  IODP Exp. 329  Sobol, M., Hoshino, T., Futagami, T., Inagaki, F., and Reese, B. K. (2019) Draft genome sequences of Penicillium spp. from deeply buried oligotrophic marine sediments. Microbiol. Resour. Announc., 8, e01613-18.

 

171. Ishii, S., Imachi, H., Kawano, K., Murai, D., Ogawara, M., Uematsu, K., Nealson, K. H., and Inagaki, F. (2019) Bioelectrochemical stimulation of electromethanogenic microbial communities in a seawater-based subsurface aquifer at natural gas field. Front. Ener. Res., 6, 144.

 

170.  ODP Leg 201, IODP Exp. 301, 308, 315, 316, 329, 346, 347, 353, 354, Chikyu CK06-06  Hoshino, T., and Inagaki, F. (2019) Abundance and distribution of Archaea in the subseafloor sedimentary biosphere. ISME J., 13, 227-231.

169.  Chikyu India-NGHP Exp. 02  Ijiri, A., Haraguchi, S., Jiménez-Espejo, F. J., Komai, N., Suga, H., Kinoshita, M., Inagaki, F., Yamada, Y., and NGHP Expedition 02 JAMSTEC Science Team. (2019) Origin of low-chloride fluid in sediments from the eastern continental margin of India, results from the National Gas Hydrate Program Expedition 02. Mar. Petrol. Geol., 108, 377-388.

 

2018

168.  IODP Exp. 370  Hamada, Y., Hirose, T., Ijiri, A., Yamada, Y., Sanada, Y., Saito, S., Sakurai, N., Sugihara, T., Yokoyama, T., Saruhashi, T., Hoshino, T., Kamiya, N., Bowden, S., Cramm, M., Henkel, S., Homola, K., Imachi, H., Kaneko, M., Lagostina, L., Manners, H., McClelland, H.-L., Metcalfe, K., Okutsu, N., Pan, D., Raudsepp, M. J., Sauvage, j., Schubotz, F., Spivack, A., Tonai, S., Treude, T., Tsang, M.-Y., Viehweger, B., Wang, D. T., Whitaker, E., Yamamoto, Y., Yang, K., Kinoshita, M., Kubo, Y., Morono, Y., Inagaki, F., and Heuer, B. V. (2018) In-situ mechanical weakness of subducting sediments beneath a plate boundary décollement in the Nankai Trough. Prog. Earth Planet. Sci.5, 70.

 

167.  IODP Exp. 337    Chikyu CK06-06  Tanikawa, W., Tadai, O., Morono, Y., Hinrichs, K.-U., and Inagaki, F. (2018) Geophysical constraints on microbial biomass in subseafloor sediments and coal seams down to 2.5 km off Shimokita Peninsula, Japan. Prog. Earth Planet. Sci., 5, 58.

166.  IODP Exp. 350  Kars, M., Musgrave, R.J., Hoshino, T., Jonas, A.-S., Bauersachs, T., Inagaki, F., and Kodama, K. (2018) Magnetic mineral diagenesis in a high temperature and deep methanic zone in Izu Rear Arc marine sediments, NW Pacific Ocean. J. Geophys. Res. Solid Earth, 206 (3-4), 289-18. doi:10.1029/2018JB015861

 

165.  IODP Exp. 315  Wakamatsu, T., Morono, Y., Futagami, T., Terada, T., Nishikawa, S., Morisawa, T., Koki, O., Inagaki, F., and Ashiuchi, M. (2018) Metal ion-induced expression of gene fragments from subseafloor microorganisms in the Kumano forearc basin, Nankai Trough. J. Appl. Microbiol., 125, 1396-1407.

 

164. Ijiri, A., Iijima, K., Tsunogai, U., Ashi, J., and Inagaki, F. (2018) Clay mineral compositions in submarine mud volcanoes in the Kumano forearc basin of the Nankai Trough. Geosciences, 8, 220. doi:10.3390/geosciences8060220

 

163.  Chikyu CK09-01, CK12-03  Ijiri, A., Inagaki, F., Kubo, Y., Adhikari, R. R., Hattori, S., Hoshino, T., Imachi, H., Kawagucci, S., Morono, Y., Ohtomo, Y., Ono, S., Sakai, S., Takai, K., Toki, T., Wang, D. T., Yoshinaga, M. Y., Arnold, G. L., Ashi, J., Case, D., Fesker, T., Hinrichs, K.-U., Ikenaga, Y., Ikehara, M., Kallmeyer, J., Kumagai, H., Lever, M. A., Morita, S., Nakamura, K., Nakamura, Y., Nishizawa, M., Orphan, V., Røy, H., Schmidt, F., Tani, A., Tanikawa, W., Terada, T., Tomaru, H., Tsuji, T., Tsunogai, U., Yamaguchi, Y. T., and Yoshida, N. (2018) Deep-biosphere methane production stimulated by geofluids in the Nankai accretionary complex. Science Advances, 4, eaao4631. doi:10.1126/sciadv.aao4631.

162. Møller, M. H., Glombitza, C., Lever, M. A., Deng, L., Morono, Y., Inagaki, F., Doll, M., Su, C., and Lomstein, B. A. (2018) D:L-amino acid modeling reveals fast microbial turnover of days to months in the subsurface hydrothermal sediment of Guaymas Basin. Front. Microbial., 9, 967.

161. Morono, Y., Hoshino, T., Terada, T., Suzuki, T., Sato, T., Yuasa, H., Kubota, Y., and Inagaki, F. (2018) Assessment for capacity to capture DNA aerosols by clean filters for molecular biology experiments. Microb. Environ., 33, 222-226.

 

160.  IODP Exp. 323  Ijiri, A., Tomioka, N., Wakaki, S., Masuda, H., Shozugawa, K., Kim, S., Khim, B.-K., Murayama, M., Matsuo, M., and Inagaki, F. (2018) Low-temperature clay mineral dehydration contributes to porewater dilution in Bering Sea Slope subseafloor. Front. Earth Sci., 6, 36. 

 

159. Nunoura, T., Nishizawa, M., Hirai, M., Shimamura, S., Harnvoravongchai, P., Koide, O., Morono, Y., Fukui, T., Inagaki, F., Miyazaki, J., Takaki, Y., and Takai, K. (2018) Microbial diversity in sediments from the bottom of the Challenger Deep, Mariana Trench. Microb. Environ., 33, 186-194.

158. McKay, R., Exon, N., Müller, D, Gohl, K., Gurnis, M., Shevenell, A., Henrys, S., Inagaki, F., Pandey, D., Whiteside, J., Flierdt, T., Naish, T., Heuer, V., Morono, Y., Coffin, M., Godard, M., Wallace, L., Kodaira, S., Bijl, P., Collot, J., Dickens, G., Dugan, B., Dunlea, A. G., Hackney, R., Ikehara, M., Jutzeler, M., McNeill, L., Naik, S., Noble, T., Opdyke, B., Pecher, I., Stott, L., Uenzelmann-Neben, G., Vadakkeykath, Y., and Wortmann, U. G. (2018) Developing community-based scientific priorities and new drilling proposals in the Southern Indian and Southwest Pacific oceans. Scientific Drilling, 24, 61-70.

 

157. Ijiri, A., Okamura, K., Nishio, Y., Hamada, Y., Usui, Y., Iijima, K., and Inagaki, F. (2018) Uptake of porewater phosphate at REY-rich mud in the western North Pacific Ocean. Geochem. J., 52, 373-378.

2017

 

156. Case, D., Ijiri, A., Morono, Y., Tavormina, P., Orphan V. J., and Inagaki, F. (2017) Aerobic and anaerobic methanotrophic communities associated with methane hydrates exposed on the seafloor: A high-pressure sampling and stable isotope-incubation experiment. Front. Microbiol., 8, 2569.

 

155.  IODP Exp. 370  Heuer, V. B., Inagaki, F., Morono, Y., Kubo, Y., Maeda, L., and the Expedition 370 Scientists. (2017) Temperature Limit of the Deep Biosphere off Muroto. Proceedings of the International Ocean Discovery Program, 370: College Station, TX (International Ocean Discovery Program). doi:10.14379/iodp.proc.370.2017

 

154.  IODP Exp. 337, Chikyu CK06-06  Tanikawa, W., Ohtomo, Y., Snyder, G., Morono, Y., Kubo, Y., Iijima, Y., Noguchi, T., Hinrichs, K.-U., and Inagaki, F. (2017) Data report: water activity of the deep coal-bering basin off Shimokita from IODP Expedition 337. In: Inagaki, F., Hinrichs, K.-U., Kubo, Y., and the Expedition 337 Scientists, Proceedings of the Integrated Ocean Drilling Program, 337, IODP-Management International, Inc., Tokyo  doi:10.2204/ iodp.proc.337.202.2017

 

153.  IODP Exp. 337  Trembath-Reichert, E., Morono, Y., Ijiri, A., Hoshino, T., Dowson, K. S., Inagaki, F., and Orphan, V. J. (2017) Methyl-compound use and slow growth characterize microbial life in 2-km-deep subseafloor coal and shale beds. Proc. Natl. Acad. Sci. U.S.A., 114, E9206–E9215. 

 

 

152. Ohshita, K., Fukui, K., Sato, M., Morisawa, T., Hakumai, Y., Morono, Y., Inagaki, F., Yano, T., Ashiuchi, M., and Wakamatsu, T. (2017) Archaeal MutS5 tightly binds to Holliday junction similarly to eukaryotic MuSg. FEBS J., 284, 3470-3483.

 

151. Suzuki, S., Ishii, S., Hoshino, T., Rietze, A., Tenney, A., Morrill, P., Inagaki, F., Kuenen, J. G., and Nealson, K. H. (2017) Unusual metabolic diversity of hyperalkaliphilic microbial communities associated with subterranean serpentinization at The Cedars. ISME J., 11, 2584-2598.

 

150.  IODP Exp. 337  Ijiri, A., Ikegawa, Y., and Inagaki, F. (2017) Data report: permeability of ~1.9 km deep coal-bearing formation samples off the Shimokita Peninsula, Japan. In: Inagaki, F., Hinrichs, K.-U., Kubo, Y., and the Expedition 337 Scientists, Proceedings of the Integrated Ocean Drilling Program, 337, IODP-Management International, Inc., Tokyo. doi:10.2204/ iodp.proc.337.202.2017

 

149. Hoshino, T., Toki, T., Ijiri, A., Morono, Y., Machiyama, H., Ashi, J., Okamura, K., and Inagaki, F. (2017) Atribacteria from the subseafloor sedimentary biosphere disperse to the hydrosphere through submarine mud volcanoes. Front. Microbial., 8, 1135. 

 

148. Chen, X., Andersen, T. J., Morono, Y., Inagaki, F., Jørgensen, B. B., and Lever. M. A. (2017) Bioturbation as a key driver behind the dominance of Bacteria over Archaea in near-surface sediment. Scientific Reports, 7, 2400. 

 

147.  IODP Exp. 301, 308, 315, Chikyu CK06-06  Hoshino, T., and Inagaki, F. (2017) Distribution of anaerobic carbon monoxide dehydrogenase genes in deep subseafloor sediments. Lett. Appl. Microbiol., 64, 355-363.

 

146.  IODP Exp. 337  Liu, C.-H., Huang, X., Xie, T.-N., Duan, N., Xue, Y.-R., Zhao, T.-X., Lever, M. A., Hinrichs, K.-U., and Inagaki, F. (2017) Exploration of cultivable fungal communities in deep coal-bearing sediments from ~1.3 to 2.5 km below the ocean floor. Environ. Microbiol., 19, 803-818. 

 

145.  IODP Exp. 370  Heuer, V. B., Inagaki, F., Morono, Y., Kubo, Y., Maeda, L., and the Expedition 370 Scientists. (2017) Expedition 370 Preliminary Report: Temperature Limit of the Deep Biosphere off Muroto. International Ocean Discovery Program, pp. 1-29. doi:10.14379/iodp.pr.370.2017

 

 

144.  IODP Exp. 337  Fang, J., Kato, C., Runko G. M, Nogi, Y., Hori, T., Li, J., Morono, Y., and Inagaki, F. (2017) Predominance of viable spore-forming piezophilic bacteria in high-pressure enrichment cultures from ~1.5 to 2.4 km-deep coal-bearing sediments below the ocean floor. Front. Microbiol., 8, 137. 

 

143. Mino, S., Nakagawa, S., Makita, H., Toki, T., Miyazaki, J., Sievert, S., Polz, M., Inagaki, F., Godfroy, A., Kato, S., Watanabe, H., Nunoura, T., Nakamura, K., Imachi, H., Watsuji, T., Kojima, S., Takai, K., and Sawabe, T. (2017) Endemicity of the cosmopolitan mesophilic chemolithoautotroph Sulfurimonas at deep-sea hydrothermal vents. ISME J., 11, 909-919.

 

142. Hoshino, T., and Inagaki, F. (2017) Application of stochastic labeling with random-sequence barcodes for simultaneous quantification and sequencing of environmental 16S rRNA genes. PLoS ONE, 12, e0169431.

 

2016

 

141. Iijima, K., Yasukawa, K., Fujinaga, K., Nakamura, K., Machida, S., Takaya, Y., Ohta, J., Haraguchi, S., Nishio, Y., Usui, Y., Nozaki, T., Yamazaki, T., Ichiyama, Y., Ijiri, A., Inagaki, F., Machiyama, H., Suzuki, K., Kato, Y., and KR13-02 Cruise members. (2016) Discovery of extremely REY-rich mud in the western North Pacific Ocean. Geochem. J., 50, 557-573.

 

140. Fujinaga, K., Yasukawa, K., Nakamura, K., Machida, S., Takaya, Y., Ohta, J., Araki, S., Liu, H., Usami, R., Maki, R., Haraguchi, S., Nishio, Y., Usui, Y., Nozaki, T., Yamazaki, T., Ichiyama, Y., Ijiri, A., Inagaki, F., Machiyama, H., Iijima, K., Suzuki, K., Kato, Y., and KR13-02, MR13-E02 Leg 2 and KR14-02 Cruise members. (2016) Geochemistry of REY-rich mud in the Japanese Exclusive Economic Zone around Minamitorishima Island. Geochem. J., 50, 575-590.

 

139.  IODP Exp. 337, Chikyu CK06-06  Glombitza, C., Adhikari, R. R., Riedinger, N., Gilhooly, W. P., Hinrichs, K.-U., and Inagaki, F. (2016) Microbial sulfate reduction potential in coal-bearing sediments down to ~2.5 km below the seafloor off Shimokita Peninsula, Japan. Front. Microbiol., 7, 1576. 

 

138. Natarajan, V. P., Zhang, X., Morono, Y., Inagaki, F., and Wang, F.  (2016) A modified SDS-based DNA extraction method for high quality environmental DNA from seafloor environments. Front. Microbiol., 7, 986. 

 

137.  IODP Exp. 329  Shiraishi, F., Mitsunobu, S., Suzuki, K., Hoshino, H., Morono, Y., and Inagaki, F. (2016) Dense microbial community on ferromanganese nodule in the ultra-oligotrophic South Pacific Gyre: Implications to the biogeochemical cycles. Earth Plant. Sci. Lett., 447, 10-20.

 

136.  IODP Exp. 337, Chikyu CK06-06   Tanikawa, W., Tadai, O., Morita, S., Lin, W., Yamada, Y., Sanada, Y., Moe, K., Kubo, Y., and Inagaki, F. (2016) Thermal properties and thermal structure in the deep-water coalbed basin off the Shimokita Peninsula, Japan. Mar. Petrol. Geol., 73, 445-461.

 

135.  Chikyu CK06-06  Nunoura, T., Takaki, Y., Shimamura, S., Kakuta, J., Kazama, H., Hirai, M., Masui, N., Tomaru, H., Morono, Y., Imachi, H., Inagaki, F., and Takai, K. (2016) Variance and potential niche separation of microbial communities in subseafloor sediments off Shimokita Peninsula, Japan. Environ. Microbiol., 18, 1889-1906.

 

134. Hoshino, T., Kuratomi, T., Morono, Y., Hori, T., Oiwane, H., Kiyokawa, S., and Inagaki, F. (2016) Ecophysiology of Zetaproteobacteria associated with shallow hydrothermal iron-oxyhydroxide deposits in Nagahama Bay of Satsuma Iwo-Jima, Japan. Front. Microbiol., 6, 1554.

 

133. Morono, Y., and Inagaki, F. (2016) Analysis of low-biomass microbial communities in the deep biosphere. Adv. Appl. Microbiol., 95, 149-178.

 

132. Inagaki, F. (2016) Exploration of deep subseafloor life and the biosphere: The state-of-the-art analytical technique. Microscopy, 65, i4. 

 

131.  IODP Exp. 370  Hinrichs, K.-U., Inagaki, F., Heuer, V. B., Kinoshita, M., Morono, Y., and Kubo, Y. (2016) T-Limit of the Deep Biosphere off Muroto (T-Limit) -Deciphering factors that constrain the extent of the deep biosphere in a subduction zone. Expedition 370 Scientific Prospectus, International Ocean Discovery Program, pp.1-27. doi:10.14379/iodp.sp.370.2016

 

130.  IODP Exp. 337   Inagaki, F., Hinrichs, K.-U., Kubo, Y., and the IODP Expedition 337 Scientists. (2016) IODP Expedition 337: Deep Coalbed Biosphere off Shimokita -Microbial processes and hydrocarbon system associated with the deeply buried coalbed in the ocean. Scientific Drilling, 4, 1-12.

 

2015

 

129.  IODP Exp. 337, Chikyu CK06-06   Inagaki, F., Hinrichs, K.-U., Kubo, Y., Bowles, M. W., Heuer, V. B., Hong, W.-L., Hoshino, T., Ijiri, A., Imachi, H., Ito, M., Kaneko, M., Lever, M. A., Lin, Y.-S., Methé, B. A., Morita, S., Morono, Y., Tanikawa, W., Bihan, M., Bowden, S. A., Elvert, M., Glombitza, C., Gross, D., Harrington, G. J., Hori, T., Li, K., Limmer, D., Liu, C.-H., Murayama, M., Ohkouchi, N., Ono, S., Park, Y.-S., Phillips, S. C., Prieto-Mollar, X., Purkey, M., Riedinger, N., Sanada, Y., Sauvage, J., Snyder, G., Susilawati, R., Takano, Y., Tasumi, E., Terada, T., Tomaru, H., Trembath-Reichert, E., Wang, D. T., and Yamada, Y. (2015) Exploring deep microbial life down to ~2.5 km below the ocean floor. Science, 349, 420-424.

 

 

128.  Chikyu CK06-06, CK09-03  Aoki, M., Kakiuchi, R., Yamaguchi, T., Takai, K., Inagaki, F., and Imachi, H. (2015) Phylogenetic diversity of aprA genes in subseafloor sediments on the northwestern Pacific margin off Japan. Microb. Environ., 30, 276-280.

 

127.  IODP Exp. 329   D’Hondt, S., Inagaki, F., Zarikian, C. A., Abrams, L. J., Dubois, N., Engelhardt, T., Evans, H., Ferdelman, T., Gribsholt, B., Harris, R. N., Hoppie, B. W., Hyun, J.-H., Kallmeyer, J., Kim. J., Lynch, J. E., McKinley, C. C., Mitsunobu, S., Morono, Y., Murray, R. W., Pockalny, R., Sauvage, J., Shimono, T., Shiraishi, F., Smith, D. C., Smith-Duque, C., Spivack, A. J., Steinsbu, B. O., Suzuki, Y., Szpak, M., Toffin, L., Uramoto, G., Yamaguchi, T. Y., Zhang, G., Zhang, X.-H., and Ziebis, W. (2015) Presence of oxygen and aerobic communities from seafloor to basement in deep-sea sediment. Nature Geoscience, 8, 299-304.

 

 

126.  ODP Leg 201, Chikyu CK06-06  Kawai, M., Uchiyama, I., Takami, H., and Inagaki, F. (2015) Low frequency of endospore-specific genes in subseafloor sedimentary metagenomes. Environ. Microbiol. Rept., 7, 341-350.

 

125.  Chikyu CK09-01, CK09-03  Morono, Y., Terada, T., Yamamoto, Y., Xiao, N., Hirose, T., Sugeno, M., Ohwada, N., and Inagaki, F. (2015) Intact preservation of environmental samples by freezing under alternating magnetic field. Environ. Microbiol. Rept., 7, 243-251.

 

124.  Chikyu CK09-01, CK12-03  Nishio, Y., Ijiri, A., Toki, T., Morono, Y., Tanimizu, M., Nagaishi, K., and Inagaki, F. (2015) Origins of lithium in submarine mud volcano fluid in the Nankai accretionary wedge. Earth Planet. Sci. Lett., 414, 144-155.

 

123. Ohtomo, Y., Ijiri, A., Morono, Y., Ikegawa, Y., Suenaga, H., Case, D., Matchiyama, H., Yamamoto, F., Goto, S., Fukuba, T., Nagasawa, M., Matsumoto, M., and Inagaki, F. (2015) CO2 emission and shallow-type methane hydrate decomposition experiment on deep-sea floor. JAMSTEC Rep. Res. Dev., 20, 61-71.

 

122. Mills, H. J., de Leeuw, J., Hinrichs, K.-U., Inagaki, F., and Kallmeyer, J. (2015) Advancing subsurface biosphere and paleoclimate research: ECORD/ICDP/DCO/J-DESC MagellanPlus Workshop Series Program Report. Scientific Drilling, 20, 59-65.

 

2014

 

121. Nakajima, Y., Shinzato, C., Khalturina, M., Watanabe, H., Inagaki, F., Satoh, N., and Mitarai, S. (2014) Cross-species, amplifiable microsatellite markers for neoverrcid barnacles from deep-sea hydrothermal vents developed using next-generation sequencing. Int. J. Mol. Sci., 15, 14364-14371.

 

120. Morono, Y., Terada, T., Hoshino, T., and Inagaki, F. (2014) Correction for Morono et al., Hot-alkaline DNA extraction method for deep-subseafloor archaeal communities. Appl. Environ. Microbiol., 80, 4785.

 

119. Ishibashi, J., Noguchi, T., Toki, T., Miyabe, S., Yamagami, S., Onishi, Y., Yamanaka, T., Yokoyama, Y., Omori, R., Takahashi, Y., Hatada, K., Nakaguchi, J., Yoshizaki, M., Konno, U., Shibuya, T., Takai, K., Inagaki, F., and Kawagucci, S. (2014) Diversity of fluid geochemistry affected by processes during fluid upwelling in active hydrothermal fields in the Izena Hole, the middle Okinawa Trough back-arc basin. Geochem. J., 48, 357-369.

 

118.  IODP Exp. 317, 329  Uramoto, G.-I., Morono, Y., Uematsu, K., and Inagaki, F. (2014) An improved sample preparation method for imaging microstructures of fine-grained marine sediment using microfocus X-ray computed tomography and scanning electron microscopy. Limmnol. Oceanogr. Methods, 12, 469-483.

 

117. Kubota, K., Morono, Y., Ito, M., Terada, T., Itezono, S., Harada, H., and Inagaki, F. (2014) Gold-ISH: A nano-size gold particle-based phylogenetic identification compatible with NanoSIMS. Syst. Appl. Microbiol., 37, 261-266.

 

116. Felden, J., Ruff, S. E., Ertefai, T., Inagaki, F., Hinrichs, K.-U., and Wenzhöfer, F. (2014) Anaerobic methanotrophic community at 5346 m-deep vsicomyid clam colony in the Japan Trench. Geobiology, 12, 183-199.

 

115.  ODP Leg 204, IODP Exp. 308, Chikyu CK06-06  Yanagawa, K., Morono, Y., Yshida-Takashima, Y., Eitoku, M., Sunamura, M., Inagaki, F., Imachi, H., Takai, K., and Nunoura, T. (2014) Viral abundance and its variation in deep subseafloor sediments of the continental margins. FEMS Microbiol. Ecol., 88, 60-68.

 

114.  Chikyu CK06-06  Imachi, H., Sakai, S., Lipp, J. S., Miyazaki, M., Saito, Y., Yamanaka, Y., Hinrichs, K.-U., Inagaki, F., and Takai, K. (2014) Pelolinea submarina gen. nov., an anaerobic filamentous bacterium of the phylum Chloroflexi isolated from subseafloor sediment offshore Shimokita, Japan. Int. J. Syst. Evol. Microbiol., 64, 812-818.

 

113.  Chikyu CK06-06  Kawai, M., Futagami, T., Toyoda, A., Takaki, Y., Nishi, S., Hori, S., Arai, W., Tsubouchi, T., Morono, Y., Uchiyama, I., Ito, T., Fujiyama, A., Inagaki, F., and Takami, H. (2014) High frequency of phylogenetically diverse reductive dehalogenase-homologous genes in deep subseafloor sedimentary metagenomes. Front. Microbiol., 5, 80. 

 

112.  IODP Exp. 316, Chikyu CK06-06  Morono, Y., Terada, T., Hoshino, T., and Inagaki, F. (2014) Hot-alkaline DNA extraction method for deep subseafloor archaeal communities. Appl. Environ. Microbiol., 80, 1985-1994.

 

111.  Chikyu CK06-06  Morono, Y., Ito, M., and Inagaki, F. (2014) Detecting slow metabolism in the subseafloor: analysis of single cells using NanoSIMS. In “Microbial Life of the Deep Biosphere” (Eds. Kallmeyer, J., and Dirk, W.), pp. 101-120, DE GRUYTER, Berlin, Germany.

 

110. Stein, R., Blackman, D., Inagaki, F., Larsen, H. C. Eds. (2014) Earth and Life Processes Discovered from Subseafloor Environments –A Decade of Science Achieved by the Integrated Ocean Drilling Program (IODP), Developments in Marine Geology, vol. 7, pp. 1-827, Elsevier, Netherlands.

 

109. Inagaki, F., and Orphan, V. (2014) Exploration of subseafloor life and the deep biosphere through IODP (2003-2013). In “Earth and Life Processes Discovered from Subseafloor Environments –A Decade of Science Achieved by the Integrated Ocean Drilling Program (IODP)” (Eds. Stein, R., Blackman, D., Inagaki, F., Larsen, H. C.), Developments in Marine Geology, vol. 7, pp. 39-63, Elsevier, Netherlands.

 

108. Mills, H. J., de Leeuw, J., Hinrichs, K.-U., Inagaki, F., and Kallmeyer, J. (2014) Advancing sub-surface biosphere and paleoclimate research, MagelllanPlus Workshop, 21-23 August 2014, Seoul (South Korea), ECORD Newsletter, 23, 21.

 

107.  Chikyu Exp. 906, 802  Kubo, Y., Mizuguchi, Y., Inagaki, F., and Yamamoto, K. (2014) A new hybrid pressure-coring system for the drilling vessel Chikyu. Scientific Drilling, 17, 37-43.

 

2013

 

106. Ohtomo, Y., Ijiri, A., Ikegawa, Y., Tsutsumi, M., Imachi, H., Uramoto, G., Hoshino, T., Morono, Y., Sakai, S., Saito, Y., Tanikawa, W., Hirose, T., and Inagaki, F. (2013) Biological CO2 conversion to acetate in subsurface coal-sand formation using a high-pressure reactor system. Front. Microbiol., 4, 361.

 

105. Ijiri, A., Ohtomo, Y., Morono, Y., Ikehara, M., and Inagaki, F. (2013) Increase in acetate concentrations during sediment sample onboard storage: a caution for pore-water geochemical analyses. Geochem. J., 47, 567-571.

 

104.  IODP Exp. 316, 329, Chikyu CK06-06  Morono, Y., Terada, T., Kallmeyer, J., and Inagaki, F. (2013) An improved cell separation technique for marine subsurface sediments: Applications for high-throughput analysis using flow cytometry and cell sorting. Environ. Microbiol., 15, 2841-2849.

 

103. Hoshino, T., and Inagaki, F. (2013) A comparative study of microbial diversity and community structure in marine sediments using poly(A) tailing and reverse transcription PCR. Front. Microbiol., 4, 160.

 

 102. De Beer, D., Haeckel, M., Neumann, J., Wegener, G., Inagaki, F., and Boetius, A. (2013) Saturated CO2 inhibits microbial processes in CO2-vented deep-sea sediments. Biogeosciences, 10, 5639-5649.

 

101.  Chikyu CK06-06  Takai, K., Abe, M., Miyazaki, M., Koide, O., Nunoura, T., Imachi, H., Inagaki, F., and Kobayashi, T. (2013) Sunxiuqinia faeciviva sp. nov., a novel facultatively anaerobic, organoheterotrophic bacterium within the Bacterioidetes isolated from deep subseafloor sediment offshore Shimokita, Japan. Int. J. Syst. Evol. Microbiol., 63, 1602-1609.

 

100.  IODP Exp. 301  Lever, M. A., Rouxel, O. J., Alt, J., Shimizu, N., Ono, S., Coggon, R. M., Shanks III, W. C., Lapham, L., Elvert, M., Prieto-Mollar, X., Hinrichs, K.-U., Inagaki, F., and Teske, A. (2013) Evidence for microbial carbon and sulfur cycling in deeply buried ridge flank basalt. Science, 339, 1305-1308.

 

 

99.  IODP Exp. 315, 316  Futagami, T., Morono, Y., Terada, T., Kaksonen, A. H., and Inagaki, F. (2013) Distribution of dehalogenation activity and characterization of organohalide-responsive genes in marine sediments of the Nankai Trough subduction zone. Phil. Trans. R. Soc. B, 368, 20120249.

 

98.  IODP Exp. 329  Yin, Q., Fu, B., Li, B., Shi, X., Inagaki, F., and Zhang, X.-H. (2013) Spatial variations in microbial community composition in surface seawater from the ultra-oligotrophic center to rim of the South Pacific Gyre. PLoS ONE, 8, e55148. 

 

97. Yanagawa, K., Morono, Y., de Beer, D., Haeckel, M., Sunamura, M., Futagami, T., Hoshino, T., Terada, T., Nakamura, K., Urabe, T., Rehder, G., Boetius, A., and Inagaki, F. (2013) Metabolically active microbial communities in marine sediment under high-CO2 and low-pH extremes. ISME J., 7, 555-567.

 

96.  IODP Exp. 337  Inagaki, F., Hinrichs, K.-U., Kubo, Y., and the Expedition 337 Scientists. (2013) Deep coalbed biosphere off Shimokita. Proc. IODP, 337, the International Ocean Drilling Program Management International, Inc., Tokyo. doi:10.2204/iodp.proc.337.102.2013.

 

95.  IODP Exp. 329  D’Hondt, S., Inagaki, F., Zarikian, C. A., and the IODP Expedition 329 Scientists. (2013) IODP Expedition 329: Life and habitability beneath the seafloor of the South Pacific Gyre. Scientific Drilling, 15, 4-10.

 

2012

 

94. Morono, Y., Yamamoto, K., and Inagaki, F. (2012) Radical gas-based DNA decontamination technique for ultra-sensitive molecular experiments. Microb. Environ., 27, 512-514.

 

93. Langerhuus, A. T., Røy, H., Lever, M. A., Morono, Y., Inagaki, F., Jørgensen, B. B., and Lomstein, B. A. (2012) Endospore abundance and D:L-amino acid modeling of bacterial turnover in Holocene marine sediment (Aarhus Bay). Geochim. Cosmochim. Acta, 99, 87-99.

 

92. Hinrichs, K.-U., and Inagaki, F. (2012) Downsizing the deep biosphere. Science, 338, 204-205.

 

91. Makita, H., Nakagawa, S., Miyazaki, M., Nakamura, K., Inagaki, F., and Takai, K. (2012) Thiofractor thiocaminus gen. nov., sp. nov., a novel hydrogen-oxidizing sulfur-reducing epsilonproteobacterium isolated from a deep-sea hydrothermal vent chimney in the Nikko Seamount field of the northern Mariana Arc. Arch. Microbiol., 194, 785-794.

 

90.  IODP Exp. 307  Hoshino, T., and Inagaki, F. (2012) Molecular quantification of environmental DNA using microfluidics and digital PCR. Syst. Appl. Microbiol., 35, 390-395.

 

 89. Vossmeyer, A., Deusner, C., Kato, C., Inagaki, F., and Ferdelman, T. (2012) Substrate-specific pressure dependence of microbial sulfate reduction in deep-sea cold seep sediments of the Japan Trench. Front. Microbiol., 3, 253.

 

88. Briggs, B., Inagaki, F., Morono, Y., Futagami, T., Huguet, C., Rosell-Mele, A., Lorenson, T., and Colwell, F. S. (2012) Bacterial dominance in subseafloor sediments characterized by methane hydrates. FEMS Microbiol. Ecol., 81, 88-98.

 

87.  IODP Exp. 329  Zhang, G., Smith-Duque, C., Li, H., Zarikian, C., D’Hondt, S., Inagaki, F., and IODP Expedition 329 Scientists. (2012) Geochemistry of basalts from IODP Site U1365: Implications for magmatism and mantle source signatures of mid-Cretaceous Osbourn Trough. Lithos, 144-145, 73-87.

 

86.  Chikyu CK06-06  Miyazaki, M., Koide, O., Kobayashi, T., Mori, K., Shimamura, S., Nunoura, T., Imachi, H., Inagaki, F., Nagahama, T., Deguchi, S., and Takai, K. (2012) Geofilum rubicundum gen. nov. sp. nov., isolated from deep subseafloor sediment. Int. J. Syst. Evol. Microbiol., 62, 1075-1080.

 

85.  IODP Exp. 316  Mills, H. J., Reese, B. K., Shepard, A. K., Riedinger, N., Dowd, S. E., Morono, Y., and Inagaki, F. (2012) Characterization of metabolically active bacterial populations in subseafloor Nankai Trough sediments above, within, and below the sulfate-methane transition zone. Front. Microbiol., 3, 113. 

 

84. Kouduka, M., Suko, T., Morono, Y., Inagaki, F., Ito, K, and Suzuki, Y. (2012) A new DNA extraction method by controlled alkaline treatments from consolidated subsurface sediments. FEMS Microbiol. Lett., 326, 47-54.

 

83.  IODP Exp. 337  Inagaki, F., Hinrichs, K.-U., Kubo, Y., and the Expedition 337 Scientists. (2012) Deep coalbed biosphere off Shimokita: microbial processes and hydrocarbon system associated with deeply buried coalbed in the ocean. IODP Preliminary Reports, 337, pp. 1-62, the International Ocean Drilling Program Management International, Inc., Tokyo. doi:10.2204/iodp.pr.337.2012.

 

 

2011

 

82.  IODP Exp. 307  Hoshino, T., Morono, Y., Terada, T., Imachi, H., Ferdelman, T. G., and Inagaki, F. (2011) Comparative study of subseafloor microbial community structures in deeply buried coral fossils and sediment matrices from the Challenger Mound of the Porcupine Seabight. Front. Microbiol., 2, 231.

 

81.  Chikyu CK06-06  Imachi, H., Aoi, K., Tasumi, E., Saito, Y., Yamanaka, Y., Saito, Y., Yamaguchi, T., Tomaru, H., Takeuchi, R., Morono, Y., Inagaki, F., and Takai, K. (2011) Cultivation of methanogenic community from subseafloor sediments using a continuous-flow bioreactor. ISME J., 5, 1751-1925.

 

80. Hirayama, H., Suzuki, Y., Abe, M., Miyazaki, M., Makita, H., Inagaki, F., Uematsu, K., and Takai, K. (2011) Methylothermus subterraneus sp. nov., a moderately thermophilic methanotrophic bacterium from a terrestrial subsurface hot aquifer in Japan. Int. J. Syst. Evol. Microbiol., 61, 2646-2653.

 

79.  Chikyu CK06-06  Morono, Y., Terada, T., Nishizawa, M., Hillion, F., Ito, M., Takahata, N., Sano, Y., and Inagaki, F. (2011) Carbon and nitrogen assimilation of deep subseafloor microbial cells. Proc. Natl. Acad. Sci. U.S.A., 108, 18295-18300.

 

 

78. Yanagawa, K., Sunamura, M., Lever, M. A., Morono, Y., Hiruta, A., Matsumoto, R., Urabe, T., and Inagaki, F. (2011) Niche separation of anaerobic methanotrophs (ANME-1 and -2) in methane seep-sediments in the eastern Japan Sea off Joetsu. Geomicrobiol. J., 28, 118-129.

 

77.  IODP Exp. 329  Morono, Y., Kallmeyer, J., Inagaki, F., and the Expedition 329 Scientists. (2011) Preliminary experiment for cell count using flow cytometry. In: D'Hondt, S., Inagaki, F., Alvarez Zarikian, C. A., and the Expeditin 329 Scientists (eds.), Proc. IODP, 329, 1-8.

 

76.  IODP Exp. 329  D’Hondt, S., Inagaki, F., Alvarez Zarikian, C.A., and the Expedition 329 Scientists. (2011) Proc. IODP, 329, the Integrated Ocean Drilling Program Management International, Inc., Tokyo. doi:10.2204/iodp.proc.329.110.2011.

 

75.  IODP Exp. 329  Expedition 329 Scientists. (2011) South Pacific Gyre subseafloor life. IODP Preliminary Reports, 329, pp. 1-108, the International Ocean Drilling Program Management International, Inc., Tokyo. doi:10.2204/iodp.pr.329.2011.

 

2010

74.  IODP Exp. 301  Stainsbu, B. O., Thorseth, I. H., Nakagawa, S., Inagaki, F., Lever, M. A., Engelen, B., Øvreås, L., and Pedersen, R. B. (2010) Archaeoglobus sulfaticallidus sp. nov., a thermophilic and facultatively lithoautotrophic sulfate-reducer isolated from black rust exposed to hot ridge flank crustal fluids. Int. J. Syst. Evol. Microbiol., 60, 2745-2752.

73. Takano, Y., Chikaraishi, Y., Ogawa, N. O., Nomaki, H., Morono, Y., Inagaki, F., Kitazato, H., Hinrichs, K.-U., and Ohkouchi, N. (2010) Sedimentary membrane lipids recycled by deep-sea benthic archaea. Nature Geoscience, 3, 858-861.

72. Nunoura, T., Oida, H., Nakaseama, M., Kosaka, A., Ohkubo, S., Kikuchi, T., Kazama, H., Tanabe, S. H., Nakamura, K., Kinoshita, M., Hirayama, H., Inagaki, F., Tsunogai, U., Ishibashi, J., and Takai, K. (2010) Archaeal diversity and distribution along thermal and geochemical gradients in hydrothermal sediments at the Yonaguni Knoll IV, the Southern Okinawa Trough. Appl. Environ. Microbiol., 76, 1198-1211.

71.  IODP Exp. 301   Lever, M. A., Heuer, V. B., Morono, Y., Masui, N., Schimidt, F., Alperin, M. J., Inagaki, F., Hinrichs, K.-U., and Teske, A. (2010) Acetogenesis in deep subseafloor sediments of the Juan de Fuca ridge flank: A synthesis of geochemical, thermodynamic, and gene-based evidence. Geomicrobiol. J., 27, 183-211.

70. Inagaki, F.  (2010) Deep subseafloor microbial communities. In: Encyclopedia of Life Sciences, pp. 1-10, John Wiley & Sons, Ltd., Chichester. doi:10.1002/9780470015902.a0021894

69.  IODP Exp. 337  Inagaki, F., Hinrichs, K.-U., Kubo, Y., and the Expedition 337 Project Team. (2010) Deep coalbed biosphere off Shimokita: microbial processes and hydrocarbon system associated with deeply buried coalbed in the ocean. IODP Scientific Prospectus, 337, pp.1-51. doi:10.2204/iodp.sp.337.2010

68.  IODP Exp. 329  D’Hondt, S., Inagaki, F., and Alvarez Zarikian, C. (2010) South Pacific Gyre Microbiology. IODP Scientific Prospectus, 329, pp.1-116. doi:10.2204/iodp.sp.329.2010

67. Bach, W., Ravelo, C., Behrmann, J., Camoin, G., Duncan, R., Edwards, K., Gulick, S., Inagaki, F., Pälike, H., and Tada, R. (2010) IODP New Ventures in Exploring Scientific Targets (INVEST): Defining the new goals of an international drilling program. Scientific Drilling, 9, 54-64.

66. Ravelo, C., Bach, W., Behrmann, J., Camoin, G., Duncan, R., Edwards, K., Gulick, S., Inagaki, F., Pälike, H., and Tada, R. (2010) INVEST Report: IODP New Ventures in Exploring Scientific Targets (INVEST) -Defining the new goals of an international drilling program. Scientific Planning Conference at Bremen, 2009, 22-25 September, pp. 1-160, https://www.marum.de/Binaries/Binary4672/INVEST-Report-full.pdf

65.  Chikyu CK06-06  Morono, Y., and Inagaki, F.  (2010) Automatic slide-loader fluorescent microscope system for high-throughput discriminative enumeration of subseafloor life. Scientific Drilling, 9, 32-36.

2009

64.  IODP Exp. 316   Screaton, E., Kimura, G., Curewitz, D., Moore, G., Chester, F., Fabbri, O., Fergusson, C., Girault, F., Goldsby, D., Harris, R., Inagaki, F., Jiang, T., Kitamura, Y., Knuth, M., Li, C. F., Liljedahl, L. C., Louis, L., Milliken, K., Nicholson, U., Riedinger, N., Sakaguchi, A., Solomon, E., Strasser, M., Su, X., Tsutsumi, A., Yamaguchi, A., Ujiie, K., and Zhao, X. (2009) Interactions between deformation and fluids in the frontal thrust region of the NanTroSEIZE transect offshore the Kii Peninsula, Japan: Results from IODP Expedition 316 Sites C0006 and C0007. Geochem. Geophys. Geosys., 10, Q0AD01. doi: 10.1029/2009GC002713.

63.  Chikyu CK06-06  Tomaru, H., Fehn, U., Lu, Z., Takeuchi, R., Inagaki, F., Imachi, H., Kotani, R., Matsumoto, R., and Aoike, K. (2009) Dating of dissolved iodine in pore waters from the gas hydrate occurrence offshore Shimokita Peninsula, Japan: 129I results from the D/V Chikyu shakedown cruise. Res. Geol., 59, 359-373.

62.  ODP Leg 201, IODP Exp. 301, 315, Chikyu CK06-06  Futagami, T., Morono, Y., Terada, T., and Inagaki, F. (2009) Dehalogenation activity and distribution of reductive dehalgenase homologous genes in marine subsurface sediments. Appl. Environ. Microbiol., 75, 6905-6909.

61. Doi, K., Fujino, Y., Inagaki, F., Kawatsu, R., Tahara, M., Ohshima, T., Okaue, Y., Yokoyama, T., Iwai, S., Ogata, S. (2009) Stimulation of expression of a silica induced protein (Sip) in Thermus thermophilus by supersaturated silicic acid. Appl. Environ. Microbiol., 75, 2406-2413.

60.  ODP Leg 201, IODP Exp. 316, Chikyu CK06-06   Morono, Y., Terada, T., Masui, N., and Inagaki, F. (2009) Discriminative detection and enumeration of microbial life in marine subsurface sediments. ISME J., 3, 503-511.

59. Masui, N., Morono, Y., and Inagaki, F.  (2009) Bio-archive core storage and subsampling procedure for subseafloor molecular biological research. Scientific Drilling, 8, 35-37.

2008

58.  ODP Leg 204  Nunoura, T., Inagaki, F., Delwiche, M., Colwell, F. S., and Takai, K. (2008) Subseafloor microbial communities in methane hydrate bearing sediments of two distinct locations (ODP Leg 204) in the Cascadia Margin. Microb. Environ., 23, 317-325.

57.  ODP Leg 201, 204, 207, IODP Exp. 301, 311, Chikyu CK06-06   Lipp, J. S., Morono, Y., Inagaki, F., and Hinrichs, K.-U. (2008) Significant contribution of Archaea to extant biomass in marine subsurface sediments. Nature, 454, 991-994.

56.  Chikyu CK06-06  Masui, N., Morono, Y., and Inagaki, F. (2008) Microbiological assessment of circulation mud fluids during the first operation of riser drilling by the deep-earth research vessel “Chikyu” offshore the Shimokita Peninsula. Geomicrobiol. J., 25, 274-282.

55.  Chikyu CK06-06  Kobayashi, T., Koide, O., Mori, K., Shimamura, S., Matsuura, T., Miura, T., Takaki, Y., Morono, Y., Nunoura, T., Imachi, H., Inagaki, F., Takai, K., and Horikoshi, K. (2008) Phylogenetic and enzymatic diversity of deep subseafloor aerobic microorganisms in organics- and methane-rich sediments off Shimokita Peninsula. Extremophiles, 12, 519-527.

54.  IODP Exp. 301  Engelen, B., Ziegelmüller, K., Wolf, L., Köpke, B., Gittel, A., Treude, T., Nakagawa, S., Inagaki, F., Lever, M. A., Steinsbu, B. O., and Cypionka, H. (2008) Fluids from the ocean crust support microbial activities within the deep biosphere. Geomicrobiol. J., 25, 56-66.

53. Uchida, M., Ohkushi, K., Kimoto, K., Inagaki, F., Ishimura, T., Tsunogai, U., TuZino, T., and Shibata, Y. (2008) Radiocarbon-based carbon source quantification of anomalous isotopic foraminifera in last glacial sediments in the western North Pacific. Geochemi. Geophys. Geosys., 9, Q04N14. doi:10.1029/2006GC001558. 

52. Fujino, Y., Kawatsu, R., Inagaki, F., Umeda, A., Yokoyama, T., Okaue, Y., Iwai, S., Ogata, S., Ohshima, T., and Doi, K. (2008) Thermus thermophilus TMY isolated from silica scale taken from a geothermal power plant. J. Appl. Microbiol., 104, 70-78. 

51.  ODP Leg 201, 204, IODP Exp. 301  Inagaki, F., and Nakagawa, S. (2008) Spatial distribution of subseafloor life: Diversity and biogeography. In “Links between geological processes, microbial activities and evolution of life” (Eds. Dilek, Y., Furnes, H., and Muehlenbachs, K.), pp.135-158, Springer Science B.+V., Dordrecht, The Netherlands.

50.  IODP Exp. 316   Kimura, G., Screaton, E.J., Curewitz, D., and the Expedition 316 Scientists. (2008) NanTroSEIZE Stage 1A: NanTroSEIZE shallow megasplay and frontal thrusts. IODP Preliminary Reports, 316. doi:10.2204/iodp.pr.316.2008

2007

49. D’Hondt, S., Inagaki, F., Ferdelman, T., Jørgensen, B. B., Kato, K., Kemp, P., Sobecky, P., Sogin, M., and Takai, K. (2007) Exploring subseafloor life with the Integrated Ocean Drilling Program. Scientific Drilling, 5, 58-69.

2006

48. Takai, K., Nakamura, K., Suzuki, K., Inagaki, F., Nealson, K. H., and Kumagai, H. (2006) Ultramafics-Hydrothermalism-Hydrogenesis-HyperSLiME (UltraH3) linkage: a key insight into early microbial ecosystem in the Archean deep-sea hydrothermal systems. Paleontological Res., 10, 269-282.

47.  IODP Exp. 301   Lever, M. A., Alperin, M., Engelen, B., Inagaki, F., Steinsbu, B. O., Teske, A. and IODP Expedition 301 Shipboard Scientific Party. (2006) Trends in basalt and sediment core contamination during IODP Expedition 301. Geomicrobiol. J., 23, 517-530.

46.  IODP Exp. 301   Nakagawa, S., Inagaki, F., Suzuki, Y., Steinsbu, B. O., Lever, M. A., Takai, K., Engelen, B., Sako, Y., Wheat, C. G., Horikoshi, K., and Integrated Ocean Drilling Program Expedition 301 Scientists. (2006) Microbial communities in black rust exposed to hot ridge-flank crustal fluids. Appl. Environ. Microbiol., 72, 6789-6799. 

45. Inagaki, F., Kuypers, M. M. M., Tsunogai, U., Ishibashi, J., Nakamura, K., Treude, T., Ohkubo, S., Nakaseama, M., Gena, K., Chiba, H., Hirayama, H., Nunoura, T., Takai, K., Jørgensen, B. B., Horikoshi, K., and Boetius, A. (2006) Microbial community in a sediment-hosted CO2 lake of the southern Okinawa Trough hydrothermal system. Proc. Natl. Acad. Sci. U.S.A., 103, 14164-14169.

44. Arakawa, S., Sato, T., Sato, R., Zhang, J., Gamo, T., Tsunogai, U., Hirota, A., Yoshida, Y., Usami, R., Inagaki, F., and Kato, C. (2006) Molecular phylogenetic and chemical analyses of the microbial mats in deep-sea cold seep sediments at the northeastern Japan Sea. Extremophiles, 10, 311-319.

 

43. Nunoura, T., Oida, H., Masui, N., Inagaki, F., Takai, K., Hirano, S., Nealson, K. H., Horikoshi, K. (2006) Culture-dependent and independent analyses of subsurface microbial communities in oil-baring strata of the Sagara oil reservoir. Island Arc, 15, 328-337. 

42. Takai, K., Suzuki, M., Nakagawa, S., Miyazaki, M., Suzuki, Y., Inagaki, F., and Horikoshi, K. (2006) Sulfurimonas paralvinella sp. nov., a novel mesophilic, hydrogen- and sulfur-oxidizing chemolithoautotroph within the Epsilonproteobacteria isolated from a deep-sea hydrothermal vent polychaetes nest, reclassification of Thiomicrospira denitrificans as Sulfurimonas denitrificans comb. nov., and emended description of the genus Sulfurimonas. Int. J. Syst. Evol. Microbiol., 56, 1725-1733. 

41. Inagaki, F., and Nealson, K. H. (2006) Molecular signals from ancient materials: challenges to deep-biosphere and paleoenvironmental research—A response to the comments of Shinninghe Damsté and Coolen. Astrobiology, 6, 303-307.

40.  ODP Leg 201, 204  Inagaki, F., Nunoura, T., Nakagawa, S., Teske, A., Lever, M., Lauer, A., Suzuki, M., Takai, K., Delwiche, M., Colwell, F. S., Nealson, K. H., Horikoshi, K., D’Hondt, S., and Jørgensen, B. B. (2006) Biogeographical distribution and diversity of microbes in methane hydrate-bearing deep marine sediments on the Pacific Ocean Margin. Proc. Natl. Acad. Sci. U.S.A., 103, 2815-2820. 

39. Inagaki, F., and Nealson, K. H. (2006) The Paleome: letters from the ancient earth. In “Past and Present Water Column Marine Anoxia” (Ed., Neretin, L. N.), NATO Science Series IV: Earth and Environmental Sciences, pp.21-39, Springer.

2005

38. Takai, K., Campbell, B. J., Cary, C., Suzuki, M., Oida, H., Nunoura, T., Hirayama, H., Nakagawa, S., Suzuki, Y., Inagaki, F., and Horikoshi, K. (2005) Enzymatic and genetic characterization of carbon and energy metabolisms from deep-sea hydrothermal chemolithoautotrophic Epsilonproteobacteria. Appl. Environ. Microbiol., 71, 7310-7320. 

37. Nunoura, T., Hirayama, H., Takami, H., Oida, H., Nishi, S., Shimamura, S., Suzuki, Y., Inagaki, F., Takai, K., Nealson, K. H., and Horikoshi, K. (2005) Genetic and functional properties of uncultivated thermophilic crenarchaeotes from a subsurface gold mine as revealed by analysis of genome fragments. Environ. Microbiol., 7, 1967-1984.

36. Nealson, K. H., Inagaki, F., and Takai, K. (2005) Hydrogen driven subsurface lithoautotrophic microbial ecosystems (SLiMEs): do they exist and why should we care? Trends Microbiol., 13, 405-410. 

35. Nakagawa, S., Takai, K., Inagaki, F., Hirayama, H., Nunoura, T., Horikoshi, K., and Sako, Y. (2005) Distribution, phylogenetic diversity and physiological characteristics of epsilon-Proteobacteria in a deep-sea hydrothermal field. Environ. Microbiol., 7, 1619-1632. 

34. Nakagawa, S., Takai, K., Inagaki, F., Chiba, H., Ishibashi, J., Kataoka, S., Hirayama, H., Nunoura, T., Horikoshi, K., and Sako, Y. (2005) Variability in microbial community and venting chemistry in a sediment-hosted backarc hydrothermal system: impacts of subseafloor phase-separation. FEMS Microbiol. Ecol., 54, 141-155. 

33. Watanabe, H., Tsuchida, S., Fujikura, K., Yamamoto, H., Inagaki, F., Kyo, M., and Kojima, S. (2005) Population history associated with hydrothermal vent activity inferred from the genetic structure of neoverrucid barnacle around Japan. Mar. Ecol. Prog. Ser., 288, 233-240.

32. Nakagawa, S., Takai, K., Inagaki, F., Horikoshi, K., and Sako, Y. (2005) Nitratiruptor tergarcus gen. nov., sp. nov., Nitratifractor salsuginis gen. nov., sp. nov., two nitrate-reducing chemolithoautotrophs within the epsilon-Proteobacteria isolated from a deep-sea hydrothermal system in the Mid-Okinawa Trough. Int. J. Syst. Evol. Microbiol., 55, 925-933.

 

31. Nakagawa, S., Inagaki, F., Takai, K., Horikoshi, K., and Sako, Y. (2005) Thioreductor micantisoli gen. nov., sp. nov., a novel mesophilic, sulfur-reducing chemolithoautotroph within the epsilon-Proteobacteria isolated from hydrothermal sediments in the Mid-Okinawa Trough. Int. J. Syst. Evol. Microbiol., 55, 599-605.

30. Hirayama, H., Takai, K., Inagaki, F., Nealson, K. H., and Horikoshi, K. (2005) Thiobacter subterraneus gen. nov., sp. nov., an obligatory chemolithoautotrophic, thermophilic, sulfur-oxidizing bacterium from a subsurface hot aquifer. Int. J. Syst. Evol. Microbiol., 55, 467-472.

29. Inagaki, F., Okada, H., Tsapin, A. I., and Nealson, K. H. (2005) The Paleome: A genetic record of bacterial communities in mid-Cretaceous black shale. Astrobiology, 5, 141-153.

28. Hirayama, H., Takai, K., Inagaki, F., Yamato, Y., Nealson, K. H., and Horikoshi, K. (2005) Bacterial community shift along a subsurface geothermal water stream in a Japanese gold mine. Extremophiles, 9, 169-184.

27.  IODP Exp. 301   Fisher, A. T., Urabe, T., Klaus, A., Bartetzko, A., Becker, K., Coggon, R., Dumont, M., Engelen, B., Goto, S., Heuer, V., Hulme, S., Hutnak, M., Inagaki, F., Iturrino, G., Kiyokawa, S., Lever, M. A., Nakagawa, S., Nielsen, M., Noguchi, T., Sager, W., Sakaguchi, M., Steinsbu, B. O., Tsujii, T., Wheat, C. G., and the IODP Expedition 301 Scientists. (2005) IODP Expedition 301 installs three borehole crustal observatories, prepares for three-dimensional, cross-hole experiments in the Northeastern Pacific Ocean. Scientific Drilling, 1, 6-11.

2004

26.  ODP Leg 201  D’Hondt, S., Jørgensen, B. B., Miller, D. J., Batzke, A., Blake, R., Cragg, B. A., Cypionka, H., Dickens, G. R., Ferdelman, T., Hinrichs, K-U., Holm, N. G., Mitterer, R., Spivack, A., Wang, G., Bekins, B., Engelen, B., Ford, K., Gettemy, G., Rutherford, S. D., Sass, H., Skilbeck, C. G., Aiello, I . W., Guerin, G., House, C., Inagaki, F., Meister, P., Naehr, T., Niitsuma, S., Parkes, R. J., Schippers, A., Smith, D. C., Teske, A., Wiegel, J., Padilla, C. N., and Acosta, J. L. S. (2004) Distributions of metabolic activities in deep subseafloor sediments. Science, 306, 2216-2221. 

25. Inagaki, F., Tsunogai, U., Suzuki, M., Kosaka, A., Machiyama, H., Takai, K., Nunoura, T., Nealson, K. H., and Horikoshi, K. (2004) Characterization of C1-metabolizing prokaryotic communities in methane seep habitats at the Kuroshima Knoll, the Southern Ryukyu arc, by analyzing pmoA, mmoX, mxaF, mcrA, and 16S rRNA genes. Appl. Environ. Microbiol., 70, 7445-7455. 

24. Nakagawa, S., Nakamura, S., Inagaki, F., Takai, K., Shirai, N., and Sako, Y. (2004) Hydrogenivirga caldilitoris gen. nov., sp. nov., a novel extremely thermophilic, hydrogen/sulfur oxidizing bacterium from a coastal hydrothermal field. Int. J. Syst. Evol. Microbiol., 54, 2079-2084. 

23. Inagaki, F., Takai, K., Nealson, K. H., and Horikoshi, K. (2004) Sulfurovum lithotrophicum gen. nov., sp. nov., a novel sulfur-oxidizing epsilon-proteobacterium isolated from hydrothermal sediments from the mid-Okinawa Trough. Int. J. Syst. Evol. Microbiol., 54, 1477-1457. 

22. Nakagawa, T., Nakagawa, S., Inagaki, F., Takai, K., and Horikoshi, K. (2004) Phylogenetic diversity of sulfate-reducing prokaryotes in active deep-sea hydrothermal vent chimney structures. FEMS Microbiol. Lett., 232, 145-152.

21. Takai, K., Oida, H., Suzuki, Y., Hirayama, H., Nakagawa, S., Nunoura, T., Inagaki, F., Nealson, K. H., and Horikoshi, K. (2004). Spatial distribution of marine crenarchaeaota group I (MGI) in the vicinity of deep-sea hydrothermal systems. Appl. Environ. Microbiol., 70, 2404-2413.

20. Suzuki, Y., Inagaki, F., Takai, K., Nealson, K. H. and Horikoshi, K. (2004) Microbial diversity in inactive chimney structures from deep-sea hydrothermal systems. Microb. Ecol., 47, 186-196. 

19. Takai, K., Inagaki, F., Komatsu, T., and Horikoshi, K. (2004) The presence of unusual archaea in subsurface environments. In “The subseafloor biosphere at Mid-Ocean ridge” (Eds. Wilcock, W. S. D., DeLong, E. F., Kelley, D. S., Baross, J. A.), pp. 365-377, AGU Monograph.

18.  IODP Exp. 301  Shipboard Scientific Party. (2004) Juan de Fuca hydrogeology: The hydrogeologic architecture of basaltic oceanic crust: compartmentalization, anisotropy, microbiology, and crustal-scale properties on the eastern flank of Juan de Fuca Ridge, eastern Pacific Ocean. IODP Preliminary Reports, 301. doi:10:2204/iodp.pr.301.2004

2003

 

17. Inagaki, F., Suzuki, M., Takai, K., Oida, H., Sakamoto, T., Aoki, K., Nealson, K. H. and Horikoshi, K. (2003) Microbial communities associated with geological horizons in coastal subseafloor sediments from the Sea of Okhotsk. Appl. Environ. Microbiol., 69, 7224-7235. 

16. Inagaki, F., Takai, K., Nealson, K. H., and Horikoshi, K. (2003) Sulfurimonas autotrophica gen. nov., sp. nov., a sulfur and thiosulfate oxidizing epsilon proteobacterium isolated from the Okinawa Trough. Int. J. Syst. Evol. Microbiol., 53, 1801-1805.

15. Inagaki, F., Takai, K., Hirayama, H., Yamato, Y., Nealson, K. H., and Horikoshi, K. (2003) Distribution and phylogenetic diversity of the subsurface microbial community in a Japanese epithermal gold mine. Extremophiles, 7, 307-317.

14. Inagaki, F., Motomura, Y., and Ogata S. (2003) Microbial silica deposition in geothermal hot waters. Appl. Microbiol. Biothech., 60, 605-611. 

13. Takai, K., Inagaki, F., Nakagawa, S., Hirayama, H., Nunoura, T., Sako, Y., Nealson, K. H. and Horikoshi, K. (2003) Isolation and phylogenetic diversity of members of previously uncultivated epsilon-Proteobacteria in deep-sea hydrothermal fields. FEMS Microbiol. Lett., 218, 167-174. 

12.  ODP Leg 201  D’Hondt, S. L., Jørgensen, B. B., Miller, D. J., and Leg 201 Shipboard Scientific Party. (2003) Proc. ODP Initial Reports., 201. College Station, TX (Ocean Drilling Program). doi:10.2973/odp.proc.ir.201.2003

2002

 

11. Takai, K., Hirayama, H., Sakihama, Y., Inagaki, F., Yamato, Y., and Horikoshi, K. (2002) Isolation and metabolic characteristics of previously uncultured members of the order Aquificales in a subsurface gold mine. Appl. Environ. Microbiol., 68, 3046-3054. 

10. Inagaki, F., Sakihama, Y., Takai, K., Komatsu, T., Inoue, A., and Horikoshi, K. (2002) Profile of microbial community structure and presence of endolithic microorganisms in a deep-sea rock. Geomicrobiol. J., 19, 535-552.

 

9. Inagaki, F., Sakihama, Y., Inoue, A., Kato, C., and Horikoshi, K. (2002) Molecular phylogenetic analysis of reverse-transcribed bacterial rRNA obtained from deep-sea cold seep sediments. Environ. Microbiol., 4, 277-286.  

 

2001

8. Takai, K., Komatsu, T., Inagaki, F., and Horikoshi K. (2001) Distribution of archaea in a black smoker chimney structure. Appl. Environ. Microbiol., 67, 3618-3629. 

7. Inagaki, F., Motomura, Y., Doi, K., Taguchi, S., Izawa, E., Lowe, D.R., and Ogata, S. (2001) Silicified microbial community at Steep Cone hot spring, Yellowstone National Park. Microb. Environ., 16, 125-130.

6. Inagaki, F., Takai, K., Komatsu, T., Kanematsu, T., Fujioka, K., and Horikoshi, K. (2001) Archaeology of Archaea: geomicrobiological record of Pleistocene thermal events concealed in the deep-sea subseafloor environment. Extremophiles, 5, 385-392.

5. Fujioka, K., Yamanaka, T., Gamo, T., Inagaki, F., Miwa, T., and Sato, H. (2001) An Introduction to the serpentine biosphere in the Mariana Forearc. –Capsule of the deep subsurface biosphere from the Chamorro seamount-. Bull. Earthq. Res. Inst. Univ. Tokyo, 76, 417-424.

2000 - 1997

4. Inagaki, F., Kawatsu, R., Motomura, Y., Doi, K., Izawa, E., and Ogata, S. (2000) Effect of thermophilic bacteria on the siliceous deposition and phylogenetic analysis of the bacterial diversity in silica scale. J. Fac. Agr. Kyushu Univ., 44, 3-4.

 

3. Inagaki, F., Yokoyama, T., Doi, K., Izawa, E., and Ogata, S.  (1998) Bio-deposition of amorphous silica by an extremely thermophilic bacterium Thermus spp. Biosci. Biotechnol. Biochem., 62, 1271-1272.

2. Ishizaki, A., Sonomoto, K., Okada, S., Amachi, S., Ishikawa, K., Yokota, A., Tomita, F., Doi, K., Eguchi, S., Akiyoshi, N., Inagaki, F., Fujio, Y., Tanaka, O., Ohmomo, S., Ogata, S., Kobayashi, O.,Hiyama, K., Etoh, S., Kato, T., Shioya, S., Shimizu, H., Uchiyama, K., Morita, M., Shimizu, K., Suzuki, T., Ohashi, R., Yamamoto, T., Yin, P., Park, Y., Okabe, M., and Ohara, H. (1998) Strategy for diversification of industrial application of lactic acid microorganism. Seibutsu-kogaku Kaishi76,451-468.

1. Inagaki, F., Hayashi, S., Doi, K., Motomura, Y., Izawa, E., and Ogata, S. (1997) Microbial participation in the formation of siliceous deposits form geothermal water and analysis of the extremely thermophilic bacterial community. FEMS Microbiol. Ecol., 24, 41-48.