CENTER for DARK ENERGY BIOSPHERE INVESTIGATIONS
Menu
  • About
    • Introduction
    • People
    • Spotlight
    • Ethics Policy
    • Data Access & Policy
    • Executive Documents
    • C-DEBI Branded Resources
    • Support C-DEBI
    • Contact Us
  • Research
    • Overview
    • Research Themes
    • Field Sites
    • Facilities, Equipment & Technology
    • Research Support
      • Research Grants
      • Graduate Fellowships
      • Postdoctoral Fellowships
      • Research Exchanges
      • Community Workshops
      • Funded Projects
  • Education
    • Overview
    • For Teachers
    • For High School Students
    • For Undergraduates
      • Overview
      • GEM Summer Course
      • C4 Research Experience
      • CC-RISE Research Internship
      • GGURE Research Experience
      • Partnering Organizations
    • For Graduates & Postdocs
    • For Everyone
    • Education Grants
  • Resources
    • Peer-Reviewed Publications
    • Project Data
    • Protocols
    • Subseafloor Cultures Database
    • Videos
    • Mailing List & Newsletter
    • Meetings & Workshops
    • Networked Speaker Series
    • Professional Development Webinars
    • How to Get Deep Biosphere Samples

Person: Tatsuhiko Hoshino

Order
Date Desc
Date Asc
Title Asc
Title Desc
Publications > Journal Article
Published: February 7, 2019
Microbiology Resource Announcements
Draft Genome Sequences of Penicillium spp. from Deeply Buried Oligotrophic Marine Sediments
Authors: Morgan S. Sobol, Tatsuhiko Hoshino, Taiki Futagami, Fumio Inagaki, Brandi Kiel Reese
C-DEBI Contribution Number: 458
Publications > Journal Article
Published: October 3, 2017
Proceedings of the National Academy of Sciences
Methyl-compound use and slow growth characterize microbial life in 2-km-deep subseafloor coal and shale beds
Authors: Elizabeth Trembath-Reichert, Yuki Morono, Akira Ijiri, Tatsuhiko Hoshino, Katherine S. Dawson, Fumio Inagaki, Victoria J. Orphan
C-DEBI Contribution Number: 389
Publications > Journal Article
Published: July 23, 2015
Science
Exploring deep microbial life in coal-bearing sediment down to  2.5 km below the ocean floor
Authors: Fumio Inagaki, Kai-Uwe Hinrichs, Yusuke Kubo, M. W. Bowles, Victoria B. Heuer, W.-L. Hong, Tatsuhiko Hoshino, Akira Ijiri, H. Imachi, M. Ito, M. Kaneko, Mark A. Lever, Y.-S. Lin, B. A. Methe, S. Morita, Yuki Morono, W. Tanikawa, M. Bihan, S. A. Bowden, M. Elvert, Clemens Glombitza, D. Gross, G. J. Harrington, T. Hori, K. Li, D. Limmer, C.-H. Liu, M. Murayama, N. Ohkouchi, Shuhei Ono, Y.-S. Park, S. C. Phillips, X. Prieto-Mollar, M. Purkey, Natascha Riedinger, Y. Sanada, Justine Sauvage, G. Snyder, R. Susilawati, Y. Takano, E. Tasumi, T. Terada, H. Tomaru, Elizabeth Trembath-Reichert, D. T. Wang, Y. Yamada
C-DEBI Contribution Number: 310
Publications > Journal Article
Microbiology Resource Announcements
Draft Genome Sequences of Penicillium spp. from Deeply Buried Oligotrophic Marine Sediments
Authors: Morgan S. Sobol, Tatsuhiko Hoshino, Taiki Futagami, Fumio Inagaki, Brandi Kiel Reese
Published: February 7, 2019
C-DEBI Contribution Number: 458

Abstract

Here, we report genome sequences of two Penicillium isolates from below the seafloor of the oligotrophic South Pacific Gyre. These genomes are the first reported for fungi from deeply buried marine sediment. Both genomes will provide valuable information regarding the role of fungi and carbon cycling in the energy-limited subsurface biosphere.
Source: http://dx.doi.org/10.1128/mra.01613-18
Publications > Journal Article
Proceedings of the National Academy of Sciences
Methyl-compound use and slow growth characterize microbial life in 2-km-deep subseafloor coal and shale beds
Authors: Elizabeth Trembath-Reichert, Yuki Morono, Akira Ijiri, Tatsuhiko Hoshino, Katherine S. Dawson, Fumio Inagaki, Victoria J. Orphan
Published: October 3, 2017
C-DEBI Contribution Number: 389

Abstract

The past decade of scientific ocean drilling has revealed seemingly ubiquitous, slow-growing microbial life within a range of deep biosphere habitats. Integrated Ocean Drilling Program Expedition 337 expanded these studies by successfully coring Miocene-aged coal beds 2 km below the seafloor hypothesized to be “hot spots” for microbial life. To characterize the activity of coal-associated microorganisms from this site, a series of stable isotope probing (SIP) experiments were conducted using intact pieces of coal and overlying shale incubated at in situ temperatures (45 °C). The 30-month SIP incubations were amended with deuterated water as a passive tracer for growth and different combinations of 13C- or 15N-labeled methanol, methylamine, and ammonium added at low (micromolar) concentrations to investigate methylotrophy in the deep subseafloor biosphere. Although the cell densities were low (50–2,000 cells per cubic centimeter), bulk geochemical measurements and single-cell–targeted nanometer-scale secondary ion mass spectrometry demonstrated active metabolism of methylated substrates by the thermally adapted microbial assemblage, with differing substrate utilization profiles between coal and shale incubations. The conversion of labeled methylamine and methanol was predominantly through heterotrophic processes, with only minor stimulation of methanogenesis. These findings were consistent with in situ and incubation 16S rRNA gene surveys. Microbial growth estimates in the incubations ranged from several months to over 100 y, representing some of the slowest direct measurements of environmental microbial biosynthesis rates. Collectively, these data highlight a small, but viable, deep coal bed biosphere characterized by extremely slow-growing heterotrophs that can utilize a diverse range of carbon and nitrogen substrates.
Source: http://dx.doi.org/10.1073/pnas.1707525114

Related Items

Awards
Awards > Research Exchange Grants
Award Dates: March 17, 2015 — April 10, 2015
Determination of deep biosphere cell activity and identity utilizing the state of the art low-biomass, single cell techniques developed at JAMSTEC in their class 10,000 clean room
PI: Elizabeth Trembath-Reichert (California Institute of Technology)
Current Placement: Postdoctoral Researcher, Woods Hole Oceanographic Institution
Advisor: Victoria J. Orphan (California Institute of Technology)
Host: Fumio Inagaki (JAMSTEC)
Publications > Journal Article
Science
Exploring deep microbial life in coal-bearing sediment down to  2.5 km below the ocean floor
Authors: Fumio Inagaki, Kai-Uwe Hinrichs, Yusuke Kubo, M. W. Bowles, Victoria B. Heuer, W.-L. Hong, Tatsuhiko Hoshino, Akira Ijiri, H. Imachi, M. Ito, M. Kaneko, Mark A. Lever, Y.-S. Lin, B. A. Methe, S. Morita, Yuki Morono, W. Tanikawa, M. Bihan, S. A. Bowden, M. Elvert, Clemens Glombitza, D. Gross, G. J. Harrington, T. Hori, K. Li, D. Limmer, C.-H. Liu, M. Murayama, N. Ohkouchi, Shuhei Ono, Y.-S. Park, S. C. Phillips, X. Prieto-Mollar, M. Purkey, Natascha Riedinger, Y. Sanada, Justine Sauvage, G. Snyder, R. Susilawati, Y. Takano, E. Tasumi, T. Terada, H. Tomaru, Elizabeth Trembath-Reichert, D. T. Wang, Y. Yamada
Published: July 23, 2015
C-DEBI Contribution Number: 310

Abstract

Microbial life inhabits deeply buried marine sediments, but the extent of this vast ecosystem remains poorly constrained. Here we provide evidence for the existence of microbial communities in ~40° to 60°C sediment associated with lignite coal beds at ~1.5 to 2.5 km below the seafloor in the Pacific Ocean off Japan. Microbial methanogenesis was indicated by the isotopic compositions of methane and carbon dioxide, biomarkers, cultivation data, and gas compositions. Concentrations of indigenous microbial cells below 1.5 km ranged from <10 to ~104 cells cm−3. Peak concentrations occurred in lignite layers, where communities differed markedly from shallower subseafloor communities and instead resembled organotrophic communities in forest soils. This suggests that terrigenous sediments retain indigenous community members tens of millions of years after burial in the seabed.
Source: http://dx.doi.org/10.1126/science.aaa6882

Related Items

Awards
Awards > Research Exchange Grants
Award Dates: March 17, 2015 — April 10, 2015
Determination of deep biosphere cell activity and identity utilizing the state of the art low-biomass, single cell techniques developed at JAMSTEC in their class 10,000 clean room
PI: Elizabeth Trembath-Reichert (California Institute of Technology)
Current Placement: Postdoctoral Researcher, Woods Hole Oceanographic Institution
Advisor: Victoria J. Orphan (California Institute of Technology)
Host: Fumio Inagaki (JAMSTEC)

About C-DEBI  |  Our Research  |  Education & Outreach  |  Resources  |
Contact Us  |  Join Our Mailing List  |  Find Us On Facebook  |  Follow us on Twitter
© 2009-2019 Center for Dark Energy Biosphere Investigations (C-DEBI)

SUPPORT C-DEBI TODAY |  National Science Foundation