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Journal Articles

Clades of huge phages from across Earth's ecosystems

Al-Shayeb, B.*; Sachzdeva, R.*; Chen, L.-X.*; Ward, F.*; Munk, P.*; Devoto, A.*; Castelle, C. J.*; Olm, M. R.*; Bouma-Gregson, K.*; Amano, Yuki; et al.

Nature, 578(7795), p.425 - 431, 2020/02

 Times Cited Count:20 Percentile:0.48(Multidisciplinary Sciences)

Journal Articles

Hydrogen-based metabolism as an ancestral trait in lineages sibling to the Cyanobacteria

Matheus Carnevali, P. B.*; Schulz, F.*; Castelle, C. J.*; Kantor, R. S.*; Shih, P. M.*; Sharon, I.*; Santini, J.*; Olm, M. R.*; Amano, Yuki; Thomas, B. C.*; et al.

Nature Communications (Internet), 10, p.463_1 - 463_15, 2019/01

 Times Cited Count:8 Percentile:18.27(Multidisciplinary Sciences)

Journal Articles

Ecological and genomic profiling of anaerobic methane-oxidizing archaea in a deep granitic environment

Ino, Kohei*; Hernsdorf, A. W.*; Konno, Yuta*; Kozuka, Mariko*; Yanagawa, Katsunori*; Kato, Shingo*; Sunamura, Michinari*; Hirota, Akinari*; Togo, Yoko*; Ito, Kazumasa*; et al.

ISME Journal, 12(1), p.31 - 47, 2018/01

In this study, we found the dominance ofanaerobic methane-oxidizing archaea in groundwater enriched in sulfate and methane from a 300-m deep underground borehole in granitic rock.

Journal Articles

Potential for microbial H$$_{2}$$ and metal transformations associated with novel bacteria and archaea in deep terrestrial subsurface sediments

Hernsdorf, A. W.*; Amano, Yuki; Miyakawa, Kazuya; Ise, Kotaro; Suzuki, Yohei*; Anantharaman, K.*; Probst, A. J.*; Burstein, David*; Thomas, B. C.*; Banfield, J. F.*

ISME Journal, 11, p.1915 - 1929, 2017/03

AA2016-0002.pdf:2.21MB

 Times Cited Count:42 Percentile:2.88(Ecology)

To evaluate the potential for interactions between microbial communities and disposal systems, we explored the structure and metabolic function of a sediment-hosted subsurface ecosystem associated with Horonobe Underground Research Center, Hokkaido, Japan. Overall, the ecosystem is enriched in organisms from diverse lineages and many are from phyla that lack isolated representatives. The majority of organisms can metabolize H$$_{2}$$, often via oxidative [NiFe] hydrogenases or electron-bifurcating [FeFe] hydrogenases that enable ferredoxin-based pathways, including the ion motive Rnf complex. Many organisms implicated in H$$_{2}$$ metabolism are also predicted to catalyze carbon, nitrogen, iron, and sulfur transformations. Notably, iron-based metabolism was predicted in a bacterial lineage where this function has not been predicted previously and in an ANME-2d archaeaon that is implicated in methane oxidation. We infer an ecological model that links microorganisms to sediment-derived resources and predict potential impacts of microbial activity on H$$_{2}$$ accumulation and radionuclide migration.

Journal Articles

A New view of the tree of life

Hug, L. A.*; Baker, B. J.*; Anantharaman, K.*; Brown, C. T.*; Probst, A. J.*; Castelle, C. J.*; Butterfield, C. N.*; Hernsdorf, A. W.*; Amano, Yuki; Ise, Kotaro; et al.

Nature Microbiology (Internet), 1(5), p.16048_1 - 16048_6, 2016/05

 Times Cited Count:632 Percentile:0.02(Microbiology)

The tree of life is one of the most important organizing principles in biology. Gene surveys suggest the existence of an enormous number of branches, but even an approximation of the full scale of The Tree has remained elusive. Here, we use newly available information from genomes of uncultivated organisms, along with other published sequences, to present a new version of the Tree of life, with Bacteria, Archaea and Eukaryotes included. The depiction is both a global overview and a snapshot of the diversity within each major lineage. The results imply the predominance of bacterial diversification and underline the importance of organisms lacking isolated representatives, with substantial evolution concentrated in a major radiation of such organisms.

Oral presentation

Sulfur and hydrogen metabolism linked to CO$$_{2}$$ fixation by abundant Nitrospirae in the deep subsurface

Amano, Yuki; Anantharaman, K.*; Tomas, B. C.*; Olm, M.*; Burstein, David*; Castelle, C. J.*; Beppu, Hikari*; Miyakawa, Kazuya; Iwatsuki, Teruki; Suzuki, Yohei*; et al.

no journal, , 

Oral presentation

Vast metabolic and phylogenetic diversity shared across deep subsurface environments

Amano, Yuki; Diamond, S.*; Lavy, A.*; Anantharaman, K.*; Miyakawa, Kazuya; Iwatsuki, Teruki; Beppu, Hikari*; Suzuki, Yohei*; Thomas, B. C.*; Banfield, J. F.*

no journal, , 

Oral presentation

Existence and the role of subsurface biofilm in the deep sedimentary rock environment of the Horonobe area, Hokkaido, Japan

Amano, Yuki; Beppu, Hikari*; Endo, Takashi*; Nemoto, Kazuaki*; Sato, Tomofumi*; Thomas, B. C.*; Banfield, J. F.*

no journal, , 

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