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  1. Article

    Open Access

    Double-stranded RNA sequencing reveals distinct riboviruses associated with thermoacidophilic bacteria from hot springs in Japan

    Metatranscriptome sequencing expanded the known diversity of the bacterial RNA virome, suggesting that additional riboviruses infecting bacterial hosts remain to be discovered. Here we employed double-stranded...

    Syun-ichi Urayama, Akihito Fukudome, Miho Hirai, Tomoyo Okumura in Nature Microbiology (2024)

  2. Article

    Open Access

    Influence of normal tide and the Great Tsunami as recorded through hourly-resolution micro-analysis of a mussel shell

    We report here hourly variations of Mg/Ca, Sr/Ca, and Ba/Ca ratios in a Mediterranean mussel shell (Mytilus galloprovincialis) collected at the Otsuchi bay, on the Pacific coast of northeastern Japan. This bivalv...

    Yuji Sano, Tomoyo Okumura, Naoko Murakami-Sugihara, Kentaro Tanaka in Scientific Reports (2021)

  3. Article

    Open Access

    Stalagmite evidence for East Asian winter monsoon variability and 18O-depleted surface water in the Japan Sea during the last glacial period

    In the East Asian monsoon area, stalagmites generally record lower and higher oxygen isotope (δ18O) levels during warm humid interglacial and cold dry glacial periods, respectively. Here, we report unusually low ...

    Shota Amekawa, Kenji Kashiwagi, Masako Hori in Progress in Earth and Planetary Science (2021)

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    Chapter

    Concluding Remarks

    For better understanding of the processes involved in the travertine development, it is essential to know the basic chemical principles (Chap. 2), the sedimentolog...

    Akihiro Kano, Tomoyo Okumura in Geomicrobiological Properties and Processe… (2019)

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    Chapter

    Introduction

    Stone of light yellow color, sometimes laminated and porous, is often found on wall material. The word travertine in general means such kind of limestone material. It was derived from lapis tiburtinus that means ...

    Akihiro Kano, Tomoyo Okumura in Geomicrobiological Properties and Processe… (2019)

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    Chapter

    Sedimentology of Travertine

    Sediment bodies of travertine exhibit unique geomorphology that results from its rapid sedimentation rate. As described in Chap. 2 and will be discussed in Chap. ...

    Akihiro Kano, Tomoyo Okumura in Geomicrobiological Properties and Processe… (2019)

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    Chapter

    Geomicrobiological Processes for Laminated Textures

    A laminated deposit is a record of cyclic changes of physical, geochemical, and microbiological conditions. The laminated pattern is often quite regular. In lacustrine verves, regular seasonal changes in weath...

    Akihiro Kano, Tomoyo Okumura in Geomicrobiological Properties and Processe… (2019)

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    Chapter

    Travertines in Japan

    In this chapter, we describe several representative travertine sites in the Japanese islands. According to our extensive search, there are at least 30 hot springs that developed calcareous deposits (Fig. 7.1, ...

    Akihiro Kano, Tomoyo Okumura in Geomicrobiological Properties and Processe… (2019)

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    Chapter

    Basic Knowledge of Geochemical Processes

    Travertines (or thermogene travertines in Pentecost 2005) are formed from hydrothermal water with an initial high concentration of Ca2+ and CO2 partial pressure (Ford and Pedley 1996; Gandin and Capezzuoli 2008, ...

    Akihiro Kano, Tomoyo Okumura in Geomicrobiological Properties and Processe… (2019)

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    Chapter

    Methods

    Because the travertine is a product associated with geological, physical, chemical, and microbiological conditions, comprehensive understanding of its formational processes requires a wide range of analyses wi...

    Akihiro Kano, Tomoyo Okumura in Geomicrobiological Properties and Processe… (2019)

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    Chapter

    Geochemical Model for Rapid Carbonate Precipitation of Travertines

    In the last chapter, we demonstrate the daily processes of the sub-mm-scale lamination. When favorable geochemical and hydrological conditions sustain, travertine can grow at a rate of tens of centimeters per ...

    Akihiro Kano, Tomoyo Okumura in Geomicrobiological Properties and Processe… (2019)

  13. Article

    Open Access

    Cyanobacterial exopolymer properties differentiate microbial carbonate fabrics

    Although environmental changes and evolution of life are potentially recorded via microbial carbonates, including laminated stromatolites and clotted thrombolites, factors controlling their fabric are still a ...

    Fumito Shiraishi, Yusaku Hanzawa, Tomoyo Okumura, Naotaka Tomioka in Scientific Reports (2017)

  14. Article

    Open Access

    Hydrogen and carbon isotope systematics in hydrogenotrophic methanogenesis under H2-limited and H2-enriched conditions: implications for the origin of methane and its isotopic diagnosis

    Hydrogen and carbon isotope systematics of H2O–H2–CO2–CH4 in hydrogenotrophic methanogenesis and their relation to H2 availability were investigated. Two H2-syntrophic cocultures of fermentatively hydrogenogenic ...

    Tomoyo Okumura, Shinsuke Kawagucci, Yayoi Saito in Progress in Earth and Planetary Science (2016)

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    Chapter

    Microbial Control on Lamina Formation in a Travertine of Crystal Geyser, Utah

    Travertines – carbonates mostly precipitated in situ from calcareous hot-spring water – often show stromatolitic lamination which has been interpreted as daily banding (Folk et al. 1985; Guo and Riding 1992; P...

    Chiduru Takashima, Tomoyo Okumura, Shin Nishida in Advances in Stromatolite Geobiology (2011)