Aquabacterium limnoticum sp. nov., isolated from a freshwater spring

Chen, Wen-Ming; Cho, Nian-Tsz; Yang, Shwu-Harn; Arun, A. B.; Young, Chiu-Chung; Sheu, Shih-Yi

doi:10.1099/ijs.0.030635-0

Cited by 29 publications

(15 citation statements)

References 21 publications

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“…Alishewanella sp. (22%), which are common heat-tolerant bacteria from soils 26 and freshwater 27 , and likely derived from shallow subsurface interaction of the deep fluids with subsurface soils during upwelling. Clique 6 therefore acts as an internal negative control, demonstrating that bacteria originating from the shallow subsurface can be clearly identified by their lack of correlation with deep subsurface parameters.…”

mentioning

confidence: 99%

Plate tectonics drive deep biosphere microbial community structure

Fullerton¹,

Schrenk²,

Yücel³

et al. 2019

Preprint

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The deep subsurface is one of Earth’s largest biomes. Here, microorganisms modify volatiles moving between the deep and surface Earth. However, it is unknown whether large-scale tectonic processes affect the distribution of microorganisms across this subterranean landscape. We sampled subsurface microbial ecosystems in deeply-sourced springs across the Costa Rican convergent margin. Noble gases, inorganic and organic carbon isotopes, and photosynthetic biomarkers demonstrate negligible surficial input. Total bacterial community compositions correlate with the major cation and anion compositions of subsurface fluids that are driven by underlying tectonic processes. Co-occurrence networks identify microbial cliques correlating with dissolved carbon compounds, dominated by likely chemolithoautotrophs using the reverse tricarboxylic acid (rTCA) cycle. Metagenomic abundances of rTCA cycle genes also correlate with dissolved inorganic carbon (DIC) across the convergent margin, supporting carbon isotopic evidence3 that fixation of slab-derived CO2 into biomass forms the base of a complex subsurface ecosystem. We conclude that subsurface microbial distribution across this convergent margin is ultimately controlled by slab dip angle, tectonic stress regime, carbon volatilization from the slab/mantle source, and the extent of deep subsurface calcite precipitation. Our work establishes a complex feedback whereby the biological processes that alter deep volatile outputs are themselves driven by large-scale tectonic processes.

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mentioning

confidence: 99%

Plate tectonics drive deep biosphere microbial community structure

Fullerton¹,

Schrenk²,

Yücel³

et al. 2019

Preprint

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“…Five species of the genus Aquabacterium have been identified to date. Aquabacterium citratiphilum , A. commune and A. parvum were isolated from biofilm from the Berlin drinking water system (Kalmbach et al , 1999), while A. fontiphilum and A. limnoticum were found in freshwater springs in Taiwan (Lin et al , 2009; Chen et al , 2012). Here, we describe the isolation and analysis of a sixth member of the genus Aquabacterium .…”

mentioning

confidence: 99%

Aquabacterium olei sp. nov., an oil-degrading bacterium isolated from oil-contaminated soil

Pham

Jeong

Kim

2015

International Journal of Systematic and Evolutionary Microbiology

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T is a Gram-negative, motile, non-spore-forming bacterium isolated from oilcontaminated soil in South Korea. The strain was able to grow by using gasoline, diesel and kerosene as energy and carbon sources. After incubation for 14 days, cells (1 g l 21) degraded approximately 58 % of oil present at concentration of 1500 p.p.m. at pH 8 and 28 8C. Strain NHI-1 T grew well under aerobic conditions, with optimal growth at pH 7-9 and 28 8C-37 8Cbut grew poorly in the presence of ¢0.5 % NaCl.

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“…The ability of a Ralstonia to enter a dormant state may explain its survival and sustainability over geological times [62]. Members of Aquabacterium were often detected in low nutrient environments, including drinking, fresh water and glacier ice [63][64][65]. A Curvibacter sp.…”

Section: Molecular Biodiversity Of Deep Triassic Formationsmentioning

confidence: 99%

“…S23321, which is only found in the K2-17 core (1727 mbsl), could be evidence of this sequestration. These two clayey Triassic sandstones belong to the low permeability Triassic cap rocks that isolate Triassic aquifers from water leakage from the surface or from a more superficial productive aquifer, like the Dogger aquifer [63]. In the aquitard compartment, Marty et al [91] supposed diffusive transfers to be negligible over a time scale greater than several million years.…”

Section: Origins Of the Indigenous Bacterial Communitymentioning

confidence: 99%

Microbial and Geochemical Investigation down to 2000 m Deep Triassic Rock (Meuse/Haute Marne, France)

et al. 2018

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In 2008, as part of a feasibility study for radioactive waste disposal in deep geological formations, the French National Radioactive Waste Management Agency (ANDRA) drilled several boreholes in the transposition zone in order to define the potential variations in the properties of the Callovo-Oxfordian claystone formation. This consisted of a rare opportunity to investigate the deep continental biosphere that is still poorly known. Four rock cores, from 1709, 1804, 1865, and 1935 m below land surface, were collected from Lower and Middle Triassic formations in the Paris Basin (France) to investigate their microbial and geochemical composition. Rock leachates showed high salinities ranging from 100 to 365 g·L −1 NaCl, current temperatures averaging 65 • C, no detectable organic matter, and very fine porosity. Microbial composition was studied using a dual cultural and molecular approach. While the broad-spectrum cultural media that was used to activate microbial communities was unsuccessful, the genetic investigation of the dominant 16S rRNA gene sequences revealed eight bacterial genera considered as truly indigenous to the Triassic cores. Retrieved taxa were affiliated to aerobic and facultative anaerobic taxon, mostly unknown to grow in very saline media, except for one taxon related to Halomonas. They included Firmicutes and α-, β-, and γ-Proteobacteria members that are known from many subsurface environments and deep terrestrial and marine ecosystems. As suggested by geochemical analyses of rocks and rock leachates, part of the indigenous bacterial community may originate from a cold paleo-recharge of the Trias aquifer with water originating from ice melting. Thus, retrieved DNA would be fossil DNA. As previously put forward to explain the lack of evidence of microbial life in deep sandstone, another hypothesis is a possible paleo-sterilisation that is based on the poly-extremophilic character of the confined Triassic sandstones, which present high salinity and temperature.

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Aquabacterium limnoticum sp. nov., isolated from a freshwater spring

Cited by 29 publications

References 21 publications

Plate tectonics drive deep biosphere microbial community structure

Plate tectonics drive deep biosphere microbial community structure

Aquabacterium olei sp. nov., an oil-degrading bacterium isolated from oil-contaminated soil

Microbial and Geochemical Investigation down to 2000 m Deep Triassic Rock (Meuse/Haute Marne, France)

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