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Title: Geological and geochemical controls on subsurface microbial life in the Samail Ophiolite, Oman

Journal Article · · Frontiers in Microbiology
 [1];  [1];  [2];  [1];  [2];  [3];  [1];  [1]
  1. Univ. of Colorado, Boulder, CO (United States)
  2. Univ. of Southampton, Southampton (United Kingdom)
  3. Columbia Univ., Palisades, NY (United States)

Microbial abundance and diversity in deep subsurface environments is dependent upon the availability of energy and carbon. However, supplies of oxidants and reductants capable of sustaining life within mafic and ultramafic continental aquifers undergoing low-temperature water-rock reaction are relatively unknown. We conducted an extensive analysis of the geochemistry and microbial communities recovered from fluids sampled from boreholes hosted in peridotite and gabbro in the Tayin block of the Samail Ophiolite in the Sultanate of Oman. The geochemical compositions of subsurface fluids in the ophiolite are highly variable, reflecting differences in host rock composition and the extent of fluid-rock interaction. Principal component analysis of fluid geochemistry and geologic context indicate the presence of at least four fluid types in the Samail Ophiolite (“gabbro,” “alkaline peridotite,” “hyperalkaline peridotite,” and “gabbro/peridotite contact”) that vary strongly in pH and the concentrations of H2, CH4, Ca2+, Mg2+, NO3$$-$$, SO$$2-\atop{4}$$, trace metals, and DIC. Geochemistry of fluids is strongly correlated with microbial community composition; similar microbial assemblages group according to fluid type. Hyperalkaline fluids exhibit low diversity and are dominated by taxa related to the Deinococcus-Thermus genus Meiothermus, candidate phyla OP1, and the family Thermodesulfovibrionaceae. Gabbro- and alkaline peridotite- aquifers harbor more diverse communities and contain abundant microbial taxa affiliated with Nitrospira, Nitrosospharaceae, OP3, Parvarcheota, and OP1 order Acetothermales. Wells that sit at the contact between gabbro and peridotite host microbial communities distinct from all other fluid types, with an enrichment in betaproteobacterial taxa. Together the taxonomic information and geochemical data suggest that several metabolisms may be operative in subsurface fluids, including methanogenesis, acetogenesis, and fermentation, as well as the oxidation of methane, hydrogen and small molecular weight organic acids utilizing nitrate and sulfate as electron acceptors. Dynamic nitrogen cycling may be especially prevalent in gabbro and alkaline peridotite fluids. As a result, these data suggest water-rock reaction, as controlled by lithology and hydrogeology, constrains the distribution of life in terrestrial ophiolites.

Research Organization:
Univ. of Colorado, Boulder, CO (United States)
Sponsoring Organization:
USDOE Office of Science (SC)
Grant/Contract Number:
SC0006886
OSTI ID:
1347526
Journal Information:
Frontiers in Microbiology, Vol. 8; ISSN 1664-302X
Publisher:
Frontiers Research FoundationCopyright Statement
Country of Publication:
United States
Language:
English
Citation Metrics:
Cited by: 95 works
Citation information provided by
Web of Science

References (148)

Acetogenesis and the Wood–Ljungdahl pathway of CO2 fixation journal December 2008
Meiothermus rufus sp. nov., a new slightly thermophilic red-pigmented species and emended description of the genus Meiothermus journal August 2009
Acetogenesis in the Energy-Starved Deep Biosphere – A Paradox? journal January 2012
Thermodynamic constraints on hydrogen generation during serpentinization of ultramafic rocks journal February 2009
Prokaryotes: The unseen majority journal June 1998
The PVC superphylum: exceptions to the bacterial definition? journal August 2013
Isolation of Phyllosilicate–Iron Redox Cycling Microorganisms from an Illite–Smectite Rich Hydromorphic Soil journal January 2012
In situ carbonation of peridotite for CO2 storage journal November 2008
Phylogenetic diversity and metagenomics of candidate division OP3: Candidate division OP3 journal February 2010
The contribution of the Precambrian continental lithosphere to global H2 production journal December 2014
The Relationship between Fluids in Some Fresh Alpine-Type Ultramafics and Possible Modern Serpentinization, Western United States journal January 1969
Factors controlling groundwater quality in Eastern United Arab Emirates: a chemical and isotopic approach journal January 2004
Nitrate as a preferred electron sink for the acetogen Clostridium thermoaceticum. journal December 1993
Active Microbial Communities Inhabit Sulphate-Methane Interphase in Deep Bedrock Fracture Fluids in Olkiluoto, Finland journal January 2015
Characterization of a new thermophilic sulfate-reducing bacterium: Thermodesulfovibrio yellowstonii, gen. nov. and sp. nov.: its phylogenetic relationship to Thermodesulfobacterium commune and their origins deep within the bacterial domain journal January 1994
Geosphere-Biosphere Interactions in Bio-Activity Volcanic Lakes: Evidences from Hule and Rìo Cuarto (Costa Rica) journal July 2014
Metagenomic and PCR-Based Diversity Surveys of [FeFe]-Hydrogenases Combined with Isolation of Alkaliphilic Hydrogen-Producing Bacteria from the Serpentinite-Hosted Prony Hydrothermal Field, New Caledonia journal August 2016
Continental-scale distributions of dust-associated bacteria and fungi journal April 2015
Abiotic Synthesis of Organic Compounds in Deep-Sea Hydrothermal Environments journal February 2007
pH regulation of carbon and nitrogen dynamics in two agricultural soils journal May 2006
Complete genome sequence of Meiothermus ruber type strain (21T) journal July 2010
Groundwater Isolation Governs Chemistry and Microbial Community Structure along Hydrologic Flowpaths journal December 2015
H2-rich fluids from serpentinization: Geochemical and biotic implications journal August 2004
Methane- and Sulfur-Metabolizing Microbial Communities Dominate the Lost City Hydrothermal Field Ecosystem journal September 2006
Naive Bayesian Classifier for Rapid Assignment of rRNA Sequences into the New Bacterial Taxonomy journal June 2007
Endospore abundance, microbial growth and necromass turnover in deep sub-seafloor sediment journal March 2012
Present day serpentinization in New Caledonia, Oman and Yugoslavia journal January 1978
Long-Term Sustainability of a High-Energy, Low-Diversity Crustal Biome journal October 2006
Anaerobranca californiensis sp. nov., an anaerobic, alkalithermophilic, fermentative bacterium isolated from a hot spring on Mono Lake journal May 2004
Microbial diversity in The Cedars, an ultrabasic, ultrareducing, and low salinity serpentinizing ecosystem journal September 2013
Structure, mineralogy, and microbial diversity of geothermal spring microbialites associated with a deep oil drilling in Romania journal March 2015
Feasible metabolisms in high pH springs of the Philippines journal February 2015
Microbial metagenomes from three aquifers in the Fennoscandian shield terrestrial deep biosphere reveal metabolic partitioning among populations journal October 2015
Spatial distribution of microbial communities in the shallow submarine alkaline hydrothermal field of the Prony Bay, New Caledonia: Microbial communities of Prony Hydrothermal Field journal July 2014
Cross section through the peridotite in the Samail Ophiolite, southeastern Oman Mountains journal April 1981
Deep subsurface microbial processes journal January 1995
Temporal Shifts in the Geochemistry and Microbial Community Structure of an Ultradeep Mine Borehole Following Isolation journal November 2003
Metagenomic Evidence for H2 Oxidation and H2 Production by Serpentinite-Hosted Subsurface Microbial Communities journal January 2012
Paleoclimatic Reconstruction in Northern Oman Based on Carbonates from Hyperalkaline Groundwaters journal May 1990
Thermodesulfovibrio aggregans sp. nov. and Thermodesulfovibrio thiophilus sp. nov., anaerobic, thermophilic, sulfate-reducing bacteria isolated from thermophilic methanogenic sludge, and emended description of the genus Thermodesulfovibrio journal November 2008
The yield and isotopic composition of radiolytic H2, a potential energy source for the deep subsurface biosphere journal February 2005
Prokaryotic diversity, distribution, and insights into their role in biogeochemical cycling in marine basalts journal October 2008
Microbial life in deep granitic rock journal July 1997
Abiogenic Hydrocarbon Production at Lost City Hydrothermal Field journal February 2008
A conceptual hydrogeological model of ophiolite hard-rock aquifers in Oman based on a multiscale and a multidisciplinary approach journal May 2005
Deep subsurface microbiology: a guide to the research topic papers journal January 2013
Fumarole-Supported Islands of Biodiversity within a Hyperarid, High-Elevation Landscape on Socompa Volcano, Puna de Atacama, Andes journal December 2008
Non-Sulfate-Reducing, Syntrophic Bacteria Affiliated with Desulfotomaculum Cluster I Are Widely Distributed in Methanogenic Environments journal March 2006
Genome-Resolved Metagenomic Analysis Reveals Roles for Candidate Phyla and Other Microbial Community Members in Biogeochemical Transformations in Oil Reservoirs journal January 2016
Irreversible water–rock mass transfer accompanying the generation of the neutral, Mg–HCO3 and high-pH, Ca–OH spring waters of the Genova province, Italy journal April 2002
Expanded metabolic versatility of ubiquitous nitrite-oxidizing bacteria from the genus Nitrospira journal August 2015
An alkaline spring system within the Del Puerto Ophiolite (California, USA): A Mars analog site journal May 2009
Life in the hydrated suboceanic mantle journal January 2012
Physiological and genomic features of highly alkaliphilic hydrogen-utilizing Betaproteobacteria from a continental serpentinizing site journal May 2014
Geochemically Generated, Energy-Rich Substrates and Indigenous Microorganisms in Deep, Ancient Groundwater journal September 2005
Phylogeny and phylogeography of functional genes shared among seven terrestrial subsurface metagenomes reveal N-cycling and microbial evolutionary relationships journal October 2014
Abiotic methane flux from the Chimaera seep and Tekirova ophiolites (Turkey): Understanding gas exhalation from low temperature serpentinization and implications for Mars journal October 2011
Nitrite-driven anaerobic methane oxidation by oxygenic bacteria journal March 2010
Metagenomic Analysis of the Microbial Community at Zodletone Spring (Oklahoma): Insights into the Genome of a Member of the Novel Candidate Division OD1 journal November 2005
Correlating Microbial Diversity Patterns with Geochemistry in an Extreme and Heterogeneous Environment of Mine Tailings journal April 2014
Sulfuritalea hydrogenivorans gen. nov., sp. nov., a facultative autotroph isolated from a freshwater lake journal August 2010
Hydrogen-driven subsurface lithoautotrophic microbial ecosystems (SLiMEs): do they exist and why should we care? journal September 2005
Desulfotomaculum and Methanobacterium spp. Dominate a 4- to 5-Kilometer-Deep Fault journal December 2005
Methane origin in the Samail ophiolite: Comment on “Modern water/rock reactions in Oman hyperalkaline peridotite aquifers and implications for microbial habitability” [Geochim. Cosmochim. Acta 179 (2016) 217–241] journal January 2017
Insights into the phylogeny and coding potential of microbial dark matter journal July 2013
Taxonomic and functional characteristics of microbial communities and their correlation with physicochemical properties of four geothermal springs in Odisha, India journal October 2015
Low-temperature catalytic CO 2 hydrogenation with geological quantities of ruthenium: a possible abiotic CH 4 source in chromitite-rich serpentinized rocks journal September 2014
Methane in serpentinized ultramafic rocks in mainland Portugal journal August 2013
Microbial life under extreme energy limitation journal January 2013
Past And Present Serpentinisation of Ultramafic Rocks; An Example from the Semail Ophiolite Nappe of Northern Oman book January 1985
Abiotic methane formation during experimental serpentinization of olivine journal November 2016
Energy Conservation in Acetogenic Bacteria journal November 2003
Enigmatic, ultrasmall, uncultivated Archaea journal April 2010
Biochemistry and molecular biology of anammox bacteria journal June 2009
Fluid chemistry of the low temperature hyperalkaline hydrothermal system of Prony Bay (New Caledonia) journal January 2014
Laboratory Simulations of Abiotic Hydrocarbon Formation in Earth's Deep Subsurface journal January 2013
The Complete Genome Sequence of Cupriavidus metallidurans Strain CH34, a Master Survivalist in Harsh and Anthropogenic Environments journal May 2010
Hydrogen generation from mantle source rocks in Oman journal December 1983
Characterization of bacterial diversity to a depth of 1500 m in the Outokumpu deep borehole, Fennoscandian Shield: Deep terrestrial biodiversity journal May 2011
Abiogenic methanogenesis in crystalline rocks journal December 1993
Hydrogeologic Controls on Episodic H 2 Release from Precambrian Fractured Rocks—Energy for Deep Subsurface Life on Earth and Mars journal December 2007
Reaction path modeling of enhanced in situ CO2 mineralization for carbon sequestration in the peridotite of the Samail Ophiolite, Sultanate of Oman journal November 2012
Coexisting serpentine and quartz from carbonate-bearing serpentinized peridotite in the Samail Ophiolite, Oman journal June 2012
Serpentinization, Carbon, and Deep Life journal January 2013
Growth of nitrite-oxidizing bacteria by aerobic hydrogen oxidation journal August 2014
Physical and chemical controls on habitats for life in the deep subsurface beneath continents and ice
  • Parnell, John; McMahon, Sean
  • Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences, Vol. 374, Issue 2059 https://doi.org/10.1098/rsta.2014.0293
journal January 2016
Subterranean microbial populations metabolize hydrogen and acetate under in situ conditions in granitic groundwater at 450 m depth in the Äspö Hard Rock Laboratory, Sweden journal April 2012
Exploration of deep intraterrestrial microbial life: current perspectives journal April 2000
Out of the dark: transitional subsurface-to-surface microbial diversity in a terrestrial serpentinizing seep (Manleluag, Pangasinan, the Philippines) journal February 2015
An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea journal December 2011
A metagenomic window into carbon metabolism at 3 km depth in Precambrian continental crust journal September 2015
On the Stability of Sulfides, Oxides, and Native Metals in Serpentinite journal February 1985
Microbial and functional diversity of a subterrestrial high pH groundwater associated to serpentinization: Microbial and functional diversity of subsurface aquifer journal November 2012
Distinct and diverse anaerobic bacterial communities in boreal lakes dominated by candidate division OD1 journal March 2012
Archaea and bacteria with surprising microdiversity show shifts in dominance over 1,000-year time scales in hydrothermal chimneys journal January 2010
Vertical stratification of subsurface microbial community composition across geological formations at the Hanford Site: Hanford Site subsurface microbial communities journal November 2011
Nitrososphaera viennensis gen. nov., sp. nov., an aerobic and mesophilic, ammonia-oxidizing archaeon from soil and a member of the archaeal phylum Thaumarchaeota journal June 2014
Archaea in Yellowstone Lake journal May 2011
Anaerobranca gottschalkii sp. nov., a novel thermoalkaliphilic bacterium that grows anaerobically at high pH and temperature. journal March 2001
Autotrophic carbon fixation in archaea journal May 2010
First Investigation of the Microbiology of the Deepest Layer of Ocean Crust journal November 2010
Serpentinization as a source of energy at the origin of life: Serpentinization and the emergence of life journal November 2010
Occurrence of abiotic methane in the eastern United Arab Emirates ophiolite aquifer journal June 2015
Anaerobranca zavarzinii sp. nov., an anaerobic, alkalithermophilic bacterium isolated from Kamchatka thermal fields journal June 2008
Nitrogen in rock: Occurrences and biogeochemical implications: BIOGEOCHEMICAL IMPLICATIONS OF N IN ROCK journal December 2002
The Geology of the oman Mountains journal January 1996
Hydrogen generation from low-temperature water–rock reactions journal May 2013
Introduction to the Oman Ophiolite Special Issue journal April 1981
Scientific Drilling and Related Research in the Samail Ophiolite, Sultanate of Oman journal January 2013
Microbial diversity in a submarine carbonate edifice from the serpentinizing hydrothermal system of the Prony Bay (New Caledonia) over a 6-year period journal August 2015
Radiolytic H 2 in continental crust: Nuclear power for deep subsurface microbial communities : RADIOLYTIC H journal July 2005
Archaeal and bacterial community composition of sediment and plankton from a suboxic freshwater pond journal April 2007
UPARSE: highly accurate OTU sequences from microbial amplicon reads journal August 2013
Ammonium-bearing clinopyroxene: A potential nitrogen reservoir in the Earth's mantle journal February 2010
Complete nitrification by Nitrospira bacteria journal November 2015
Geochemistry of a continental site of serpentinization, the Tablelands Ophiolite, Gros Morne National Park: A Mars analogue journal June 2013
F1F0-ATP synthases of alkaliphilic bacteria: Lessons from their adaptations journal August 2010
Taxonomy of the genus Cupriavidus: a tale of lost and found journal November 2004
Modern water/rock reactions in Oman hyperalkaline peridotite aquifers and implications for microbial habitability journal April 2016
Microbial co-occurrence patterns in deep Precambrian bedrock fracture fluids journal January 2016
Serpentinization and Its Implications for Life on the Early Earth and Mars journal April 2006
The Family Rhodocyclaceae book January 2014
Investigations of potential microbial methanogenic and carbon monoxide utilization pathways in ultra-basic reducing springs associated with present-day continental serpentinization: the Tablelands, NL, CAN journal November 2014
Potential for Nitrogen Fixation and Nitrification in the Granite-Hosted Subsurface at Henderson Mine, CO journal January 2011
Comamonadaceae book September 2015
Compartmentalization of physical and chemical properties in hard-rock aquifers deduced from chemical and groundwater age analyses journal September 2008
Metagenome of a Microbial Community Inhabiting a Metal-Rich Tropical Stream Sediment journal March 2015
Low temperature production and exhalation of methane from serpentinized rocks on Earth: A potential analog for methane production on Mars journal June 2013
Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms journal March 2012
Euxinic Freshwater Hypolimnia Promote Bacterial Endemicity in Continental Areas journal November 2010
Bacterial community shift along a subsurface geothermal water stream in a Japanese gold mine journal March 2005
Rates and Mechanisms of Mineral Carbonation in Peridotite: Natural Processes and Recipes for Enhanced, in situ CO 2 Capture and Storage journal May 2011
Reply to “Methane origin in the Samail ophiolite: Comment on ‘Modern water/rock reactions in Oman hyperalkaline peridotite aquifers and implications for microbial habitability’” [Geochim. Cosmochim. Acta 179 (2016) 217–241] journal January 2017
A Deeply Branching Thermophilic Bacterium with an Ancient Acetyl-CoA Pathway Dominates a Subsurface Ecosystem journal January 2012
Weighing the deep continental biosphere journal September 2013
Characterization of Melioribacter roseus gen. nov., sp. nov., a novel facultatively anaerobic thermophilic cellulolytic bacterium from the class Ignavibacteria , and a proposal of a novel bacterial phylum I gnavibacteriae journal January 2013
High pH microbial ecosystems in a newly discovered, ephemeral, serpentinizing fluid seep at YanartaÅŸ (Chimera), Turkey journal January 2015
Bacterial Communities Associated with Subsurface Geochemical Processes in Continental Serpentinite Springs journal April 2013
Assessment of Reductive Acetogenesis with Indigenous Ruminal Bacterium Populations and Acetitomaculum ruminis journal September 1998
Energetics of syntrophic cooperation in methanogenic degradation. journal January 1997
Energy conservation in chemotrophic anaerobic bacteria. journal January 1977
Abiotic Synthesis of Organic Compounds in Deep-Sea Hydrothermal Environments journal May 2007
First principles of terrestrial life: exemplars for potential extra-terrestrial biology journal July 2022
Experimental constraints on the hydrothermal reactivity of organic acids and acid anions: I. Formic acid and formate journal October 2003
Microbiota-accessible carbohydrates suppress Clostridium difficile infection in a murine model journal April 2018
A new intra-aerobic metabolism in the nitrite-dependent anaerobic methane-oxidizing bacterium Candidatus ‘Methylomirabilis oxyfera’ journal January 2011
Methanogens: reevaluation of a unique biological group. journal January 1979
Colonization of plant substrates at hydrothermal vents and cold seeps in the northeast Atlantic and Mediterranean and occurrence of symbiont-related bacteria journal February 2015

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