Opportunities and challenges in studies of deep life (Invited)

NASA Astrophysics Data System (ADS)

Edwards, K. J.

2010-12-01

Over the past two decades, there has been an increasing awareness within the geological, microbiological, and oceanographic communities of the potentially vast microbial biosphere that is harbored beneath the surface of the Earth. With this awareness has come a mounting effort to study this potential biome - to better quantify biomass abundance, activity, and biogeochemical activity. In the Earth system, the largest deep subsurface biome is also the least accessible - the deep ocean subsurface biosphere. The oceanic deep biosphere also has greatest potential for influencing global scale biogeochemical processes -the carbon and energy cycles for example, and other elemental cycles. To address these topics and mount interdisciplinary efforts to study the deep subsurface marine biosphere, we have recently formed a center in support integrative, collaborative investigations. The national science foundation Center for Dark Biosphere Investigations (C-DEBI), has been initiated for the explicit purpose of resolving the extent, function, dynamics and implications of the subseafloor biosphere. This talk will discuss C-DEBI science, with focus on some of the opportunities and challenges in the study of deep life in the ocean, and the role that C-DEBI will play in meeting them

Intraterrestrial life in igneous ocean crust: advances, technologies, and the future (Invited)

NASA Astrophysics Data System (ADS)

Edwards, K. J.; Wheat, C. G.

2010-12-01

The “next frontier” of scientific investigation in the deep sub-seafloor microbial biosphere lies in a realm that has been a completely unexplored until just the past decade: the igneous oceanic crust. Problems that have hampered exploration of the “hard rock” marine deep biosphere have revolved around sample access (hard rock drilling is technologically complex), contamination (a major hurdle), momentum (why take on this challenge when the relatively “easier” marine muds also have been a frontier) and suspicion that microbes in more readily accessed using (simpler) non-drilling technologies - like vents - are truly are endemic of subsurface clades/activities. Since the late 1990’s, however, technologies and resultant studies on microbes in the igneous ocean crust deep biosphere have risen sharply, and offer a new and distinct view on this biome. Moreover, microbiologists are now taking leading roles in technological developments that are critically required to address this biosphere - interfacing and collaborating closely with engineers, genomic biologists, geologists, seismologists, and geochemists to accomplish logistically complex and long-term studies that bring observatory research to this deep realm. The future of this field for the least decade is rich - opportunities abound for microbiologists to play new roles in how we study microbiology in the deep subsurface in an oceanographic and Earth system science perspective.

The deep, hot biosphere: Twenty-five years of retrospection

PubMed Central

Colman, Daniel R.; Poudel, Saroj; Stamps, Blake W.; Boyd, Eric S.; Spear, John R.

2017-01-01

Twenty-five years ago this month, Thomas Gold published a seminal manuscript suggesting the presence of a “deep, hot biosphere” in the Earth’s crust. Since this publication, a considerable amount of attention has been given to the study of deep biospheres, their role in geochemical cycles, and their potential to inform on the origin of life and its potential outside of Earth. Overwhelming evidence now supports the presence of a deep biosphere ubiquitously distributed on Earth in both terrestrial and marine settings. Furthermore, it has become apparent that much of this life is dependent on lithogenically sourced high-energy compounds to sustain productivity. A vast diversity of uncultivated microorganisms has been detected in subsurface environments, and we show that H2, CH4, and CO feature prominently in many of their predicted metabolisms. Despite 25 years of intense study, key questions remain on life in the deep subsurface, including whether it is endemic and the extent of its involvement in the anaerobic formation and degradation of hydrocarbons. Emergent data from cultivation and next-generation sequencing approaches continue to provide promising new hints to answer these questions. As Gold suggested, and as has become increasingly evident, to better understand the subsurface is critical to further understanding the Earth, life, the evolution of life, and the potential for life elsewhere. To this end, we suggest the need to develop a robust network of interdisciplinary scientists and accessible field sites for long-term monitoring of the Earth’s subsurface in the form of a deep subsurface microbiome initiative. PMID:28674200

Novel microbial assemblages inhabiting crustal fluids within mid-ocean ridge flank subsurface basalt

PubMed Central

Jungbluth, Sean P; Bowers, Robert M; Lin, Huei-Ting; Cowen, James P; Rappé, Michael S

2016-01-01

Although little is known regarding microbial life within our planet's rock-hosted deep subseafloor biosphere, boreholes drilled through deep ocean sediment and into the underlying basaltic crust provide invaluable windows of access that have been used previously to document the presence of microorganisms within fluids percolating through the deep ocean crust. In this study, the analysis of 1.7 million small subunit ribosomal RNA genes amplified and sequenced from marine sediment, bottom seawater and basalt-hosted deep subseafloor fluids that span multiple years and locations on the Juan de Fuca Ridge flank was used to quantitatively delineate a subseafloor microbiome comprised of distinct bacteria and archaea. Hot, anoxic crustal fluids tapped by newly installed seafloor sampling observatories at boreholes U1362A and U1362B contained abundant bacterial lineages of phylogenetically unique Nitrospirae, Aminicenantes, Calescamantes and Chloroflexi. Although less abundant, the domain Archaea was dominated by unique, uncultivated lineages of marine benthic group E, the Terrestrial Hot Spring Crenarchaeotic Group, the Bathyarchaeota and relatives of cultivated, sulfate-reducing Archaeoglobi. Consistent with recent geochemical measurements and bioenergetic predictions, the potential importance of methane cycling and sulfate reduction were imprinted within the basalt-hosted deep subseafloor crustal fluid microbial community. This unique window of access to the deep ocean subsurface basement reveals a microbial landscape that exhibits previously undetected spatial heterogeneity. PMID:26872042

Analysis of a PAH-degrading bacterial population in subsurface sediments on the Mid-Atlantic Ridge

NASA Astrophysics Data System (ADS)

Shao, Zongze; Cui, Zhisong; Dong, Chunming; Lai, Qiliang; Chen, Liang

2010-05-01

Little is known about the types and concentrations of polycyclic aromatic hydrocarbons (PAHs) existing in the deep-sea subsurface environment, which is believed to be cold, oligothrophic and of high static pressure. PAHs in the upper layers of the water column are unavoidably subjected to degradation while they are deposited to the sea floor and become embedded in the deep-sea sediment. In this report, a high concentration of PAHs was discovered in the sediment 2.7 m beneath the bottom surface at a water depth of 3962 m on the Mid-Atlantic Ridge (MAR). The total concentration of PAHs was 445 ng (g dry wt sediment) -1. Among the seven detected PAHs, the concentrations of phenanthrene (222 ng g -1) and fluorene (79 ng g -1) were relatively high. In addition, PAH-degrading bacteria were found within the sediments. As in a previously detected site on the MAR, in the PAH-enriched region of this site, a bacterium of the genus Cycloclasticus was found to be the predominant isolate detected by PCR-DGGE analysis. In addition, bacteria of the Halomonas, Marinobacter, Alcanivorax, Thalassospira and Maricaulis genera, were also included in the PAH-degrading community. In summary, a high concentration of PAHs was detected in the subsurface of the deep-sea sediment, and once again, the Cycloclasticus bacterium was confirmed to be a ubiquitous marine PAH degrader even in the subsurface marine environment. Considering the abundance of PAHs therein, biodegradation is thus thought to be inactive, probably because of the low temperature, limited oxygen and/or limited nutrients.

Microbial abundance in the deep subsurface of the Chesapeake Bay impact crater: Relationship to lithology and impact processes

USGS Publications Warehouse

Cockell, Charles S.; Gronstal, Aaron L.; Voytek, Mary A.; Kirshtein, Julie D.; Finster, Kai; Sanford, Ward E.; Glamoclija, Mihaela; Gohn, Gregroy S.; Powars, David S.; Horton, J. Wright

2009-01-01

Asteroid and comet impact events are known to cause profound disruption to surface ecosystems. The aseptic collection of samples throughout a 1.76-km-deep set of cores recovered from the deep subsurface of the Chesapeake Bay impact structure has allowed the study of the subsurface biosphere in a region disrupted by an impactor. Microbiological enumerations suggest the presence of three major microbiological zones. The upper zone (127–867 m) is characterized by a logarithmic decline in microbial abundance from the surface through the postimpact section of Miocene to Upper Eocene marine sediments and across the transition into the upper layers of the impact tsunami resurge sediments and sediment megablocks. In the middle zone (867–1397 m) microbial abundances are below detection. This zone is predominantly quartz sand, primarily composed of boulders and blocks, and it may have been mostly sterilized by the thermal pulse delivered during impact. No samples were collected from the large granite block (1096–1371 m). The lowest zone (below 1397 m) of increasing microbial abundance coincides with a region of heavily impact-fractured, hydraulically conductive suevite and fractured schist. These zones correspond to lithologies influenced by impact processes. Our results yield insights into the influence of impacts on the deep subsurface biosphere.

Potential Physiologies of Deep Branches on the Tree of Life with Deep Subsurface Samples from IODP Leg 347: Baltic Sea Paleoenvironment

NASA Astrophysics Data System (ADS)

Lloyd, K. G.; Bird, J. T.; Shumaker, A.

2014-12-01

Very little is known about how evolutionary branches that are distantly related to cultured microorganisms make a living in the deep subsurface marine environment. Here, sediments are cut-off from surface inputs of organic substrates for tens of thousands of years; yet somehow support a diverse population of microorganisms. We examined the potential metabolic and ecological roles of uncultured archaea and bacteria in IODP Leg 347: Baltic Sea Paleoenvironment samples, using quantitative PCR holes 60B, 63E, 65C, and 59C and single cell genomic analysis for hole 60B. We quantified changes in total archaea and bacteria, as well as deeply-branching archaeal taxa with depth. These sediment cores alternate between high and low salinities, following a glacial cycle. This allows changes in the quantities of these groups to be placed in the context of potentially vastly different organic matter sources. In addition, single cells were isolated, and their genomes were amplified and sequenced to allow a deeper look into potential physiologies of uncultured deeply-branching organisms found up to 86 meters deep in marine sediments. Together, these data provide deeper insight into the relationship between microorganisms and their organic matter substrates in this extreme environments.

Microbes of deep marine sediments as viewed by metagenomics

NASA Astrophysics Data System (ADS)

Biddle, J.

2015-12-01

Ten years after the first deep marine sediment metagenome was produced, questions still exist about the nucleic acid sequences we have retrieved. Current data sets, including the Peru Margin, Costa Rica Margin and Iberian Margin show that consistently, data forms larger assemblies at depth due to the reduced complexity of the microbial community. But are these organisms active or preserved? At SMTZs, a change in the assembly statistics is noted, as well as an increase in cell counts, suggesting that cells are truly active. As depth increases, genome sizes are consistently large, suggesting that much like soil microbes, sedimentary microbes may maintain a larger reportorie of genomic potential. Functional changes are seen with depth, but at many sites are not correlated to specific geochemistries. Individual genomes show changes with depth, which raises interesting questions on how the subsurface is settled and maintained. The subsurface does have a distinct genomic signature, including unusual microbial groups, which we are now able to analyze for total genomic content.

Microbial diversity in Cenozoic sediments recovered from the Lomonosov Ridge in the Central Arctic basin.

PubMed

Forschner, Stephanie R; Sheffer, Roberta; Rowley, David C; Smith, David C

2009-03-01

The current understanding of microbes inhabiting deeply buried marine sediments is based largely on samples collected from continental shelves in tropical and temperate latitudes. The geographical range of marine subsurface coring was expanded during the Integrated Ocean Drilling Program Arctic Coring Expedition (IODP ACEX). This expedition to the ice-covered central Arctic Ocean successfully cored the entire 428 m sediment stack on the Lomonosov Ridge during August and September 2004. The recovered cores vary from siliciclastic sediment low in organic carbon (< 0.2%) to organic rich ( approximately 3%) black sediments that rapidly accumulated in the early middle Eocene. Three geochemical environments were characterized based on chemical analyses of porewater: an upper ammonium oxidation zone, a carbonate dissolution zone and a deep (> 200 m below sea floor) sulfate reduction zone. The diversity of microbes within each zone was assessed using 16S rRNA phylogenetic markers. Bacterial 16S rRNA genes were successfully amplified from each of the biogeochemical zones, while archaea was only amplified from the deep sulfate reduction zone. The microbial communities at each zone are phylogenetically different and are most closely related to those from other deep subsurface environments.

The nature and function of microbial enzymes in subsurface marine sediments

NASA Astrophysics Data System (ADS)

Steen, A. D.; Schmidt, J.

2016-02-01

Isotopic and genomic evidence indicates that marine sediments contain populations of active heterotrophic microorganisms which appear to metabolize old, detrital, apparently recalcitrant organic matter. In surface communities, heterotrophs use extracellular enzymes to access complex organic matter. In subsurface sediments, in which microbial doubling times can be on the order of hundreds or thousands of years, it is not clear whether extracellular enzymes could remain stable and active long enough to constitute a 'profitable' stragtegy for accessing complex organic carbon. Here we present evidence that a wide range of extracellular enzyme are active in subsurface sediments from two different environments: the White Oak River, NC, and deep (up to 80 m) sediments of the Baltic Sea Basin recovered from IODP Expedition 347. In the White Oak River, enzymes from deeper sediments appear to be better-adapted to highly-degraded organic matter than enzymes from surface sediments. In the Baltic Sea, preliminary data suggest that enzymes related to nitrogen acquisition are preferentially expressed. By characterizing the extracellular enzymes present in marine sediments, we hope to achieve a better understanding of the mechanisms that control sedimentary organic matter remineralization and preservation.

Rates and extent of microbial debromination in the deep subseafloor biosphere

NASA Astrophysics Data System (ADS)

Berg, R. D.; Solomon, E. A.; Morris, R. M.

2013-12-01

Recent genomic and porewater geochemical data suggest that reductive dehalogenation of a wide range of halogenated organic compounds could represent an important energy source for deep subseafloor microbial communities. At continental slope sites worldwide, there is a remarkably linear relationship between porewater profiles of ammonium and bromide, indicating that the factors controlling the distribution and rates of dehalogenation have the potential to influence carbon and nitrogen cycling in the deep subsurface biosphere. Though this metabolic pathway could play an important role in the cycling of otherwise refractory pools of carbon and nitrogen in marine sediments and provide energy to microbial communities in the deep subsurface biosphere, the rates and extent of dehalogenation in marine sediments are poorly constrained. Here we report net reaction rate profiles of debromination activity in continental slope sediments, calculated from numerical modeling of porewater bromide profiles from several margins worldwide. The reaction rate profiles indicate three common zones of debromination activity in slope sediments: 1) low rates of debromination, and a potential bromine sink, in the upper sediment column correlating to the sulfate reduction zone, with net bromide removal rates from -3.6 x 10^-2 to -4.85 x 10^-1 μmol m^-2 yr^-1, 2) high rates of debromination from the sulfate-methane transition zone to ~40-100 mbsf, with net bromide release rates between 7.1 x 10^-2 to 3.9 x 10^-1 μmol m^-2 yr^-1, and 3) an inflection point at ~40-100 mbsf, below which net rates of debromination decrease by an order of magnitude and at several sites are indistinguishable from zero. These results indicate that dehalogenating activity is widely distributed in marine sediments, providing energy to fuel deep subseafloor microbial communities, with potentially important consequences for the global bromine and nitrogen cycles.

Ecogenomic characterization of a marine microorganism belonging to a Firmicutes lineage that is widespread in both terrestrial and oceanic subsurface environments

NASA Astrophysics Data System (ADS)

Jungbluth, S.; Glavina del Rio, T.; Tringe, S. G.; Stepanauskas, R.; Rappe, M. S.

2015-12-01

Large-volumes of basalt-hosted fluids from the sediment-covered subseafloor were collected in July 2011 from a horizon extending 29-117 meters below the sediment-rock interface at borehole 1362B, as well as from a deep horizon extending 193-292 meters below the sediment-rock interface at borehole 1362A, which are two of the latest generation of borehole observatories on the Juan de Fuca Ridge flank in the Northeast Pacific Ocean. Environmental DNA was sequenced from one fluid sample collected from each borehole, and a genomic bin related to the terrestrial Candidatus Desulforudis audaxviator lineage within the Firmicutes phylum of bacteria was identified. The near-complete bacterial genome, herein named Candidatus Desulfopertinax inferamarinus, is composed of six scaffolds totaling 1.78 Mbp in length. Despite vast differences in geography and environment of origin, phylogenomic analysis indicate that D. inferamarinus and D. audaxviator form a monophyletic clade to the exclusion of all other sequenced genomes. Similar to its terrestrial relative, the draft genome of the marine D. inferamarinus revealed a motile, sporulating, sulfate-reducing, chemoautotrophic thermophile that is capable of synthesizing all amino acids and fixing inorganic carbon via the Wood-Ljungdahl pathway. Unlike the terrestrial clade, relatively few integrases and transposases were identified. The marine genome described here provides evidence that a life-style adapted to the isolated deep subsurface environment is a general feature of the broader, globally-distributed Desulforudis/Desulfopertinax lineage and provides insight into the adaptations required for microbial life in the marine versus terrestrial deep biospheres.

Microbial production and oxidation of methane in deep subsurface

NASA Astrophysics Data System (ADS)

Kotelnikova, Svetlana

2002-10-01

The goal of this review is to summarize present studies on microbial production and oxidation of methane in the deep subterranean environments. Methane is a long-living gas causing the "greenhouse" effect in the planet's atmosphere. Earlier, the deep "organic carbon poor" subsurface was not considered as a source of "biogenic" methane. Evidence of active methanogenesis and presence of viable methanogens including autotrophic organisms were obtained for some subsurface environments including water-flooded oil-fields, deep sandy aquifers, deep sea hydrothermal vents, the deep sediments and granitic groundwater at depths of 10 to 2000 m below sea level. As a rule, the deep subterranean microbial populations dwell at more or less oligotrophic conditions. Molecular hydrogen has been found in a variety of subsurface environments, where its concentrations were significantly higher than in the tested surface aquatic environments. Chemolithoautotrophic microorganisms from deep aquifers that could grow on hydrogen and carbon dioxide can act as primary producers of organic carbon, initiating heterotrophic food chains in the deep subterranean environments independent of photosynthesis. "Biogenic" methane has been found all over the world. On the basis of documented occurrences, gases in reservoirs and older sediments are similar and have the isotopic character of methane derived from CO 2 reduction. Groundwater representing the methanogenic end member are characterized by a relative depletion of dissolved organic carbon (DOC) in combination with an enrichment in 13C in inorganic carbon, which is consistent with the preferential reduction of 12CO 2 by autotrophic methanogens or acetogens. The isotopic composition of methane formed via CO 2 reduction is controlled by the δ13C of the original CO 2 substrate. Literature data shows that CH 4 as heavy as -40‰ or -50‰ can be produced by the microbial reduction of isotopically heavy CO 2. Produced methane may be oxidized microbially to carbon dioxide. Microbial methane oxidation is a biogeochemical process that limits the release of methane, a greenhouse gas from anaerobic environments. Anaerobic methane oxidation plays an important role in marine sediments. Similar processes may take place in deep subsurface and thus fuel the deep microbial community. Organisms or consortia responsible for anaerobic methane oxidation have not yet been cultured, although diverse aerobic methanotrophs have been isolated from a variety of underground niches. The presence of aerobic methanotrophs in the anoxic subsurface remains to be explained. The presence of methane in the deep subsurface have been shown all over the world. The flux of gases between the deep subsurface and the atmosphere is driven by the concentration gradient from depth to the atmosphere. However, methane is consumed by methanotrophs on the way of its evolution in oxidized environments and is transformed to organic form, available for further microbial processing. When the impact of subsurface environments to global warming is estimated, it is necessary to take into account the activity of methane-producing Archaea and methane-oxidizing biofilters in groundwater. Microbial production and oxidation of methane is involved in the carbon cycle in the deep subsurface environments.

The Importance of Subsurface Production for Carbon Export - Evidence from Past Oceans

NASA Astrophysics Data System (ADS)

Kemp, A. E. S.

2016-02-01

The maxim of the geological concept of uniformitarianism is "the present is the key to the past", but in the context of our temporally and spatially minimal observational record of modern ocean biogeochemical processes, ancient ocean sediments may provide critical evidence of the key species involved in carbon flux. Specifically, laminated marine sediments that preserve the seasonal flux cycle represent "palaeo-sediment traps" that vastly expand our knowledge of the operations of the marine biological carbon pump. Several key subsurface-dwelling diatom taxa, hitherto thought to be biogeochemically insignificant, are dominant components of ancient marine sediments. For example, the sapropels and equivalent horizons that have accumulated in the Mediterranean over the past 5 million years, contain abundant rhizosolenid and hemiaulid diatoms. These deposits contain the highest concentrations of organic carbon and there is extensive evidence that this was produced by subsurface production in a deep chlorophyll maximum. The highly stratified conditions that led to this subsurface production and carbon flux are in contrast to prevailing views that have held upwelling systems as those with the highest potential for export in the global ocean. Similarly, studies of ancient "greenhouse" periods such as the Cretaceous, with highly stratified oceans and which are potential analogues for future climate change, show evidence for extensive subsurface production. Together with emerging evidence from stratified regions of the modern ocean, such as the subtropical gyres, insights from these ancient oceans suggest that a reappraisal is required of current views on key phytoplankton producers and their role the operation of the marine biological carbon pump.

Estimating growth rates of uncultivated clades of archaea and bacteria in marine sediments

NASA Astrophysics Data System (ADS)

Lloyd, K. G.

2016-12-01

The vast majority of microbes present in marine sediments have never been cultivated in laboratory conditions. It is therefore difficult to estimate the growth rates of these organisms in situ. Quantitative PCR (qPCR) and 16S rRNA gene libraries from sediments below 10 cm show very little change in abundance of these organisms with depth or with redox conditions. Therefore, we hypothesized that uncultivated clades of bacteria and archaea that are ubiquitous in marine sediments, actually grow in the upper 10 cm of marine sediments. We collected sediment cores from the White Oak River estuary, sectioned them in 1 cm intervals, and examined the changes in abundance of uncultivated microbes with depth using 16S rRNA gene libraries and qPCR. We found that some of the key clades associated with the deep subsurface microbiome, such as Bathyarchaeota and MBG-D, increase in abundance with depth, demonstrating extremely slow growth in these shallow subsurface sediments.

Carboxydotrophy potential of uncultivated Hydrothermarchaeota from the oceanic crust deep biosphere

NASA Astrophysics Data System (ADS)

Carr, S. A.; Jungbluth, S.; Rappe, M. S.; Orcutt, B.

2017-12-01

The marine sedimentary and crustal subsurface biospheres harbor many uncultured microorganisms, including those belonging to Hydrothermarchaeota, formerly known as Marine Benthic Group E. SSU rRNA sequences of Hydrothermarchaeota have been identified in marine sediments across the globe, often in low abundance. Recently, crustal fluids from two subseafloor borehole observatories located on the eastern flank of the Juan de Fuca Ridge (i.e., CORKs at IODP Holes U1362A and U1362B), were collected for single-cell and metagenomic analyses. Both techniques revealed Hydrothermarchaeota to be prevalent in this system. Collectively, single-cell amplified genomes (SAGs) and metagenome-assembled genomes (MAGs) depict Hydrothermarchaeota as opportunists, potentially capable of dissimilative and assimilative carboxydotrophy, sulfate reduction, thiosulfate reduction, nitrate reduction, chemotaxis, and motility. We propose that this diverse suit of metabolic potential may be advantageous for the hydrologically and geochemically dynamic subsurface crustal aquifer, an environment thought to be energy and nutrient limited.

Active Marine Subsurface Bacterial Population Composition in Low Organic Carbon Environments from IODP Expedition 320

NASA Astrophysics Data System (ADS)

Shepard, A.; Reese, B. K.; Mills, H. J.; IODP Expedition 320 Shipboard Science Party

2011-12-01

The marine subsurface environment contains abundant and active microorganisms. These microbial populations are considered integral players in the marine subsurface biogeochemical system with significance in global geochemical cycles and reservoirs. However, variations in microbial community structure, activity and function associated with the wide-ranging sedimentary and geochemical environments found globally have not been fully resolved. Integrated Ocean Drilling Program Expedition 320 recovered sediments from site U1332. Two sampling depths were selected for analysis that spanned differing lithological units in the sediment core. Sediments were composed of mostly clay with zeolite minerals at 8 meters below sea floor (mbsf). At 27 mbsf, sediments were composed of alternating clayey radiolarian ooze and nannofossil ooze. The concentration of SO42- had little variability throughout the core and the concentration of Fe2+ remained close to, or below, detection limits (0.4 μM). Total organic carbon content ranged from a low of 0.03 wt% to a high of 0.07 wt% between 6 and 30 mbsf providing an opportunity to evaluate marine subsurface microbial communities under extreme electron donor limiting conditions. The metabolically active fraction of the bacterial population was isolated by the extraction and amplification of 16S ribosomal RNA. Pyrosequencing of 16S rRNA transcripts and subsequent bioinformatic analyses provided a robust data set (15,931 total classified sequences) to characterize the community at a high resolution. As observed in other subsurface environments, the overall diversity of active bacterial populations decreased with depth. The population shifted from a diverse but evenly distributed community at approximately 8 mbsf to a Firmicutes dominated population at 27 mbsf (80% of sequences). A total of 95% of the sequences at 27 mbsf were grouped into three genera: Lactobacillus (phylum Firmicutes) at 80% of the total sequences, Marinobacter (phylum Proteobacteria) at 8%, and Formosa (phylum Bacteroidetes) at 7%. These lineages support a paradigm suggesting the importance of fermentation in the subsurface. However, this study extends the predicted range for fermentation below the shallow subsurface and into organic carbon limited marine sediments. Other previously characterized subsurface active populations from environments with higher organic carbon concentrations do not show similar levels of reduced diversity or predominance of fermentative populations. This study further emphasizes the spatial variability of microbial populations in the deep subsurface and highlights the need for continued exploration.

Single cell genomic study of Dehalococcoidites in deep sea sediments of Peru Margin 1230

NASA Astrophysics Data System (ADS)

Kaster, A.; Meyer-Blackwell, K.; Spormann, A. M.

2013-12-01

Dehalogenating Chloroflexi, such as Dehalococcoidites Dhc were originally discovered as the key microorganisms mediating reductive dehalogenation of the prevalent groundwater contaminants tetrachloroethene and trichloroethene. Molecular and genomic studies on their key enzymes for energy conservation, reductive dehalogenases rdh, have provided evidence for ubiquitous horizontal gene transfer. A pioneering study by Futagami et al. discovered novel putative rdh phylotypes in sediments from the Pacific, revealing an unknown and surprising abundance of rdh genes in pristine habitats. The frequent detection of Dhc-related 16S rRNA genes from these environments implied the occurrence of dissimilatory dehalorespiration in marine subsurface sediments, however, pristine Dhc could never be linked to this activity. Despite being ubiquitous in those environments, metabolic life style or ecological function of Dhc in the absence of anthropogenic contaminants is still completely unknown. We therefore analyzed a non-contaminated deep sea sediment sample of the Peru Margin 1230 site by a single cell genomic (SGC) approach. We present for the first time data on three single Dhc cells, helping to elucidate their role in the poorly understood oligotrophic marine sub-surface environment.

Temperature and pressure adaptation of a sulfate reducer from the deep subsurface

PubMed Central

Fichtel, Katja; Logemann, Jörn; Fichtel, Jörg; Rullkötter, Jürgen; Cypionka, Heribert; Engelen, Bert

2015-01-01

Microbial life in deep marine subsurface faces increasing temperatures and hydrostatic pressure with depth. In this study, we have examined growth characteristics and temperature-related adaptation of the Desulfovibrio indonesiensis strain P23 to the in situ pressure of 30 MPa. The strain originates from the deep subsurface of the eastern flank of the Juan de Fuca Ridge (IODP Site U1301). The organism was isolated at 20°C and atmospheric pressure from ~61°C-warm sediments approximately 5 m above the sediment–basement interface. In comparison to standard laboratory conditions (20°C and 0.1 MPa), faster growth was recorded when incubated at in situ pressure and high temperature (45°C), while cell filamentation was induced by further compression. The maximum growth temperature shifted from 48°C at atmospheric pressure to 50°C under high-pressure conditions. Complementary cellular lipid analyses revealed a two-step response of membrane viscosity to increasing temperature with an exchange of unsaturated by saturated fatty acids and subsequent change from branched to unbranched alkyl moieties. While temperature had a stronger effect on the degree of fatty acid saturation and restructuring of main phospholipids, pressure mainly affected branching and length of side chains. The simultaneous decrease of temperature and pressure to ambient laboratory conditions allowed the cultivation of our moderately thermophilic strain. This may in turn be one key to a successful isolation of microorganisms from the deep subsurface adapted to high temperature and pressure. PMID:26500624

Depositionally controlled recycling of iron and sulfur in marine sediments and its isotopic consequences

NASA Astrophysics Data System (ADS)

Riedinger, N.; Formolo, M.; Arnold, G. L.; Vossmeyer, A.; Henkel, S.; Sawicka, J.; Kasten, S.; Lyons, T. W.

2011-12-01

The continental margin off Uruguay and Argentina is characterized by highly dynamic depositional conditions. This variable depositional regime significantly impacts the biogeochemical cycles of iron and sulfur. Mass deposit related redeposition of reduced minerals can lead to the reoxidation of these phases and thus to an overprint of their geochemical primary signatures. Due to rapid burial these oxidized phases are still present in deeper subsurface sediments. To study the effects of sediment relocation on the sulfur and iron inventory we collected shallow and deep subsurface sediment samples via multicorer and gravity cores, respectively, in the western Argentine Basin during the RV Meteor Expedition M78/3 in May-July 2009. The samples were retrieved from shelf, slope and deep basin sites. The concentration and sulfur isotope composition of acid volatile sulfur (AVS), chromium reducible sulfur (CRS), elemental sulfur and total organic sulfur were determined. Furthermore, sequential iron extraction techniques were applied assess the distribution of iron oxide phases within the sediment. The investigated sediments are dominated by terrigenous inputs, with high amounts of reactive ferric iron minerals and only low concentrations of calcium carbonate. Total organic carbon concentrations show strong variation in the shallow subsurface sediments ranging between approximately 0.7 and 6.4 wt% for different sites. These concentrations do not correlate with water depths. Pore water accumulations of hydrogen sulfide are restricted to an interval at the sulfate-methane transition (SMT) zone a few meters below the sediment surface. In these deeper subsurface sediments pyrite is precipitated in this zone of hydrogen sulfide excess, whereas the accumulation of authigenic AVS and elemental sulfur (up to 2000 ppm) occurs at the upper and lower boundary of the sulfidic zone due the reaction of iron oxides with limited amounts of sulfide. Furthermore, our preliminary results indicate that there is a link between modern deposition in the shallow subsurface sediments and the long-term signals being buried and preserved in the deep subsurface layers. The data show that the burial of elemental sulfur into deep subsurface sediments can fuel the deep biosphere and has consequences for isotopic overprints tied, for example, to oxidation and disproportionation processes in the deeper sediments.

Sources of dissolved salts in the central Murray Basin, Australia

USGS Publications Warehouse

Jones, B.F.; Hanor, J.S.; Evans, W.R.

1994-01-01

Large areas of the Australian continent contain scattered saline lakes underlain by shallow saline groundwaters of regional extent and debated origin. The normative salt composition of subsurface pore fluids extracted by squeezing cores collected during deep drilling at Piangil West 2 in the central Murray Basin in southeastern Australia, and of surface and shallow subsurface brines produced by subaerial evaporation in the nearby Lake Tyrrell systems, helps constrain interpretation of the origin of dissolved solutes in the groundwaters of this part of the continent. Although regional sedimentation in the Murray Basin has been dominantly continental except for a marine transgression in Oligocene-Pliocene time, most of the solutes in saline surface and subsurface waters in the central Murray Basin have a distinctly marine character. Some of the Tyrrell waters, to the southwest of Piangil West 2, show the increase in NaCl and decrease in sulfate salts expected with evaporative concentration and gypsum precipitation in an ephemeral saline lake or playa environment. The salt norms for most of the subsurface saline waters at Piangil West 2 are compatible with the dilution of variably fractionated marine bitterns slightly depleted in sodium salts, similar to the more evolved brines at Lake Tyrrell, which have recharged downward after evaporation at the surface and then dissolved a variable amount of gypsum at depth. Apparently over the last 0.5 Ma significant quantities of marine salt have been blown into the Murray Basin as aerosols which have subsequently been leached into shallow regional groundwater systems basin-wide, and have been transported laterally into areas of large evaporative loss in the central part of the basin. This origin for the solutes helps explain why the isotopic compositions of most of the subsurface saline waters at Piangil West 2 have a strong meteoric signature, whereas the dissolved salts in these waters appear similar to a marine assemblage. ?? 1994.

Under the sea: microbial life in volcanic oceanic crust.

PubMed

Edwards, Katrina J; Wheat, C Geoffrey; Sylvan, Jason B

2011-09-06

Exploration of the microbiology in igneous, 'hard rock' oceanic crust represents a major scientific frontier. The igneous crust harbours the largest aquifer system on Earth, most of which is hydrologically active, resulting in a substantial exchange of fluids, chemicals and microorganisms between oceanic basins and crustal reservoirs. Study of the deep-subsurface biosphere in the igneous crust is technically challenging. However, technologies have improved over the past decade, providing exciting new opportunities for the study of deep-seated marine life, including in situ and cross-disciplinary experimentation in microbiology, geochemistry and hydrogeology. In this Progress article, we describe the recent advances, available technology and remaining challenges in the study of the marine intraterrestrial microbial life that is harboured in igneous oceanic crust.

Depth Distribution and Assembly of Sulfate-Reducing Microbial Communities in Marine Sediments of Aarhus Bay

PubMed Central

Jochum, Lara M.; Chen, Xihan; Lever, Mark A.; Loy, Alexander; Jørgensen, Bo Barker; Schramm, Andreas

2017-01-01

ABSTRACT Most sulfate-reducing microorganisms (SRMs) present in subsurface marine sediments belong to uncultured groups only distantly related to known SRMs, and it remains unclear how changing geochemical zones and sediment depth influence their community structure. We mapped the community composition and abundance of SRMs by amplicon sequencing and quantifying the dsrB gene, which encodes dissimilatory sulfite reductase subunit beta, in sediment samples covering different vertical geochemical zones ranging from the surface sediment to the deep sulfate-depleted subsurface at four locations in Aarhus Bay, Denmark. SRMs were present in all geochemical zones, including sulfate-depleted methanogenic sediment. The biggest shift in SRM community composition and abundance occurred across the transition from bioturbated surface sediments to nonbioturbated sediments below, where redox fluctuations and the input of fresh organic matter due to macrofaunal activity are absent. SRM abundance correlated with sulfate reduction rates determined for the same sediments. Sulfate availability showed a weaker correlation with SRM abundances and no significant correlation with the composition of the SRM community. The overall SRM species diversity decreased with depth, yet we identified a subset of highly abundant community members that persists across all vertical geochemical zones of all stations. We conclude that subsurface SRM communities assemble by the persistence of members of the surface community and that the transition from the bioturbated surface sediment to the unmixed sediment below is a main site of assembly of the subsurface SRM community. IMPORTANCE Sulfate-reducing microorganisms (SRMs) are key players in the marine carbon and sulfur cycles, especially in coastal sediments, yet little is understood about the environmental factors controlling their depth distribution. Our results suggest that macrofaunal activity is a key driver of SRM abundance and community structure in marine sediments and that a small subset of SRM species of high relative abundance in the subsurface SRM community persists from the sulfate-rich surface sediment to sulfate-depleted methanogenic subsurface sediment. More generally, we conclude that SRM communities inhabiting the subsurface seabed assemble by the selective survival of members of the surface community. PMID:28939599

In situ Detection of Microbial Life in the Deep Biosphere in Igneous Ocean Crust.

PubMed

Salas, Everett C; Bhartia, Rohit; Anderson, Louise; Hug, William F; Reid, Ray D; Iturrino, Gerardo; Edwards, Katrina J

2015-01-01

The deep biosphere is a major frontier to science. Recent studies have shown the presence and activity of cells in deep marine sediments and in the continental deep biosphere. Volcanic lavas in the deep ocean subsurface, through which substantial fluid flow occurs, present another potentially massive deep biosphere. We present results from the deployment of a novel in situ logging tool designed to detect microbial life harbored in a deep, native, borehole environment within igneous oceanic crust, using deep ultraviolet native fluorescence spectroscopy. Results demonstrate the predominance of microbial-like signatures within the borehole environment, with densities in the range of 10(5) cells/mL. Based on transport and flux models, we estimate that such a concentration of microbial cells could not be supported by transport through the crust, suggesting in situ growth of these communities.

Linking Metabolism, Elemental Cycles, and Environmental Conditions in the Deep Biosphere: Growth of a Model Extremophile, Archaeoglobus fulgidus, Under High-Pressure Conditions

NASA Astrophysics Data System (ADS)

Oliver, G. C. M.; Cario, A.; Rogers, K. L.

2015-12-01

A majority of Earth's biosphere is hosted in subsurface environments where global-scale biogeochemical and energy cycles are driven by diverse microbial communities that operate on and are influenced by micro-scale environmental variables. While the subsurface hosts a variety of geochemical and geothermal conditions, elevated pressures are common to all subsurface ecosystems. Understanding how microbes adapt to and thrive in high-pressure environments is essential to linking microbial subsurface processes with global-scale cycles. Here we are using a model extremophile, Archaeoglobus fulgidus, to determine how elevated pressures affect the growth, metabolism, and physiology of subsurface microorganisms. A. fulgidus cycles carbon and sulfur via heterotrophic and autotrophic sulfate reduction in various high temperature and high-pressure niches including shallow marine vents, deep-sea hydrothermal vents, and deep oil reservoirs. Here we report the results of A. fulgidus growth experiments at optimum temperature, 83°C, and pressures up to 600 bars. Exponential growth was observed over the entire pressure range, though growth rates were diminished at 500 and 600 bars compared to ambient pressure experimental controls. At pressures up to 400 bars, cell density yields and growth rates were at least as high as ambient pressure controls. Elevated pressures and extended incubation times stimulated cell flocculation, a common stress response in this strain, and cellular morphology was affected at pressures exceeding 400 bars. These results suggest that A. fulgidus continues carbon, sulfur and energy cycling unaffected by elevated pressures up to 400 bars, representing a variety of subsurface environments. The ability of subsurface organisms to drive biogeochemical cycles at elevated pressures is a critical link between the surface and subsurface biospheres and understanding how species-scale processes operate under these conditions is a vital part of global-scale biogeochemical models.

Homoacetogenesis in Deep-Sea Chloroflexi, as Inferred by Single-Cell Genomics, Provides a Link to Reductive Dehalogenation in Terrestrial Dehalococcoidetes.

PubMed

Sewell, Holly L; Kaster, Anne-Kristin; Spormann, Alfred M

2017-12-19

The deep marine subsurface is one of the largest unexplored biospheres on Earth and is widely inhabited by members of the phylum Chloroflexi In this report, we investigated genomes of single cells obtained from deep-sea sediments of the Peruvian Margin, which are enriched in such Chloroflexi 16S rRNA gene sequence analysis placed two of these single-cell-derived genomes (DscP3 and Dsc4) in a clade of subphylum I Chloroflexi which were previously recovered from deep-sea sediment in the Okinawa Trough and a third (DscP2-2) as a member of the previously reported DscP2 population from Peruvian Margin site 1230. The presence of genes encoding enzymes of a complete Wood-Ljungdahl pathway, glycolysis/gluconeogenesis, a Rhodobacter nitrogen fixation (Rnf) complex, glyosyltransferases, and formate dehydrogenases in the single-cell genomes of DscP3 and Dsc4 and the presence of an NADH-dependent reduced ferredoxin:NADP oxidoreductase (Nfn) and Rnf in the genome of DscP2-2 imply a homoacetogenic lifestyle of these abundant marine Chloroflexi We also report here the first complete pathway for anaerobic benzoate oxidation to acetyl coenzyme A (CoA) in the phylum Chloroflexi (DscP3 and Dsc4), including a class I benzoyl-CoA reductase. Of remarkable evolutionary significance, we discovered a gene encoding a formate dehydrogenase (FdnI) with reciprocal closest identity to the formate dehydrogenase-like protein (complex iron-sulfur molybdoenzyme [CISM], DET0187) of terrestrial Dehalococcoides/Dehalogenimonas spp. This formate dehydrogenase-like protein has been shown to lack formate dehydrogenase activity in Dehalococcoides/Dehalogenimonas spp. and is instead hypothesized to couple HupL hydrogenase to a reductive dehalogenase in the catabolic reductive dehalogenation pathway. This finding of a close functional homologue provides an important missing link for understanding the origin and the metabolic core of terrestrial Dehalococcoides/Dehalogenimonas spp. and of reductive dehalogenation, as well as the biology of abundant deep-sea Chloroflexi IMPORTANCE The deep marine subsurface is one of the largest unexplored biospheres on Earth and is widely inhabited by members of the phylum Chloroflexi In this report, we investigated genomes of single cells obtained from deep-sea sediments and provide evidence for a homacetogenic lifestyle of these abundant marine Chloroflexi Moreover, genome signature and key metabolic genes indicate an evolutionary relationship between these deep-sea sediment microbes and terrestrial, reductively dehalogenating Dehalococcoides . Copyright © 2017 Sewell et al.

Anaerobic consortia of fungi and sulfate reducing bacteria in deep granite fractures.

PubMed

Drake, Henrik; Ivarsson, Magnus; Bengtson, Stefan; Heim, Christine; Siljeström, Sandra; Whitehouse, Martin J; Broman, Curt; Belivanova, Veneta; Åström, Mats E

2017-07-04

The deep biosphere is one of the least understood ecosystems on Earth. Although most microbiological studies in this system have focused on prokaryotes and neglected microeukaryotes, recent discoveries have revealed existence of fossil and active fungi in marine sediments and sub-seafloor basalts, with proposed importance for the subsurface energy cycle. However, studies of fungi in deep continental crystalline rocks are surprisingly few. Consequently, the characteristics and processes of fungi and fungus-prokaryote interactions in this vast environment remain enigmatic. Here we report the first findings of partly organically preserved and partly mineralized fungi at great depth in fractured crystalline rock (-740 m). Based on environmental parameters and mineralogy the fungi are interpreted as anaerobic. Synchrotron-based techniques and stable isotope microanalysis confirm a coupling between the fungi and sulfate reducing bacteria. The cryptoendolithic fungi have significantly weathered neighboring zeolite crystals and thus have implications for storage of toxic wastes using zeolite barriers.Deep subsurface microorganisms play an important role in nutrient cycling, yet little is known about deep continental fungal communities. Here, the authors show organically preserved and partly mineralized fungi at 740 m depth, and find evidence of an anaerobic fungi and sulfate reducing bacteria consortium.

Comparative Single-Cell Genomics of Chloroflexi from the Okinawa Trough Deep-Subsurface Biosphere.

PubMed

Fullerton, Heather; Moyer, Craig L

2016-05-15

Chloroflexi small-subunit (SSU) rRNA gene sequences are frequently recovered from subseafloor environments, but the metabolic potential of the phylum is poorly understood. The phylum Chloroflexi is represented by isolates with diverse metabolic strategies, including anoxic phototrophy, fermentation, and reductive dehalogenation; therefore, function cannot be attributed to these organisms based solely on phylogeny. Single-cell genomics can provide metabolic insights into uncultured organisms, like the deep-subsurface Chloroflexi Nine SSU rRNA gene sequences were identified from single-cell sorts of whole-round core material collected from the Okinawa Trough at Iheya North hydrothermal field as part of Integrated Ocean Drilling Program (IODP) expedition 331 (Deep Hot Biosphere). Previous studies of subsurface Chloroflexi single amplified genomes (SAGs) suggested heterotrophic or lithotrophic metabolisms and provided no evidence for growth by reductive dehalogenation. Our nine Chloroflexi SAGs (seven of which are from the order Anaerolineales) indicate that, in addition to genes for the Wood-Ljungdahl pathway, exogenous carbon sources can be actively transported into cells. At least one subunit for pyruvate ferredoxin oxidoreductase was found in four of the Chloroflexi SAGs. This protein can provide a link between the Wood-Ljungdahl pathway and other carbon anabolic pathways. Finally, one of the seven Anaerolineales SAGs contains a distinct reductive dehalogenase homologous (rdhA) gene. Through the use of single amplified genomes (SAGs), we have extended the metabolic potential of an understudied group of subsurface microbes, the Chloroflexi These microbes are frequently detected in the subsurface biosphere, though their metabolic capabilities have remained elusive. In contrast to previously examined Chloroflexi SAGs, our genomes (several are from the order Anaerolineales) were recovered from a hydrothermally driven system and therefore provide a unique window into the metabolic potential of this type of habitat. In addition, a reductive dehalogenase gene (rdhA) has been directly linked to marine subsurface Chloroflexi, suggesting that reductive dehalogenation is not limited to the class Dehalococcoidia This discovery expands the nutrient-cycling and metabolic potential present within the deep subsurface and provides functional gene information relating to this enigmatic group. Copyright © 2016 Fullerton and Moyer.

Tropical North Atlantic subsurface warming events as a fingerprint for AMOC variability during Marine Isotope Stage 3

NASA Astrophysics Data System (ADS)

Parker, Andrew O.; Schmidt, Matthew W.; Chang, Ping

2015-11-01

The role of Atlantic Meridional Overturning Circulation (AMOC) as the driver of Dansgaard-Oeschger (DO) variability that characterized Marine Isotope Stage 3 (MIS 3) has long been hypothesized. Although there is ample proxy evidence suggesting that DO events were robust features of glacial climate, there is little data supporting a link with AMOC. Recently, modeling studies and subsurface temperature reconstructions have suggested that subsurface warming across the tropical North Atlantic can be used to fingerprint a weakened AMOC during the deglacial because a reduction in the strength of the western boundary current allows warm salinity maximum water of the subtropical gyre to enter the deep tropics. To determine if AMOC variability played a role during the DO cycles of MIS 3, we present new, high-resolution Mg/Ca and δ18O records spanning 24-52 kyr from the near-surface dwelling planktonic foraminifera Globigerinoides ruber and the lower thermocline dwelling planktonic foraminifera Globorotalia truncatulinoides in Southern Caribbean core VM12-107 (11.33°N, 66.63°W, 1079 m depth). Our subsurface Mg/Ca record reveals abrupt increases in Mg/Ca ratios (the largest equal to a 4°C warming) during the interstadial-stadial transition of most DO events during this period. This change is consistent with reconstructions of subsurface warming events associated with cold events across the deglacial using the same core. Additionally, our data support the conclusion reached by a recently published study from the Florida Straits that AMOC did not undergo significant reductions during Heinrich events 2 and 3. This record presents some of the first high-resolution marine sediment derived evidence for variable AMOC during MIS 3.

In situ Detection of Microbial Life in the Deep Biosphere in Igneous Ocean Crust

PubMed Central

Salas, Everett C.; Bhartia, Rohit; Anderson, Louise; Hug, William F.; Reid, Ray D.; Iturrino, Gerardo; Edwards, Katrina J.

2015-01-01

The deep biosphere is a major frontier to science. Recent studies have shown the presence and activity of cells in deep marine sediments and in the continental deep biosphere. Volcanic lavas in the deep ocean subsurface, through which substantial fluid flow occurs, present another potentially massive deep biosphere. We present results from the deployment of a novel in situ logging tool designed to detect microbial life harbored in a deep, native, borehole environment within igneous oceanic crust, using deep ultraviolet native fluorescence spectroscopy. Results demonstrate the predominance of microbial-like signatures within the borehole environment, with densities in the range of 105 cells/mL. Based on transport and flux models, we estimate that such a concentration of microbial cells could not be supported by transport through the crust, suggesting in situ growth of these communities. PMID:26617595

Fungal diversity from deep marine subsurface sediments (IODP 317, Canterbury Basin, New Zealand)

NASA Astrophysics Data System (ADS)

Redou, V.; Arzur, D.; Burgaud, G.; Barbier, G.

2012-12-01

Recent years have seen a growing interest regarding micro-eukaryotic communities in extreme environments as a third microbial domain after Bacteria and Archaea. However, knowledge is still scarce and the diversity of micro-eukaryotes in such environments remains hidden and their ecological role unknown. Our research program is based on the deep sedimentary layers of the Canterbury Basin in New Zealand (IODP 317) from the subsurface to the record depth of 1884 meters below seafloor. The objectives of our study are (i) to assess the genetic diversity of fungi in deep-sea sediments and (ii) identify the functional part in order to better understand the origin and the ecological role of fungal communities in this extreme ecosystem. Fingerprinting-based methods using capillary electrophoresis single-strand conformation polymorphism and denaturing high-performance liquid chromatography were used as a first step to raise our objectives. Molecular fungal diversity was assessed using amplification of ITS1 (Internal Transcribed Spacer 1) as a biomarker on 11 samples sediments from 3.76 to 1884 meters below seafloor. Fungal molecular signatures were detected throughout the sediment core. The phyla Ascomycota and Basidiomycota were revealed with DNA as well as cDNA. Most of the phylotypes are affiliated to environmental sequences and some to common fungal cultured species. The discovery of a present and metabolically active fungal component in this unique ecosystem allows some interesting first hypotheses that will be further combined to culture-based methods and deeper molecular methods (454 pyrosequencing) to highlight essential informations regarding physiology and ecological role of fungal communities in deep marine sediments.

Snow on the Seafloor? Methods to Detect Carbohydrates in Deep-sea Sediments Impacted by the Deepwater Horizon Oil Spill

NASA Astrophysics Data System (ADS)

Lincoln, S. A.; Freeman, K. H.

2015-12-01

A significant portion of the oil released from the Macondo well after the 2010 Deepwater Horizon (DwH) explosion reached the seafloor (1,2). The transfer of buoyant hydrocarbons from the sea surface and subsurface plumes to depths >1500 m, however, is not well understood. A prominent role for sinking marine snow--small, composite particles composed largely of extracellular polymeric substances exuded by algae and bacteria--has been proposed. Snow particles, rich in carbohydrates, may have sorbed and physically entrained oil from the water column as they sank. Several lines of evidence support this scenario: abundant snow was observed 3-4 weeks after the oil spill (3); oil and dispersants can induce marine snow formation (4); and flocculent material covering deep-sea corals near the DwH site contained biomarkers consistent with Macondo oil (5). To investigate whether the chemically complex marine oil snow leaves a direct sedimentary record, we analyzed carbohydrates at high resolution (2 mm intervals) in sediment cores collected at 4 sites in the northern Gulf of Mexico in 2013 using a modified phenol-sulfuric acid spectrophotometric method. We detected a sharp subsurface peak in carbohydrate concentrations near the Macondo well; we interpret this peak as post-DwH marine snow. Coeval carbohydrate, polycyclic aromatic hydrocarbon, and hopane profiles suggest a clear link between marine snow and Macondo oil components, as documented in a 3-year time-series at one site, and enable preliminary conclusions about the delivery and fate of marine snow components in sediments. We also characterized carbohydrates near the wellhead using fluorescent lectin-binding analyses developed for applications in cell biology. Particle morphologies include collapse structures suggestive of a water column origin. Finally, we explore the extent to which polysaccharide residues detected with selective lectins can be used to determine the provenance of marine snow (e.g., bacterial v. algal). (1) Valentine et al., 2014. PNAS 111, 15906-15911. (2) Romero et al., 2015. PLOS One 10(5): e0128371 (3) Passow et al., ERL 7, 035301. (4) Passow, 2014. Deep-Sea Res. II, http://dx.doi. org/10.1016/j.dsr2.2014.10.001i (5) White et al., 2012. PNAS 109(50), 20303-20308.

Reduced ventilation and enhanced magnitude of the deep Pacific carbon pool during the last glacial period

NASA Astrophysics Data System (ADS)

Skinner, L.; McCave, I. N.; Carter, L.; Fallon, S.; Scrivner, A. E.; Primeau, F.

2015-02-01

It has been proposed that the ventilation of the deep Pacific carbon pool was not significantly reduced during the last glacial period, posing a problem for canonical theories of glacial-interglacial CO2 change. However, using radiocarbon dates of marine tephra deposited off New Zealand, we show that deep- (> 2000 m) and shallow sub-surface ocean-atmosphere 14C age offsets (i.e. "reservoir-" or "ventilation" ages) in the southwest Pacific increased by ˜1089 and 337 yrs respectively, reaching ˜2689 and ˜1037 yrs during the late glacial. A comparison with other radiocarbon data from the southern high-latitudes suggests that broadly similar changes were experienced right across the Southern Ocean. If, like today, the Southern Ocean was the main source of water to the glacial ocean interior, these observations would imply a significant change in the global radiocarbon inventory during the last glacial period, possibly equivalent to an increase in the average radiocarbon age > 2 km of ˜ 700 yrs. Simple mass balance arguments and numerical model sensitivity tests suggest that such a change in the ocean's mean radiocarbon age would have had a major impact on the marine carbon inventory and atmospheric CO2, possibly accounting for nearly half of the glacial-interglacial CO2 change. If confirmed, these findings would underline the special role of high latitude shallow sub-surface mixing and air-sea gas exchange in regulating atmospheric CO2 during the late Pleistocene.

Metagenome sequencing and 98 microbial genomes from Juan de Fuca Ridge flank subsurface fluids

NASA Astrophysics Data System (ADS)

Jungbluth, Sean P.; Amend, Jan P.; Rappé, Michael S.

2017-03-01

The global deep subsurface biosphere is one of the largest reservoirs for microbial life on our planet. This study takes advantage of new sampling technologies and couples them with improvements to DNA sequencing and associated informatics tools to reconstruct the genomes of uncultivated Bacteria and Archaea from fluids collected deep within the Juan de Fuca Ridge subseafloor. Here, we generated two metagenomes from borehole observatories located 311 meters apart and, using binning tools, retrieved 98 genomes from metagenomes (GFMs). Of the GFMs, 31 were estimated to be >90% complete, while an additional 17 were >70% complete. Phylogenomic analysis revealed 53 bacterial and 45 archaeal GFMs, of which nearly all were distantly related to known cultivated isolates. In the GFMs, abundant Bacteria included Chloroflexi, Nitrospirae, Acetothermia (OP1), EM3, Aminicenantes (OP8), Gammaproteobacteria, and Deltaproteobacteria, while abundant Archaea included Archaeoglobi, Bathyarchaeota (MCG), and Marine Benthic Group E (MBG-E). These data are the first GFMs reconstructed from the deep basaltic subseafloor biosphere, and provide a dataset available for further interrogation.

Metagenome sequencing and 98 microbial genomes from Juan de Fuca Ridge flank subsurface fluids.

PubMed

Jungbluth, Sean P; Amend, Jan P; Rappé, Michael S

2017-03-28

The global deep subsurface biosphere is one of the largest reservoirs for microbial life on our planet. This study takes advantage of new sampling technologies and couples them with improvements to DNA sequencing and associated informatics tools to reconstruct the genomes of uncultivated Bacteria and Archaea from fluids collected deep within the Juan de Fuca Ridge subseafloor. Here, we generated two metagenomes from borehole observatories located 311 meters apart and, using binning tools, retrieved 98 genomes from metagenomes (GFMs). Of the GFMs, 31 were estimated to be >90% complete, while an additional 17 were >70% complete. Phylogenomic analysis revealed 53 bacterial and 45 archaeal GFMs, of which nearly all were distantly related to known cultivated isolates. In the GFMs, abundant Bacteria included Chloroflexi, Nitrospirae, Acetothermia (OP1), EM3, Aminicenantes (OP8), Gammaproteobacteria, and Deltaproteobacteria, while abundant Archaea included Archaeoglobi, Bathyarchaeota (MCG), and Marine Benthic Group E (MBG-E). These data are the first GFMs reconstructed from the deep basaltic subseafloor biosphere, and provide a dataset available for further interrogation.

Metagenome sequencing and 98 microbial genomes from Juan de Fuca Ridge flank subsurface fluids

PubMed Central

Jungbluth, Sean P.; Amend, Jan P.; Rappé, Michael S.

2017-01-01

The global deep subsurface biosphere is one of the largest reservoirs for microbial life on our planet. This study takes advantage of new sampling technologies and couples them with improvements to DNA sequencing and associated informatics tools to reconstruct the genomes of uncultivated Bacteria and Archaea from fluids collected deep within the Juan de Fuca Ridge subseafloor. Here, we generated two metagenomes from borehole observatories located 311 meters apart and, using binning tools, retrieved 98 genomes from metagenomes (GFMs). Of the GFMs, 31 were estimated to be >90% complete, while an additional 17 were >70% complete. Phylogenomic analysis revealed 53 bacterial and 45 archaeal GFMs, of which nearly all were distantly related to known cultivated isolates. In the GFMs, abundant Bacteria included Chloroflexi, Nitrospirae, Acetothermia (OP1), EM3, Aminicenantes (OP8), Gammaproteobacteria, and Deltaproteobacteria, while abundant Archaea included Archaeoglobi, Bathyarchaeota (MCG), and Marine Benthic Group E (MBG-E). These data are the first GFMs reconstructed from the deep basaltic subseafloor biosphere, and provide a dataset available for further interrogation. PMID:28350381

Viral activities and life cycles in deep subseafloor sediments.

PubMed

Engelhardt, Tim; Orsi, William D; Jørgensen, Bo Barker

2015-12-01

Viruses are highly abundant in marine subsurface sediments and can even exceed the number of prokaryotes. However, their activity and quantitative impact on microbial populations are still poorly understood. Here, we use gene expression data from published continental margin subseafloor metatranscriptomes to qualitatively assess viral diversity and activity in sediments up to 159 metres below seafloor (mbsf). Mining of the metatranscriptomic data revealed 4651 representative viral homologues (RVHs), representing 2.2% of all metatranscriptome sequence reads, which have close translated homology (average 77%, range 60-97% amino acid identity) to viral proteins. Archaea-infecting RVHs are exclusively detected in the upper 30 mbsf, whereas RVHs for filamentous inoviruses predominate in the deepest sediment layers. RVHs indicative of lysogenic phage-host interactions and lytic activity, notably cell lysis, are detected at all analysed depths and suggest a dynamic virus-host association in the marine deep biosphere studied here. Ongoing lytic viral activity is further indicated by the expression of clustered, regularly interspaced, short palindromic repeat-associated cascade genes involved in cellular defence against viral attacks. The data indicate the activity of viruses in subsurface sediment of the Peruvian margin and suggest that viruses indeed cause cell mortality and may play an important role in the turnover of subseafloor microbial biomass. © 2015 Society for Applied Microbiology and John Wiley & Sons Ltd.

Permeability structure of a highly heterogeneous transgressive-marine complex: Tocito Sandstone, New Mexico

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lambert, M.L.; Cole, R.D.

1996-01-01

The Tocito Sandstone Member of the Mancos Shale is an Upper Cretaceous shallow-marine sandstone and mudrock complex deposited along the western margin of the Western Interior seaway. The Tocito is a major hydrocarbon producer in the San Juan Basin (approximately 117 million barrels of oil and 79 billion cubic feet of gas). Because of reservoir heterogeneity, ultimate Tocito oil recovery factors are low, generally between 10 and 20 percent. To enhance understanding of permeability heterogeneity in the Tocito, we have undertaken a detailed surface and subsurface investigation. A total of 2,697 permeability measurements have been made using minipermeameters. Permeability variationmore » within the Tocito is controlled by two principal factors: lithofacies and burial/diagenetic history. Coarser grained and better sorted lithofacies have the highest permeability. The permeability values from outcrop and shallow subsurface cores are dramatically higher than those from deep subsurface cores. This is due to dissolution of grains and calcite cement, and decompaction that preferentially affected the outcrop and shallow subsurface. Correlation lengths for permeability values along horizontal transacts are typically less than 3 m, whereas those for vertical transacts are usually less than 0.6 m. These data suggest that small grid block sizes should be used during reservoir simulations if the investigator wishes to accurately capture the reservoir heterogeneity.« less

Permeability structure of a highly heterogeneous transgressive-marine complex: Tocito Sandstone, New Mexico

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lambert, M.L.; Cole, R.D.

1996-12-31

The Tocito Sandstone Member of the Mancos Shale is an Upper Cretaceous shallow-marine sandstone and mudrock complex deposited along the western margin of the Western Interior seaway. The Tocito is a major hydrocarbon producer in the San Juan Basin (approximately 117 million barrels of oil and 79 billion cubic feet of gas). Because of reservoir heterogeneity, ultimate Tocito oil recovery factors are low, generally between 10 and 20 percent. To enhance understanding of permeability heterogeneity in the Tocito, we have undertaken a detailed surface and subsurface investigation. A total of 2,697 permeability measurements have been made using minipermeameters. Permeability variationmore » within the Tocito is controlled by two principal factors: lithofacies and burial/diagenetic history. Coarser grained and better sorted lithofacies have the highest permeability. The permeability values from outcrop and shallow subsurface cores are dramatically higher than those from deep subsurface cores. This is due to dissolution of grains and calcite cement, and decompaction that preferentially affected the outcrop and shallow subsurface. Correlation lengths for permeability values along horizontal transacts are typically less than 3 m, whereas those for vertical transacts are usually less than 0.6 m. These data suggest that small grid block sizes should be used during reservoir simulations if the investigator wishes to accurately capture the reservoir heterogeneity.« less

Metagenomic Evidence for H2 Oxidation and H2 Production by Serpentinite-Hosted Subsurface Microbial Communities

PubMed Central

Brazelton, William J.; Nelson, Bridget; Schrenk, Matthew O.

2012-01-01

Ultramafic rocks in the Earth’s mantle represent a tremendous reservoir of carbon and reducing power. Upon tectonic uplift and exposure to fluid flow, serpentinization of these materials generates copious energy, sustains abiogenic synthesis of organic molecules, and releases hydrogen gas (H2). In order to assess the potential for microbial H2 utilization fueled by serpentinization, we conducted metagenomic surveys of a marine serpentinite-hosted hydrothermal chimney (at the Lost City hydrothermal field) and two continental serpentinite-hosted alkaline seeps (at the Tablelands Ophiolite, Newfoundland). Novel [NiFe]-hydrogenase sequences were identified at both the marine and continental sites, and in both cases, phylogenetic analyses indicated aerobic, potentially autotrophic Betaproteobacteria belonging to order Burkholderiales as the most likely H2-oxidizers. Both sites also yielded metagenomic evidence for microbial H2 production catalyzed by [FeFe]-hydrogenases in anaerobic Gram-positive bacteria belonging to order Clostridiales. In addition, we present metagenomic evidence at both sites for aerobic carbon monoxide utilization and anaerobic carbon fixation via the Wood–Ljungdahl pathway. In general, our results point to H2-oxidizing Betaproteobacteria thriving in shallow, oxic–anoxic transition zones and the anaerobic Clostridia thriving in anoxic, deep subsurface habitats. These data demonstrate the feasibility of metagenomic investigations into novel subsurface habitats via surface-exposed seeps and indicate the potential for H2-powered primary production in serpentinite-hosted subsurface habitats. PMID:22232619

Metagenomic evidence for h(2) oxidation and h(2) production by serpentinite-hosted subsurface microbial communities.

PubMed

Brazelton, William J; Nelson, Bridget; Schrenk, Matthew O

2012-01-01

Ultramafic rocks in the Earth's mantle represent a tremendous reservoir of carbon and reducing power. Upon tectonic uplift and exposure to fluid flow, serpentinization of these materials generates copious energy, sustains abiogenic synthesis of organic molecules, and releases hydrogen gas (H(2)). In order to assess the potential for microbial H(2) utilization fueled by serpentinization, we conducted metagenomic surveys of a marine serpentinite-hosted hydrothermal chimney (at the Lost City hydrothermal field) and two continental serpentinite-hosted alkaline seeps (at the Tablelands Ophiolite, Newfoundland). Novel [NiFe]-hydrogenase sequences were identified at both the marine and continental sites, and in both cases, phylogenetic analyses indicated aerobic, potentially autotrophic Betaproteobacteria belonging to order Burkholderiales as the most likely H(2)-oxidizers. Both sites also yielded metagenomic evidence for microbial H(2) production catalyzed by [FeFe]-hydrogenases in anaerobic Gram-positive bacteria belonging to order Clostridiales. In addition, we present metagenomic evidence at both sites for aerobic carbon monoxide utilization and anaerobic carbon fixation via the Wood-Ljungdahl pathway. In general, our results point to H(2)-oxidizing Betaproteobacteria thriving in shallow, oxic-anoxic transition zones and the anaerobic Clostridia thriving in anoxic, deep subsurface habitats. These data demonstrate the feasibility of metagenomic investigations into novel subsurface habitats via surface-exposed seeps and indicate the potential for H(2)-powered primary production in serpentinite-hosted subsurface habitats.

Microbe-mediated transformations of marine dissolved organic matter during 2,100 years of natural incubation in the cold, oxic crust of the Mid-Atlantic Ridge.

NASA Astrophysics Data System (ADS)

Shah Walter, S. R.; Jaekel, U.; Huber, J. A.; Dittmar, T.; Girguis, P. R.

2015-12-01

On the western flank of the Mid-Atlantic Ridge, oxic seawater from the deep ocean is downwelled into the basaltic crust, supplying the crustal aquifer with an initial inoculum of organic matter and electron acceptors. Studies have shown that fluids circulating within the crust are minimally altered from original seawater, making this subsurface environment a unique natural experiment in which the fate of marine organic matter and the limitations of microbial adaptability in the context of reduced carbon supply can be examined. To make the subsurface crustal aquifer accessible, two CORK (Circulation Obviation Retrofit Kit) observatories have been installed at North Pond, a sediment-filled depression beneath the oligotrophic Sargasso Sea. Radiocarbon analysis of dissolved inorganic (DIC) and organic carbon (DOC) in samples recovered from these observatories show uncoupled aging between DOC and DIC with Δ14C values of DOC as low as -933‰ despite isolation from the open ocean for, at most, 2,100 years. This extreme value is part of a general trend of decreasing DOC δ13C and Δ14C values with increasing incubation time within the aquifer. Combined with reduced concentrations of DOC, our results argue for selective microbial oxidation of the youngest, most 13C-enriched components of downwelled DOC, possibly identifying these as characteristics of the more bioavailable fractions of deep-ocean dissolved organic matter. They also suggest that microbial oxidation during low-temperature hydrothermal circulation could be an important sink for aged marine dissolved organic matter.

Subsurface North Atlantic warming as a trigger of rapid cooling events: evidence from the early Pleistocene (MIS 31-19)

NASA Astrophysics Data System (ADS)

Hernández-Almeida, I.; Sierro, F.-J.; Cacho, I.; Flores, J.-A.

2015-04-01

Subsurface water column dynamics in the subpolar North Atlantic were reconstructed in order to improve the understanding of the cause of abrupt ice-rafted detritus (IRD) events during cold periods of the early Pleistocene. We used paired Mg / Ca and δ18O measurements of Neogloboquadrina pachyderma (sinistral - sin.), deep-dwelling planktonic foraminifera, to estimate the subsurface temperatures and seawater δ18O from a sediment core from Gardar Drift, in the subpolar North Atlantic. Carbon isotopes of benthic and planktonic foraminifera from the same site provide information about the ventilation and water column nutrient gradient. Mg / Ca-based temperatures and seawater δ18O suggest increased subsurface temperatures and salinities during ice-rafting, likely due to northward subsurface transport of subtropical waters during periods of weaker Atlantic Meridional Overturning Circulation (AMOC). Planktonic carbon isotopes support this suggestion, showing coincident increased subsurface ventilation during deposition of IRD. Subsurface accumulation of warm waters would have resulted in basal warming and break-up of ice-shelves, leading to massive iceberg discharges in the North Atlantic. The release of heat stored at the subsurface to the atmosphere would have helped to restart the AMOC. This mechanism is in agreement with modelling and proxy studies that observe a subsurface warming in the North Atlantic in response to AMOC slowdown during Marine Isotope Stage (MIS) 3.

Active subsurface cellular function in the Baltic Sea Basin, IODP Exp 347

NASA Astrophysics Data System (ADS)

Reese, B. K.; Zinke, L. A.; Bird, J. T.; Lloyd, K. G.; Marshall, I.; Amend, J.; Jørgensen, B. B.

2016-12-01

The Baltic Sea Basin is a unique depositional setting that has experienced periods of glaciation and deglaciation as a result of global temperature fluctuations over the course of several hundred thousand years. This has resulted in laminated sediments formed during periods with strong permanent salinity stratification. The high sedimentation rates (100-500 cm/1000 y) make this an ideal setting to understand the microbial structure of a deep biosphere community in a high-organic matter environment. The responses of deep sediment microbial communities to variations in conditions during and after deposition are poorly understood. Samples were collected through scientific drilling during the International Ocean Discovery Program (IODP) Expedition 347 on board the Greatship Manisha, September-November 2013. We examined the active microbial community structure using the 16S rRNA gene transcript and active functional genes through metatranscriptome sequencing. Major biogeochemical shifts have been observed in response to the depositional history between the limnic, brackish, and marine phases. The microbial community structure in the BSB is diverse and reflective of the unique changes in the geochemical profile. These data further define the existence life in the deep subsurface and the survival mechanisms required for this extreme environment.

Heterotrophic potential of Atribacteria from deep marine Antarctic sediment

NASA Astrophysics Data System (ADS)

Carr, S. A.; Orcutt, B.; Mandernack, K. W.; Spear, J. R.

2015-12-01

Bacteria belonging to the newly classified candidate phylum "Atribacteria" (formerly referred to as "OP9" and "JS1") are common in anoxic methane-rich sediments. However, the metabolic functions and biogeochemical role of these microorganisms in the subsurface remains unrealized due to the lack of pure culture representatives. This study observed a steady increase of Atribacteria-related sequences with increasing sediment depth throughout the methane-rich zone of the Adélie Basin, Antarctica (according to a 16S rRNA gene survey). To explore the functional potential of Atribacteria in this basin, samples from various depths (14, 25 and 97 meters below seafloor), were subjected to metagenomic sequencing. Additionally, individual cells were separated from frozen, unpreserved sediment for whole genome amplification. The successful isolation and sequencing of a single-amplified Atribacteria genome from these unpreserved sediments demonstrates a future use of single cell techniques with previously collected and frozen sediments. Our resulting single-cell amplified genome, combined with metagenomic interpretations, provides our first insights to the functional potential of Atribacteria in deep subsurface settings. As observed for non-marine Atribacteria, genomic analyses suggest a heterotrophic metabolism, with Atribacteria potentially producing fermentation products such as acetate, ethanol and CO2. These products may in turn support methanogens within the sediment microbial community and explain the frequent occurrence of Atribacteria in anoxic methane-rich sediments.

Deep subsurface microbial processes

USGS Publications Warehouse

Lovley, D.R.; Chapelle, F.H.

1995-01-01

Information on the microbiology of the deep subsurface is necessary in order to understand the factors controlling the rate and extent of the microbially catalyzed redox reactions that influence the geophysical properties of these environments. Furthermore, there is an increasing threat that deep aquifers, an important drinking water resource, may be contaminated by man's activities, and there is a need to predict the extent to which microbial activity may remediate such contamination. Metabolically active microorganisms can be recovered from a diversity of deep subsurface environments. The available evidence suggests that these microorganisms are responsible for catalyzing the oxidation of organic matter coupled to a variety of electron acceptors just as microorganisms do in surface sediments, but at much slower rates. The technical difficulties in aseptically sampling deep subsurface sediments and the fact that microbial processes in laboratory incubations of deep subsurface material often do not mimic in situ processes frequently necessitate that microbial activity in the deep subsurface be inferred through nonmicrobiological analyses of ground water. These approaches include measurements of dissolved H2, which can predict the predominant microbially catalyzed redox reactions in aquifers, as well as geochemical and groundwater flow modeling, which can be used to estimate the rates of microbial processes. Microorganisms recovered from the deep subsurface have the potential to affect the fate of toxic organics and inorganic contaminants in groundwater. Microbial activity also greatly influences 1 the chemistry of many pristine groundwaters and contributes to such phenomena as porosity development in carbonate aquifers, accumulation of undesirably high concentrations of dissolved iron, and production of methane and hydrogen sulfide. Although the last decade has seen a dramatic increase in interest in deep subsurface microbiology, in comparison with the study of other habitats, the study of deep subsurface microbiology is still in its infancy.

Gene expression in the deep biosphere.

PubMed

Orsi, William D; Edgcomb, Virginia P; Christman, Glenn D; Biddle, Jennifer F

2013-07-11

Scientific ocean drilling has revealed a deep biosphere of widespread microbial life in sub-seafloor sediment. Microbial metabolism in the marine subsurface probably has an important role in global biogeochemical cycles, but deep biosphere activities are not well understood. Here we describe and analyse the first sub-seafloor metatranscriptomes from anaerobic Peru Margin sediment up to 159 metres below the sea floor, represented by over 1 billion complementary DNA (cDNA) sequence reads. Anaerobic metabolism of amino acids, carbohydrates and lipids seem to be the dominant metabolic processes, and profiles of dissimilatory sulfite reductase (dsr) transcripts are consistent with pore-water sulphate concentration profiles. Moreover, transcripts involved in cell division increase as a function of microbial cell concentration, indicating that increases in sub-seafloor microbial abundance are a function of cell division across all three domains of life. These data support calculations and models of sub-seafloor microbial metabolism and represent the first holistic picture of deep biosphere activities.

Where the oil from surface and subsurface plumes deposited during/after Deepwater Horizon oil spill?

NASA Astrophysics Data System (ADS)

Yan, B.

2016-02-01

The Deepwater Horizon (DwH) oil spill released an estimated 4.9 million barrels (about 200 million gallons) of crude oil into the Gulf of Mexico between April 20, 2010 and July 15, 2010. Though Valentine et al. has linked the elevated oil components in some sediments with the subsurface plume, the sites with fallout from the ocean surface plume has not been identified. This piece of information is critical not only for a comprehensive scientific understanding of the ecosystem response and fate of spill-related pollutants, but also for litigation purposes and future spill response and restoration planning. In this study we focus on testing the hypothesis that marine snow from the surface plume were deposited on the sea floor over a broad area. To do so, we use publicly available data generated as part of the ongoing Natural Resource Damage Assessment (NRDA) process to assess the spatial distribution of petroleum hydrocarbons in the water column and deep-ocean sediments of the Gulf of Mexico. Sensitive hydrocarbon markers are used to differentiate hydrocarbons from surface plume, deep subsurface plume, and in-situ burning. Preliminary results suggest the overlapping but different falling sites of these plumes and the sedimentation process was controlled by various biological, chemical, and physical factors.

Homology between genes for aromatic hydrocarbon degradation in surface and deep-subsurface sphingomonas strains

DOE Office of Scientific and Technical Information (OSTI.GOV)

Kim, E.; Aversano, P.J.; Zylstra, G.J.

The cloned genes for aromatic hydrocarbon degradation from Sphingomonas yanoikuyae B1 were utilized in Southern hybridization experiments with Sphingomonas strains from the surface and deep-subsurface environments. One hybridization pattern was obtained with BamHI-digested genomic DNAs for two surface strains, while a differing pattern was seen for five deep-subsurface strains. The cross-hybridizing genes were located in the chromosomes of the surface strains and on plasmids in the deep-subsurface strains. 31 refs., 3 figs., 1 tab.

Microplastics in Arctic polar waters: the first reported values of particles in surface and sub-surface samples

PubMed Central

Lusher, Amy L.; Tirelli, Valentina; O’Connor, Ian; Officer, Rick

2015-01-01

Plastic, as a form of marine litter, is found in varying quantities and sizes around the globe from surface waters to deep-sea sediments. Identifying patterns of microplastic distribution will benefit an understanding of the scale of their potential effect on the environment and organisms. As sea ice extent is reducing in the Arctic, heightened shipping and fishing activity may increase marine pollution in the area. Microplastics may enter the region following ocean transport and local input, although baseline contamination measurements are still required. Here we present the first study of microplastics in Arctic waters, south and southwest of Svalbard, Norway. Microplastics were found in surface (top 16 cm) and sub-surface (6 m depth) samples using two independent techniques. Origins and pathways bringing microplastic to the Arctic remain unclear. Particle composition (95% fibres) suggests they may either result from the breakdown of larger items (transported over large distances by prevailing currents, or derived from local vessel activity), or input in sewage and wastewater from coastal areas. Concurrent observations of high zooplankton abundance suggest a high probability for marine biota to encounter microplastics and a potential for trophic interactions. Further research is required to understand the effects of microplastic-biota interaction within this productive environment. PMID:26446348

Microplastics in Arctic polar waters: the first reported values of particles in surface and sub-surface samples

NASA Astrophysics Data System (ADS)

Lusher, Amy L.; Tirelli, Valentina; O'Connor, Ian; Officer, Rick

2015-10-01

Plastic, as a form of marine litter, is found in varying quantities and sizes around the globe from surface waters to deep-sea sediments. Identifying patterns of microplastic distribution will benefit an understanding of the scale of their potential effect on the environment and organisms. As sea ice extent is reducing in the Arctic, heightened shipping and fishing activity may increase marine pollution in the area. Microplastics may enter the region following ocean transport and local input, although baseline contamination measurements are still required. Here we present the first study of microplastics in Arctic waters, south and southwest of Svalbard, Norway. Microplastics were found in surface (top 16 cm) and sub-surface (6 m depth) samples using two independent techniques. Origins and pathways bringing microplastic to the Arctic remain unclear. Particle composition (95% fibres) suggests they may either result from the breakdown of larger items (transported over large distances by prevailing currents, or derived from local vessel activity), or input in sewage and wastewater from coastal areas. Concurrent observations of high zooplankton abundance suggest a high probability for marine biota to encounter microplastics and a potential for trophic interactions. Further research is required to understand the effects of microplastic-biota interaction within this productive environment.

Microplastics in Arctic polar waters: the first reported values of particles in surface and sub-surface samples.

PubMed

Lusher, Amy L; Tirelli, Valentina; O'Connor, Ian; Officer, Rick

2015-10-08

Plastic, as a form of marine litter, is found in varying quantities and sizes around the globe from surface waters to deep-sea sediments. Identifying patterns of microplastic distribution will benefit an understanding of the scale of their potential effect on the environment and organisms. As sea ice extent is reducing in the Arctic, heightened shipping and fishing activity may increase marine pollution in the area. Microplastics may enter the region following ocean transport and local input, although baseline contamination measurements are still required. Here we present the first study of microplastics in Arctic waters, south and southwest of Svalbard, Norway. Microplastics were found in surface (top 16 cm) and sub-surface (6 m depth) samples using two independent techniques. Origins and pathways bringing microplastic to the Arctic remain unclear. Particle composition (95% fibres) suggests they may either result from the breakdown of larger items (transported over large distances by prevailing currents, or derived from local vessel activity), or input in sewage and wastewater from coastal areas. Concurrent observations of high zooplankton abundance suggest a high probability for marine biota to encounter microplastics and a potential for trophic interactions. Further research is required to understand the effects of microplastic-biota interaction within this productive environment.

The subsurface record for the Anthropocene based on the global analysis of deep wells

NASA Astrophysics Data System (ADS)

Rose, K.

2016-12-01

While challenges persist in the characterization of Earth's subsurface, over two centuries of exploration resulting in more than six million deep wellbores, offer insights into these systems. Characteristics of the subsurface vary and can be analyzed on a variety of spatial scales using geospatial tools and methods. Characterization and prediction of subsurface properties, such as depth, thickness, porosity, permeability, pressure and temperature, are important for models and interpretations of the subsurface. Subsurface studies contribute to insights and understanding of natural system but also enable predictions and assessments of subsurface resources and support environmental and geohazard assessments. As the geo-data science landscape shifts, becoming more open, there are increasing opportunities to fill knowledge gaps, mine large, interrelated datasets, and develop innovative methods to improve our understanding of the subsurface and the impacts of its exploration. In this study, a global dataset of more than 6,000,000 deep subsurface wells has been assembled using ArcGIS and Access, which reflects to a first order, the cumulative representation of over two centuries of drilling. Wellbore data, in general represent the only portal for direct measurement and characterization of deep subsurface properties. As human engineering of the subsurface evolves from a focus on hydrocarbon resource development to include subsurface waste product disposal (e.g. CO2, industrial waste, etc) and production of other deep subsurface resources, such as heat and water resources, there is the increasing need to improve characterization techniques and understand local and global ramifications of anthropogenic interaction with the subsurface. Data and geospatial analyses are reviewed to constrain the extent to which human interactions, not just with Earth's surface systems, atmospheric and geologic, but subsurface systems will result in an enduring signature of human influences on the planet. Specifically, the extent and enduring signature of subsurface interactions with the planet, utilizing the four-dimensional, spatial and temporal, record for known deep wellbores is utilized.

Linking mesopelagic prey abundance and distribution to the foraging behavior of a deep-diving predator, the northern elephant seal

NASA Astrophysics Data System (ADS)

Saijo, Daisuke; Mitani, Yoko; Abe, Takuzo; Sasaki, Hiroko; Goetsch, Chandra; Costa, Daniel P.; Miyashita, Kazushi

2017-06-01

The Transition Zone in the eastern North Pacific is important foraging habitat for many marine predators. Further, the mesopelagic depths (200-1000 m) host an abundant prey resource known as the deep scattering layer that supports deep diving predators, such as northern elephant seals, beaked whales, and sperm whales. Female northern elephant seals (Mirounga angustirostris) undertake biannual foraging migrations to this region where they feed on mesopelagic fish and squid; however, in situ measurements of prey distribution and abundance, as well as the subsurface oceanographic features in the mesopelagic Transition Zone are limited. While concurrently tracking female elephant seals during their post-molt migration, we conducted a ship-based oceanographic and hydroacoustic survey and used mesopelagic mid-water trawls to sample the deep scattering layer. We found that the abundance of mesopelagic fish at 400-600 m depth zone was the highest in the 43 °N zone, the primary foraging area of female seals. We identified twenty-nine families of fishes from the mid-water trawls, with energy-rich myctophid fishes dominating by species number, individual number, and wet weight. Biomass of mesopelagic fishes is positively correlated to annual net primary productivity; however, at the temporal and spatial scale of our study, we found no relationship between satellite derived surface primary production and prey density. Instead, we found that the subsurface chlorophyll maximum correlated with the primary elephant seal foraging regions, indicating a stronger linkage between mesopelagic ecosystem dynamics and subsurface features rather than the surface features measured with satellites. Our study not only provides insights on prey distribution in a little-studied deep ocean ecosystem, but shows that northern elephant seals are targeting the dense, species-diverse mesopelagic ecosystem at the gyre-gyre boundary that was previously inferred from their diving behavior.

Planetary science and exploration in the deep subsurface: results from the MINAR Program, Boulby Mine, UK

NASA Astrophysics Data System (ADS)

Payler, Samuel J.; Biddle, Jennifer F.; Coates, Andrew J.; Cousins, Claire R.; Cross, Rachel E.; Cullen, David C.; Downs, Michael T.; Direito, Susana O. L.; Edwards, Thomas; Gray, Amber L.; Genis, Jac; Gunn, Matthew; Hansford, Graeme M.; Harkness, Patrick; Holt, John; Josset, Jean-Luc; Li, Xuan; Lees, David S.; Lim, Darlene S. S.; McHugh, Melissa; McLuckie, David; Meehan, Emma; Paling, Sean M.; Souchon, Audrey; Yeoman, Louise; Cockell, Charles S.

2017-04-01

The subsurface exploration of other planetary bodies can be used to unravel their geological history and assess their habitability. On Mars in particular, present-day habitable conditions may be restricted to the subsurface. Using a deep subsurface mine, we carried out a program of extraterrestrial analog research - MINe Analog Research (MINAR). MINAR aims to carry out the scientific study of the deep subsurface and test instrumentation designed for planetary surface exploration by investigating deep subsurface geology, whilst establishing the potential this technology has to be transferred into the mining industry. An integrated multi-instrument suite was used to investigate samples of representative evaporite minerals from a subsurface Permian evaporite sequence, in particular to assess mineral and elemental variations which provide small-scale regions of enhanced habitability. The instruments used were the Panoramic Camera emulator, Close-Up Imager, Raman spectrometer, Small Planetary Linear Impulse Tool, Ultrasonic drill and handheld X-ray diffraction (XRD). We present science results from the analog research and show that these instruments can be used to investigate in situ the geological context and mineralogical variations of a deep subsurface environment, and thus habitability, from millimetre to metre scales. We also show that these instruments are complementary. For example, the identification of primary evaporite minerals such as NaCl and KCl, which are difficult to detect by portable Raman spectrometers, can be accomplished with XRD. By contrast, Raman is highly effective at locating and detecting mineral inclusions in primary evaporite minerals. MINAR demonstrates the effective use of a deep subsurface environment for planetary instrument development, understanding the habitability of extreme deep subsurface environments on Earth and other planetary bodies, and advancing the use of space technology in economic mining.

Submarine groundwater discharge into the coast revealed by water chemistry of man-made undersea liquefied petroleum gas cavern

NASA Astrophysics Data System (ADS)

Lee, Jin-Yong; Cho, Byung Wook

2008-10-01

SummaryThe occurrence of submarine groundwater discharge (SGD) as well as its supply of many nutrients and metals to coastal seawaters is now generally known. However, previous studies have focused on the chemical and radiological analysis of groundwater, surface seawater, shallow marine sediments and their pore waters, as well as the measurement of upward flow through the marine sediments, as end members of the discharge process. In this study, chemical and isotopic analysis results of marine subsurface waters are reported. These were obtained from deep boreholes of an undersea liquefied petroleum gas (LPG) storage cavern, located about 8 km off the western coast of Korea. The cavern is about 130-150 m below the sea bottom, which is covered by a 4.8-19.5 m silty clay stratum. An isotopic composition (δ 2H and δ 18O) of the marine subsurface waters falls on a mixing line between terrestrial groundwater and seawater. Vertical EC profiling at the cavern boreholes revealed the existence of a fresh water zone. An increase in the contents of ferrous iron and manganese and a decrease in levels of nitrate, bicarbonate and cavern seepage were recorded in August 2006, indicating a decreased submarine groundwater flux originating from land, mainly caused by an elevated cavern gas pressure. It is suggested in this study that the main source of fresh waters in the man-made undersea cavern is the submarine groundwater discharge mainly originating from the land.

Some New Windows into Terrestrial Deep Subsurface Microbial Ecosystems

NASA Astrophysics Data System (ADS)

Moser, D. P.

2011-12-01

Over the past several years, our group has surveyed the microbial ecology and biogeochemistry of a range of fracture rock subsurface ecosystems via deep mine boreholes in South Africa, the United States, and Canada; and boreholes from surface or deeply-sourced natural springs of the U.S. Great Basin. Collectively, these mostly unexplored habitats represent a wide range of geologic provinces, host rock types, aquatic chemistries, and the vast potential for biogeographic isolation. Thus, patterns of microbial diversity are of interest from the perspective of filling a fundamental knowledge gap; and while not necessarily expected, the detection of closely related microorganisms from geographically isolated settings would be noteworthy. Across these sample sets, microbial communities were invariably very low in biomass (e.g. 10e3 - 10e4 cells per mL) and dominated by deeply-branching bacterial lineages, particularly from the phyla Firmicutes and Nitrospira. In several cases, the Firmicutes have shown very close phylogenetic affiliations to lineages detected at divergent locations. For example, one abundant lineage from a new artesian well drilled into the Furnace Creek Fault of Death Valley, CA bears a very close phylogenetic relatedness to environmental DNA sequences (SSU rRNA gene) detected in one of the world's deepest mines (Tau Tona of South Africa) and what was North America's deepest gold mine (Homestake of South Dakota). Several radioactive wells from the Nevada National Security Site have produced rRNA gene sequences very close (e.g. greater than 99% identity) to that of Desulforudis audaxviator, a rarely detected microorganism thought to subsist as a single species ecosystem on the products of radiochemical reactions in deep crustal rocks from the South African Witwatersrand Basin. These sequences, along with more distantly related sequences from the marine subsurface (ridge flank basalt and mud volcanoes) and groundwater in Europe, hint at a role in certain hydrogen-rich subsurface settings for this group. Likewise, patterns of archaeal diversity across many of our Great Basin sites suggest shared deep lineages, particularly with the phylum, Thaumarchaeota. Here we will explore the possible significance of these patterns of diversity and discuss future research plans involving high throughput molecular techniques.

Novel applications for biogeophysics: Prospects for detecting key subseafloor geomicrobiological processes or habitats

NASA Astrophysics Data System (ADS)

Colwell, F. S.; Ntarlagiannis, D.

2007-05-01

The new subdiscipline of biogeophysics has focused mostly on the geophysical signatures of microbial processes in contaminated subsurface environments usually undergoing remediation. However, the use of biogeophysics to examine the biogeochemistry of marine sediments has not yet been well-integrated into conceptual models that describe subseafloor processes. Current examples of geophysical measurements that have been used to detect geomicrobiological processes or infer their location in the seafloor include sound surveillance system (SOSUS)-derived data that detect seafloor eruptive events, deep and shallow cross-sectional seismic surveys that determine the presence of hydraulically conductive zones or gas-bearing sediments (e.g., bottom-simulating reflectors or bubble-rich strata), and thermal profiles. One possible area for innovative biogeophysical characterization of the seafloor involves determining the depth of the sulfate-methane interface (SMI) in locations where sulfate diffuses from the seawater and methane emanates from subsurface strata. The SMI demarcates a stratum where microbially-driven anaerobic methane oxidation (AMO) is dependent upon methane as an electron donor and sulfate as an electron acceptor. AMO is carried out by a recently defined, unique consortium of microbes that metabolically temper the flux of methane into the overlying seawater. The depth of the SMI is, respectively, shallow or deep according to whether a high or low rate of methane flux occurs from the deep sediments. Presently, the SMI can only be determined by direct measurements of methane and sulfate concentrations in the interstitial waters or by molecular biological techniques that target the microbes responsible for creating the SMI. Both methods require collection and considerable analysis of sediment samples. Therefore, detection of the SMI by non-destructive methods would be advantageous. As a key biogeochemical threshold in marine sediments, the depth of the SMI defines methane charge in marine sediments, whether it is from dissolved methane or from methane hydrates. As such, a biogeophysical strategy for determining SMI depth would represent an important contribution to assessing methane charge with respect to climate change, sediment stability, or potential energy resources.

The role microbial sulfate reduction in the direct mediation of sedimentary authigenic carbonate precipitation

NASA Astrophysics Data System (ADS)

Turchyn, A. V.; Walker, K.; Sun, X.

2016-12-01

The majority of modern deep marine sediments are bathed in water that is undersaturated with respect to calcium carbonate. However, within marine sediments changing chemical conditions, driven largely by the microbial oxidation of organic carbon in the absence of oxygen, lead to supersaturated conditions and drive calcium carbonate precipitation. This sedimentary calcium carbonate is often called `authigenic carbonate', and is found in the form of cements and disseminated crystals within the marine sedimentary pile. As this precipitation of this calcium carbonate is microbially mediated, identifying authigenic carbonate within the geological record and understanding what information its geochemical and/or isotopic signature may hold is key for understanding its importance and what information it may contain past life. However, the modern controls on authigenic carbonate precipitation remain enigmatic because the myriad of microbially mediated reactions occurring within sediments both directly and indirectly impact the proton balance. In this submission we present data from 25 ocean sediment cores spanning the globe where we explore the deviation from the stoichiometrically predicted relationships among alkalinity, calcium and sulfate concentrations. In theory for every mol of organic carbon reduced by sulfate, two mol of alkalinity is produced, and to precipitate subsurface calcium carbonate one mol of calcium is used to consume two mol of alkalinity. We use this data with a model to explore changes in carbonate saturation state with depth below the seafloor. Alkalinity changes in the subsurface are poorly correlated with changes in calcium concentrations, however calcium concentrations are directly and tightly coupled to changes in sulfate concentrations in all studied sites. This suggests a direct role for sulfate reducing bacteria in the precipitation of subsurface carbonate cements.

Potential for hydrogen-oxidizing chemolithoautotrophic and diazotrophic populations to initiate biofilm formation in oligotrophic, deep terrestrial subsurface waters.

PubMed

Wu, Xiaofen; Pedersen, Karsten; Edlund, Johanna; Eriksson, Lena; Åström, Mats; Andersson, Anders F; Bertilsson, Stefan; Dopson, Mark

2017-03-23

Deep terrestrial biosphere waters are separated from the light-driven surface by the time required to percolate to the subsurface. Despite biofilms being the dominant form of microbial life in many natural environments, they have received little attention in the oligotrophic and anaerobic waters found in deep bedrock fractures. This study is the first to use community DNA sequencing to describe biofilm formation under in situ conditions in the deep terrestrial biosphere. In this study, flow cells were attached to boreholes containing either "modern marine" or "old saline" waters of different origin and degree of isolation from the light-driven surface of the earth. Using 16S rRNA gene sequencing, we showed that planktonic and attached populations were dissimilar while gene frequencies in the metagenomes suggested that hydrogen-fed, carbon dioxide- and nitrogen-fixing populations were responsible for biofilm formation across the two aquifers. Metagenome analyses further suggested that only a subset of the populations were able to attach and produce an extracellular polysaccharide matrix. Initial biofilm formation is thus likely to be mediated by a few bacterial populations which were similar to Epsilonproteobacteria, Deltaproteobacteria, Betaproteobacteria, Verrucomicrobia, and unclassified bacteria. Populations potentially capable of attaching to a surface and to produce extracellular polysaccharide matrix for attachment were identified in the terrestrial deep biosphere. Our results suggest that the biofilm populations were taxonomically distinct from the planktonic community and were enriched in populations with a chemolithoautotrophic and diazotrophic metabolism coupling hydrogen oxidation to energy conservation under oligotrophic conditions.

Microbes in deep marine sediments viewed through amplicon sequencing and metagenomics

NASA Astrophysics Data System (ADS)

Biddle, J.; Leon, Z. R.; Russell, J. A., III; Martino, A. J.

2016-12-01

Nearly twenty percent of microbial biomass on Earth can be found in the marine subsurface. The majority of this is concentrated on continental margins, which have been investigated by scientific drilling. On the Costa Rica Margin, Iberian Margin and Peru Margins, sediment samples have been investigated through DNA extraction followed by amplicon and metagenomic sequencing. Overall samples show a high degree of microbial diversity, including many lineages of newly defined groups. In this talk, metagenome assembled genomes of unusual lineages will be presented, including their relationships to shallower relatives. From Costa Rica, in particular, we have retrieved deep relatives of Lokiarchaeota and Thorarchaeota, as well as other deeply branching archaeal relatives. We discuss their genome similarities to both other archaea and eukaryotes. From the Iberian Margin, relatives of Atribacteria and Aerophobetes will be discussed. Finally, we will detail the knowledge lost or gained depending on whether samples are studied via amplicon sequencing or total metagenomics, as studies in other environments have shown that up to 15% of microbial diversity is ignored when samples are studied via amplicon sequencing alone.

Temperature change affected groundwater quality in a confined marine aquifer during long-term heating and cooling.

PubMed

Saito, Takeshi; Hamamoto, Shoichiro; Ueki, Takashi; Ohkubo, Satoshi; Moldrup, Per; Kawamoto, Ken; Komatsu, Toshiko

2016-05-01

Global warming and urbanization together with development of subsurface infrastructures (e.g. subways, shopping complexes, sewage systems, and Ground Source Heat Pump (GSHP) systems) will likely cause a rapid increase in the temperature of relatively shallow groundwater reservoirs (subsurface thermal pollution). However, potential effects of a subsurface temperature change on groundwater quality due to changed physical, chemical, and microbial processes have received little attention. We therefore investigated changes in 34 groundwater quality parameters during a 13-month enhanced-heating period, followed by 14 months of natural or enhanced cooling in a confined marine aquifer at around 17 m depth on the Saitama University campus, Japan. A full-scale GSHP test facility consisting of a 50 m deep U-tube for circulating the heat-carrying fluid and four monitoring wells at 1, 2, 5, and 10 m from the U-tube were installed, and groundwater quality was monitored every 1-2 weeks. Rapid changes in the groundwater level in the area, especially during the summer, prevented accurate analyses of temperature effects using a single-well time series. Instead, Dual-Well Analysis (DWA) was applied, comparing variations in subsurface temperature and groundwater chemical concentrations between the thermally-disturbed well and a non-affected reference well. Using the 1 m distant well (temperature increase up to 7 °C) and the 10 m distant well (non-temperature-affected), the DWA showed an approximately linear relationships for eight components (B, Si, Li, dissolved organic carbon (DOC), Mg(2+), NH4(+), Na(+), and K(+)) during the combined 27 months of heating and cooling, suggesting changes in concentration between 4% and 31% for a temperature change of 7 °C. Copyright © 2016 Elsevier Ltd. All rights reserved.

Microbial Life in the Deep Subsurface: Deep, Hot and Radioactive

NASA Technical Reports Server (NTRS)

DeStefano, Andrea L.; Ford, Jill C.; Winsor, Seana K.; Allen, Carlton C.; Miller, Judith; McNamara, Karen M.; Gibson, Everett K., Jr.

2000-01-01

Recent studies, motivated in part by the search for extraterrestrial life, continue to expand the recognized limits of Earth's biosphere. This work explored evidence for life a high-temperature, radioactive environment in the deep subsurface.

Listening to the Deep-Ocean Environment (LIDO): an ESONET Initiative for the Real-Time Monitoring of Geohazards and Marine Ambient Noise

NASA Astrophysics Data System (ADS)

André, Michel; Favali, Paolo; Piatteli, Paolo; Miranda, Jorge; Waldmann, Christoph; Esonet Lido Demonstration Mission Team

2010-05-01

Understanding the link between natural and anthropogenic processes is essential for predicting the magnitude and impact of future changes of the natural balance of the oceans. Deep-sea observatories have the potential to play a key role in the assessment and monitoring of these changes. ESONET is a European Network of Excellence of deep-sea observatories that includes 55 partners belonging to 14 countries. ESONET NoE is providing data on key parameters from the subsurface down to the seafloor at representative locations that transmit them to shore. The strategies of deployment, data sampling, technological development, standardisation and data management are being integrated with projects dealing with the spatial and near surface time series. LIDO (Listening to the Deep Ocean environment) is one of these projects and proposes to establish a first nucleus of a regional network of multidisciplinary seafloor observatories contributing to the coordination of high quality research in the ESONET NoE by allowing the real-time long-term monitoring of Geohazards and Marine Ambient Noise in the Mediterranean Sea and the adjacent Atlantic waters. Specific activities address the long-term monitoring of earthquakes and tsunamis and the characterisation of ambient noise, marine mammal sounds and anthropogenic sources. The objective of this demonstration mission will be achieved through the extension of the present capabilities of the observatories working in the ESONET key-sites of Eastern Sicily (NEMO-SN1) and of the Gulf of Cadiz (GEOSTAR configured for NEAREST pilot experiment) by installing new sensor equipments related to Bioacoustics and Geohazards, as well as by implementing international standard methods in data acquisition and management.

Nematoda from the terrestrial deep subsurface of South Africa.

PubMed

Borgonie, G; García-Moyano, A; Litthauer, D; Bert, W; Bester, A; van Heerden, E; Möller, C; Erasmus, M; Onstott, T C

2011-06-02

Since its discovery over two decades ago, the deep subsurface biosphere has been considered to be the realm of single-cell organisms, extending over three kilometres into the Earth's crust and comprising a significant fraction of the global biosphere. The constraints of temperature, energy, dioxygen and space seemed to preclude the possibility of more-complex, multicellular organisms from surviving at these depths. Here we report species of the phylum Nematoda that have been detected in or recovered from 0.9-3.6-kilometre-deep fracture water in the deep mines of South Africa but have not been detected in the mining water. These subsurface nematodes, including a new species, Halicephalobus mephisto, tolerate high temperature, reproduce asexually and preferentially feed upon subsurface bacteria. Carbon-14 data indicate that the fracture water in which the nematodes reside is 3,000-12,000-year-old palaeometeoric water. Our data suggest that nematodes should be found in other deep hypoxic settings where temperature permits, and that they may control the microbial population density by grazing on fracture surface biofilm patches. Our results expand the known metazoan biosphere and demonstrate that deep ecosystems are more complex than previously accepted. The discovery of multicellular life in the deep subsurface of the Earth also has important implications for the search for subsurface life on other planets in our Solar System.

Model Scaling of Hydrokinetic Ocean Renewable Energy Systems

NASA Astrophysics Data System (ADS)

von Ellenrieder, Karl; Valentine, William

2013-11-01

Numerical simulations are performed to validate a non-dimensional dynamic scaling procedure that can be applied to subsurface and deeply moored systems, such as hydrokinetic ocean renewable energy devices. The prototype systems are moored in water 400 m deep and include: subsurface spherical buoys moored in a shear current and excited by waves; an ocean current turbine excited by waves; and a deeply submerged spherical buoy in a shear current excited by strong current fluctuations. The corresponding model systems, which are scaled based on relative water depths of 10 m and 40 m, are also studied. For each case examined, the response of the model system closely matches the scaled response of the corresponding full-sized prototype system. The results suggest that laboratory-scale testing of complete ocean current renewable energy systems moored in a current is possible. This work was supported by the U.S. Southeast National Marine Renewable Energy Center (SNMREC).

viral abundance distribution in deep waters of the Northern of South China Sea

NASA Astrophysics Data System (ADS)

He, Lei; Yin, Kedong

2017-04-01

Little is known about the vertical distribution and interaction of viruses and bacteria in the deep ocean water column. The vertical distribution of viral-like particles and bacterial abundance was investigated in the deep water column in the South China Sea during September 2005 along with salinity, temperature and dissolved oxygen. There were double maxima in the ratio of viral to bacterial abundance (VBR) in the water column: the subsurface maximum located at 50-100 m near the pycnocline layer, and the deep maximum at 800-1000 m. At the subsurface maximum of VBR, both viral and bacterial abundance were maximal in the water column, and at the deep maximum of VBR, both viral and bacterial abundance were low, but bacterial abundance was relatively lower than viral abundance. The subsurface VBR maximum coincided with the subsurface chlorophyll maximum while the deep VBR maximum coincided with the minimum in dissolved oxygen (2.91mg L-1). Therefore, we hypothesize that the two maxima were formed by different mechanisms. The subsurface VBR maximum was formed due to an increase in bacterial abundance resulting from the stimulation of abundant organic supply at the subsurface chlorophyll maximum, whereas the deep VBR maximum was formed due to a decrease in bacterial abundance caused by more limitation of organic matter at the oxygen minimum. The evidence suggests that viruses play an important role in controlling bacterial abundance in the deep water column due to the limitation of organic matter supply. In turn, this slows down the formation of the oxygen minimum in which oxygen may be otherwise lower. The mechanism has a great implication that viruses could control bacterial decomposition of organic matter, oxygen consumption and nutrient remineralization in the deep oceans.

Active microbial biofilms in deep poor porous continental subsurface rocks.

PubMed

Escudero, Cristina; Vera, Mario; Oggerin, Monike; Amils, Ricardo

2018-01-24

Deep continental subsurface is defined as oligotrophic environments where microorganisms present a very low metabolic rate. To date, due to the energetic cost of production and maintenance of biofilms, their existence has not been considered in poor porous subsurface rocks. We applied fluorescence in situ hybridization techniques and confocal laser scanning microscopy in samples from a continental deep drilling project to analyze the prokaryotic diversity and distribution and the possible existence of biofilms. Our results show the existence of natural microbial biofilms at all checked depths of the Iberian Pyrite Belt (IPB) subsurface and the co-occurrence of bacteria and archaea in this environment. This observation suggests that multi-species biofilms may be a common and widespread lifestyle in subsurface environments.

[Search for life in deep biospheres].

PubMed

Naganuma, Takeshi

2003-12-01

The life in deep biospheres bridges conventional biology and future exobiology. This review focuses the microbiological studies from the selected deep biospheres, i.e., deep-sea hydrothermal vents, sub-hydrothermal vents, terrestrial subsurface and a sub-glacier lake. The dark biospheres facilitate the emergence of organisms and communities dependent on chemolithoautotrophy, which are overwhelmed by photoautotrophy (photosynthesis) in the surface biospheres. The life at deep-sea hydrothermal vents owes much to chemolithoautotrophy based on the oxidation of sulfide emitted from the vents. It is likely that similarly active bodies such as the Jovian satellite Europa may have hydrothermal vents and associated biological communities. Anoxic or anaerobic condition is characteristic of deep subsurface biospheres. Subsurface microorganisms exploit available oxidants, or terminal electron acceptors (TEA), for anaerobic respiration. Sulfate, nitrate, iron (III) and CO2 are the representative TEAs in the deep subsurface. Below the 3000-4000 m-thick glacier on Antarctica, there have been >70 lakes with liquid water located. One of such sub-glacial lakes, Lake Vostok, is about to be drill-penetrated for microbiological studies. These deep biosphere "platforms" provide new knowledge about the diversity and potential of the Earth's life. The expertise obtained from the deep biosphere expeditions will facilitate the capability of exobiologial exploration.

Phylogenetic and Functional Diversity of Microbial Communities Associated with Subsurface Sediments of the Sonora Margin, Guaymas Basin

PubMed Central

Vigneron, Adrien; Cruaud, Perrine; Roussel, Erwan G.; Pignet, Patricia; Caprais, Jean-Claude; Callac, Nolwenn; Ciobanu, Maria-Cristina; Godfroy, Anne; Cragg, Barry A.; Parkes, John R.; Van Nostrand, Joy D.; He, Zhili; Zhou, Jizhong; Toffin, Laurent

2014-01-01

Subsurface sediments of the Sonora Margin (Guaymas Basin), located in proximity of active cold seep sites were explored. The taxonomic and functional diversity of bacterial and archaeal communities were investigated from 1 to 10 meters below the seafloor. Microbial community structure and abundance and distribution of dominant populations were assessed using complementary molecular approaches (Ribosomal Intergenic Spacer Analysis, 16S rRNA libraries and quantitative PCR with an extensive primers set) and correlated to comprehensive geochemical data. Moreover the metabolic potentials and functional traits of the microbial community were also identified using the GeoChip functional gene microarray and metabolic rates. The active microbial community structure in the Sonora Margin sediments was related to deep subsurface ecosystems (Marine Benthic Groups B and D, Miscellaneous Crenarchaeotal Group, Chloroflexi and Candidate divisions) and remained relatively similar throughout the sediment section, despite defined biogeochemical gradients. However, relative abundances of bacterial and archaeal dominant lineages were significantly correlated with organic carbon quantity and origin. Consistently, metabolic pathways for the degradation and assimilation of this organic carbon as well as genetic potentials for the transformation of detrital organic matters, hydrocarbons and recalcitrant substrates were detected, suggesting that chemoorganotrophic microorganisms may dominate the microbial community of the Sonora Margin subsurface sediments. PMID:25099369

Microbial Life of North Pacific Oceanic Crust

NASA Astrophysics Data System (ADS)

Schumann, G.; Koos, R.; Manz, W.; Reitner, J.

2003-12-01

Information on the microbiology of the deep subsurface is necessary in order to understand the factors controlling the rate and extent of the microbially catalyzed reactions that influence the geophysical properties of these environments. Drilling into 45-Ma oceanic basaltic crust in a deepwater environment during ODP Leg 200 provided a promising opportunity to explore the abundance, diversity and activity of micro-organisms. The combined use of culture-independent molecular phylogenetic analyses and enrichment culture techniques is an advantageous approach in investigating subsurface microbial ecosystems. Enrichment culture methods allow the evaluation of potential activities and functions. Microbiological investigations revealed few aerobic cultivable, in part hitherto unknown, micro-organisms in deep submarine sediments and basaltic lava flows. 16S rDNA sequencing of isolates from sediment revealed the next relatives to be members of the genera Halomonas, Pseudomonas, and Lactobacillus. Within the Pseudomonadaceae the closest relative is Acinetobacter sp., which was isolated from a deep subsurface environment. The next phylogenetical relatives within the Halomonadaceae are bacteria typically isolated from Soda lakes, which are considered as model of early life conditions. Interestingly, not only sediment bacteria could be obtained in pure culture. Aerobic strains could also be successfully isolated from the massive tholeiitic basalt layer at a depth of 76.16 mbsf (46 m below the sediment/basement contact). These particular isolates are gram-positive with low G+C content of DNA, phylogenetically affiliated to the phylum Firmicutes. The closest neighbors are e.g. a marine Bacillus isolated from the Gulf of Mexico and a low G+C gram-positive bacterium, which belongs to the microbial flora in the deepest sea mud of the Mariana Trench, isolated from a depth of 10,897 m. Based on the similarity values, the isolates represent hitherto undescribed species of the deep biosphere. Molecular microbial diversity is currently determined by cloning und comparative 16S rRNA gene analyses. The first results will also be presented. In summary, the low number of isolates, cultivated under aerobic conditions, is in good agreement with the common opinion that most of the bacteria within the deep biosphere are anaerobic. Thus, studies of microbial community structure in solid geological materials are feasible and constitute further evidence that continuing microbiological activity in the challenging exploration of the deep sub-seafloor biosphere environment is absolutely promising.

The contribution of the Precambrian continental lithosphere to global H2 production.

PubMed

Lollar, Barbara Sherwood; Onstott, T C; Lacrampe-Couloume, G; Ballentine, C J

2014-12-18

Microbial ecosystems can be sustained by hydrogen gas (H2)-producing water-rock interactions in the Earth's subsurface and at deep ocean vents. Current estimates of global H2 production from the marine lithosphere by water-rock reactions (hydration) are in the range of 10(11) moles per year. Recent explorations of saline fracture waters in the Precambrian continental subsurface have identified environments as rich in H2 as hydrothermal vents and seafloor-spreading centres and have suggested a link between dissolved H2 and the radiolytic dissociation of water. However, extrapolation of a regional H2 flux based on the deep gold mines of the Witwatersrand basin in South Africa yields a contribution of the Precambrian lithosphere to global H2 production that was thought to be negligible (0.009 × 10(11) moles per year). Here we present a global compilation of published and new H2 concentration data obtained from Precambrian rocks and find that the H2 production potential of the Precambrian continental lithosphere has been underestimated. We suggest that this can be explained by a lack of consideration of additional H2-producing reactions, such as serpentinization, and the absence of appropriate scaling of H2 measurements from these environments to account for the fact that Precambrian crust represents over 70 per cent of global continental crust surface area. If H2 production via both radiolysis and hydration reactions is taken into account, our estimate of H2 production rates from the Precambrian continental lithosphere of 0.36-2.27 × 10(11) moles per year is comparable to estimates from marine systems.

Workshop to develop deep-life continental scientific drilling projects

DOE PAGES

Kieft, T. L.; Onstott, T. C.; Ahonen, L.; ...

2015-05-29

The International Continental Scientific Drilling Program (ICDP) has long espoused studies of deep subsurface life, and has targeted fundamental questions regarding subsurface life, including the following: "(1) What is the extent and diversity of deep microbial life and what are the factors limiting it? (2) What are the types of metabolism/carbon/energy sources and the rates of subsurface activity? (3) How is deep microbial life adapted to subsurface conditions? (4) How do subsurface microbial communities affect energy resources? And (5) how does the deep biosphere interact with the geosphere and atmosphere?" (Horsfield et al., 2014) Many ICDP-sponsored drilling projects have includedmore » a deep-life component; however, to date, not one project has been driven by deep-life goals, in part because geomicrobiologists have been slow to initiate deep biosphere-driven ICDP projects. Therefore, the Deep Carbon Observatory (DCO) recently partnered with the ICDP to sponsor a workshop with the specific aim of gathering potential proponents for deep-life-driven ICDP projects and ideas for candidate drilling sites. Twenty-two participants from nine countries proposed projects and sites that included compressional and extensional tectonic environments, evaporites, hydrocarbon-rich shales, flood basalts, Precambrian shield rocks, subglacial and subpermafrost environments, active volcano–tectonic systems, megafan deltas, and serpentinizing ultramafic environments. The criteria and requirements for successful ICDP applications were presented. Deep-life-specific technical requirements were discussed and it was concluded that, while these procedures require adequate planning, they are entirely compatible with the sampling needs of other disciplines. As a result of this workshop, one drilling workshop proposal on the Basin and Range Physiographic Province (BRPP) has been submitted to the ICDP, and several other drilling project proponents plan to submit proposals for ICDP-sponsored drilling workshops in 2016.« less

Activity and phylogenetic diversity of sulfate-reducing microorganisms in low-temperature subsurface fluids within the upper oceanic crust

PubMed Central

Robador, Alberto; Jungbluth, Sean P.; LaRowe, Douglas E.; Bowers, Robert M.; Rappé, Michael S.; Amend, Jan P.; Cowen, James P.

2015-01-01

The basaltic ocean crust is the largest aquifer system on Earth, yet the rates of biological activity in this environment are unknown. Low-temperature (<100°C) fluid samples were investigated from two borehole observatories in the Juan de Fuca Ridge (JFR) flank, representing a range of upper oceanic basement thermal and geochemical properties. Microbial sulfate reduction rates (SRR) were measured in laboratory incubations with 35S-sulfate over a range of temperatures and the identity of the corresponding sulfate-reducing microorganisms (SRM) was studied by analyzing the sequence diversity of the functional marker dissimilatory (bi)sulfite reductase (dsrAB) gene. We found that microbial sulfate reduction was limited by the decreasing availability of organic electron donors in higher temperature, more altered fluids. Thermodynamic calculations indicate energetic constraints for metabolism, which together with relatively higher cell-specific SRR reveal increased maintenance requirements, consistent with novel species-level dsrAB phylotypes of thermophilic SRM. Our estimates suggest that microbially-mediated sulfate reduction may account for the removal of organic matter in fluids within the upper oceanic crust and underscore the potential quantitative impact of microbial processes in deep subsurface marine crustal fluids on marine and global biogeochemical carbon cycling. PMID:25642212

Biogenic Carbon on Mars: A Subsurface Chauvinistic Viewpoint

NASA Astrophysics Data System (ADS)

Onstott, T. C.; Lau, C. Y. M.; Magnabosco, C.; Harris, R.; Chen, Y.; Slater, G.; Sherwood Lollar, B.; Kieft, T. L.; van Heerden, E.; Borgonie, G.; Dong, H.

2015-12-01

A review of 150 publications on the subsurface microbiology of the continental subsurface provides ~1,400 measurements of cellular abundances down to 4,800 meter depth. These data suggest that the continental subsurface biomass is comprised of ~1016-17 grams of carbon, which is higher than the most recent estimates of ~1015 grams of carbon (1 Gt) for the marine deep biosphere. If life developed early in Martian history and Mars sustained an active hydrological cycle during its first 500 million years, then is it possible that Mars could have developed a subsurface biomass of comparable size to that of Earth? Such a biomass would comprise a much larger fraction of the total known Martian carbon budget than does the subsurface biomass on Earth. More importantly could a remnant of this subsurface biosphere survive to the present day? To determine how sustainable subsurface life could be in isolation from the surface we have been studying subsurface fracture fluids from the Precambrian Shields in South Africa and Canada. In these environments the energetically efficient and deeply rooted acetyl-CoA pathway for carbon fixation plays a central role for chemolithoautotrophic primary producers that form the base of the biomass pyramid. These primary producers appear to be sustained indefinitely by H2 generated through serpentinization and radiolytic reactions. Carbon isotope data suggest that in some subsurface locations a much larger population of secondary consumers are sustained by the primary production of biogenic CH4 from a much smaller population of methanogens. These inverted biomass and energy pyramids sustained by the cycling of CH4 could have been and could still be active on Mars. The C and H isotopic signatures of Martian CH4 remain key tools in identifying potential signatures of an extant Martian biosphere. Based upon our results to date cavity ring-down spectroscopic technologies provide an option for making these measurements on future rover missions.

Zonation of Microbial Communities by a Hydrothermal Mound in the Atlantis II Deep (the Red Sea).

PubMed

Wang, Yong; Li, Jiang Tao; He, Li Sheng; Yang, Bo; Gao, Zhao Ming; Cao, Hui Luo; Batang, Zenon; Al-Suwailem, Abdulaziz; Qian, Pei-Yuan

2015-01-01

In deep-sea geothermal rift zones, the dispersal of hydrothermal fluids of moderately-high temperatures typically forms subseafloor mounds. Major mineral components of the crust covering the mound are barite and metal sulfides. As a result of the continental rifting along the Red Sea, metalliferous sediments accumulate on the seafloor of the Atlantis II Deep. In the present study, a barite crust was identified in a sediment core from the Atlantis II Deep, indicating the formation of a hydrothermal mound at the sampling site. Here, we examined how such a dense barite crust could affect the local environment and the distribution of microbial inhabitants. Our results demonstrate distinctive features of mineral components and microbial communities in the sediment layers separated by the barite crust. Within the mound, archaea accounted for 65% of the community. In contrast, the sediments above the barite boundary were overwhelmed by bacteria. The composition of microbial communities under the mound was similar to that in the sediments of the nearby Discovery Deep and marine cold seeps. This work reveals the zonation of microbial communities after the formation of the hydrothermal mound in the subsurface sediments of the rift basin.

Zonation of Microbial Communities by a Hydrothermal Mound in the Atlantis II Deep (the Red Sea)

PubMed Central

Wang, Yong; Li, Jiang Tao; He, Li Sheng; Yang, Bo; Gao, Zhao Ming; Cao, Hui Luo; Batang, Zenon; Al-Suwailem, Abdulaziz; Qian, Pei-Yuan

2015-01-01

In deep-sea geothermal rift zones, the dispersal of hydrothermal fluids of moderately-high temperatures typically forms subseafloor mounds. Major mineral components of the crust covering the mound are barite and metal sulfides. As a result of the continental rifting along the Red Sea, metalliferous sediments accumulate on the seafloor of the Atlantis II Deep. In the present study, a barite crust was identified in a sediment core from the Atlantis II Deep, indicating the formation of a hydrothermal mound at the sampling site. Here, we examined how such a dense barite crust could affect the local environment and the distribution of microbial inhabitants. Our results demonstrate distinctive features of mineral components and microbial communities in the sediment layers separated by the barite crust. Within the mound, archaea accounted for 65% of the community. In contrast, the sediments above the barite boundary were overwhelmed by bacteria. The composition of microbial communities under the mound was similar to that in the sediments of the nearby Discovery Deep and marine cold seeps. This work reveals the zonation of microbial communities after the formation of the hydrothermal mound in the subsurface sediments of the rift basin. PMID:26485717

Prevalence of the Chloroflexi-Related SAR202 Bacterioplankton Cluster throughout the Mesopelagic Zone and Deep Ocean†

PubMed Central

Morris, R. M.; Rappé, M. S.; Urbach, E.; Connon, S. A.; Giovannoni, S. J.

2004-01-01

Since their initial discovery in samples from the north Atlantic Ocean, 16S rRNA genes related to the environmental gene clone cluster known as SAR202 have been recovered from pelagic freshwater, marine sediment, soil, and deep subsurface terrestrial environments. Together, these clones form a major, monophyletic subgroup of the phylum Chloroflexi. While members of this diverse group are consistently identified in the marine environment, there are currently no cultured representatives, and very little is known about their distribution or abundance in the world's oceans. In this study, published and newly identified SAR202-related 16S rRNA gene sequences were used to further resolve the phylogeny of this cluster and to design taxon-specific oligonucleotide probes for fluorescence in situ hybridization. Direct cell counts from the Bermuda Atlantic time series study site in the north Atlantic Ocean, the Hawaii ocean time series site in the central Pacific Ocean, and along the Newport hydroline in eastern Pacific coastal waters showed that SAR202 cluster cells were most abundant below the deep chlorophyll maximum and that they persisted to 3,600 m in the Atlantic Ocean and to 4,000 m in the Pacific Ocean, the deepest samples used in this study. On average, members of the SAR202 group accounted for 10.2% (±5.7%) of all DNA-containing bacterioplankton between 500 and 4,000 m. PMID:15128540

Life strategies of a ubiquitous and abundant subsurface archaeal group Bathyarchaeota

NASA Astrophysics Data System (ADS)

He, Y.; Li, M.; Perumal, V.; Feng, X.; Sievert, S. M.; Wang, F.

2015-12-01

Archaea belonging to the Miscellaneous Crenarchaeota Group (MCG, "Candidatus Bathyarchaeota") are widespread and abundant in the deep biosphere, yet their life strategies and ecological roles remain elusive. Metagenomic sequencing of a sample enriched in Bathyarchaeota (up to 74%) that originated from Guaymas Basin deep-sea vent sediments revealed 6 partial to nearly completed Bathyarchaeota genomic bins. ranging ~900kb-3.3Mb. The Bathyarchaeota bin size ranged from approximately 0.9 to 3.3 Mb, with coverage ranging from approximately 10× to 28×. The phylogeny based on 110 concatenated conserved archaeal single copy genes confirmed the placement of Bathyarchaeota into a novel archaeal phylum. Genes encoding for enzymes involved in the degradation of organic polymers such as protein, cellulose, chitin, and aromatic compounds, were identified. In addition, genes encoding glycolysis/gluconeogenesis, beta-oxidation pathways and the tricarboxylic acid cycle (except citrate synthase) were present in all genomic bins highlighting the heterotrophic life style of Bathyarchaeota. The presence of a wide variety of transporters of organic compounds further supports the versatile heterotrophic metabolism of Bathyarchaeota. This study highlights the life strategies of a ubiquitous and abundant subsurface archaeal group that thrives under energy-limited conditions, and expands the metabolic potentials of Archaea that play important roles in carbon cycling in marine sediments.

Biogeography of serpentinite-hosted microbial ecosystems

NASA Astrophysics Data System (ADS)

Brazelton, W.; Cardace, D.; Fruh-Green, G.; Lang, S. Q.; Lilley, M. D.; Morrill, P. L.; Szponar, N.; Twing, K. I.; Schrenk, M. O.

2012-12-01

Ultramafic rocks in the Earth's mantle represent a tremendous reservoir of carbon and reducing power. Upon tectonic uplift and exposure to fluid flow, serpentinization of these materials generates copious energy, sustains abiogenic synthesis of organic molecules, and releases hydrogen gas (H2). To date, however, the "serpentinite microbiome" is poorly constrained- almost nothing is known about the microbial diversity endemic to rocks actively undergoing serpentinization. Through the Census of Deep Life, we have obtained 16S rRNA gene pyrotag sequences from fluids and rocks from serpentinizing ophiolites in California, Canada, and Italy. The samples include high pH serpentinite springs, presumably representative of deeper environments within the ophiolite complex, wells which directly access subsurface aquifers, and rocks obtained from drill cores into serpentinites. These data represent a unique opportunity to examine biogeographic patterns among a restricted set of microbial taxa that are adapted to similar environmental conditions and are inhabiting sites with related geological histories. In general, our results point to potentially H2-utilizing Betaproteobacteria thriving in shallow, oxic-anoxic transition zones and anaerobic Clostridia thriving in anoxic, deep subsurface habitats. These general taxonomic and biogeochemical trends were also observed in seafloor Lost City hydrothermal chimneys, indicating that we are beginning to identify a core serpentinite microbial community that spans marine and continental settings.

Biogeochemical Cycle of Methanol in Anoxic Deep-Sea Sediments

PubMed Central

Yanagawa, Katsunori; Tani, Atsushi; Yamamoto, Naoya; Hachikubo, Akihiro; Kano, Akihiro; Matsumoto, Ryo; Suzuki, Yohey

2016-01-01

The biological flux and lifetime of methanol in anoxic marine sediments are largely unknown. We herein reported, for the first time, quantitative methanol removal rates in subsurface sediments. Anaerobic incubation experiments with radiotracers showed high rates of microbial methanol consumption. Notably, methanol oxidation to CO2 surpassed methanol assimilation and methanogenesis from CO2/H2 and methanol. Nevertheless, a significant decrease in methanol was not observed after the incubation, and this was attributed to the microbial production of methanol in parallel with its consumption. These results suggest that microbial reactions play an important role in the sources and sinks of methanol in subseafloor sediments. PMID:27301420

North Atlantic deep water formation and AMOC in CMIP5 models

NASA Astrophysics Data System (ADS)

Heuzé, Céline; Wåhlin, Anna

2017-04-01

North Atlantic deep water formation processes and properties in climate models are indicative of their ability to simulate future ocean circulation, ventilation, carbon and heat uptake, and sea level rise. Historical time series of temperature, salinity, sea ice concentration and ocean transport in the North Atlantic subpolar gyre and Nordic Seas from 23 CMIP5 (Climate Model Intercomparison Project, phase 5) models are compared with observations to reveal the causes and consequences of North Atlantic deep water formation in models. Deep convection occurs at the sea ice edge and is most realistic in models with accurate sea ice extent, mostly those using the CICE model. The trigger of deep convection varies among models; for one third it is intense surface cooling only, while the remaining two thirds also need upward mixing of subsurface warm salty water. The models with the most intense deep convection have the most accurate deep water properties, which are warmer and fresher than in the other models. They also have the strongest Atlantic Meridional Overturning Circulation (AMOC). For over half of the models, 40% of the variability of the AMOC is explained by the volumes of deep water produced in the subpolar gyre and Nordic Seas, with 3 and 4 years lag respectively. Understanding the dynamical drivers of the AMOC in models is key to realistically forecast a possible slow down and its consequences on the global circulation and marine life.

Geomicrobiology and Metagenomics of Terrestrial Deep Subsurface Microbiomes.

PubMed

Itävaara, M; Salavirta, H; Marjamaa, K; Ruskeeniemi, T

2016-01-01

Fractures in the deep subsurface of Earth's crust are inhabited by diverse microbial communities that participate in biogeochemical cycles of the Earth. Life on Earth, which arose c. 3.5-4.0 billion years ago, reaches down at least 5 km in the crust. Deep mines, caves, and boreholes have provided scientists with opportunities to sample deep subsurface microbiomes and to obtain information on the species diversity and functions. A wide variety of bacteria, archaea, eukaryotes, and viruses are now known to reside in the crust, but their functions are still largely unknown. The crust at different depths has varying geological composition and hosts endemic microbiomes accordingly. The diversity is driven by geological formations and gases evolving from deeper depths. Cooperation among different species is still mostly unexplored, but viruses are known to restrict density of bacterial and archaeal populations. Due to the complex growth requirements of the deep subsurface microbiomes, the new knowledge about their diversity and functions is mostly obtained by molecular methods, eg, meta'omics'. Geomicrobiology is a multidisciplinary research area combining disciplines from geology, mineralogy, geochemistry, and microbiology. Geomicrobiology is concerned with the interaction of microorganisms and geological processes. At the surface of mineralogical or rock surfaces, geomicrobial processes occur mainly under aerobic conditions. In the deep subsurface, however, the environmental conditions are reducing and anaerobic. The present chapter describes the world of microbiomes in deep terrestrial geological environments as well as metagenomic and metatranscriptomic methods suitable for studies of these enigmatic communities. Copyright © 2016 Elsevier Inc. All rights reserved.

Subsurface microbial habitats on Mars

NASA Technical Reports Server (NTRS)

Boston, P. J.; Mckay, C. P.

1991-01-01

We developed scenarios for shallow and deep subsurface cryptic niches for microbial life on Mars. Such habitats could have considerably prolonged the persistence of life on Mars as surface conditions became increasingly inhospitable. The scenarios rely on geothermal hot spots existing below the near or deep subsurface of Mars. Recent advances in the comparatively new field of deep subsurface microbiology have revealed previously unsuspected rich aerobic and anaerobic microbal communities far below the surface of the Earth. Such habitats, protected from the grim surface conditions on Mars, could receive warmth from below and maintain water in its liquid state. In addition, geothermally or volcanically reduced gases percolating from below through a microbiologically active zone could provide the reducing power needed for a closed or semi-closed microbial ecosystem to thrive.

Fungal and Prokaryotic Activities in the Marine Subsurface Biosphere at Peru Margin and Canterbury Basin Inferred from RNA-Based Analyses and Microscopy

PubMed Central

Pachiadaki, Maria G.; Rédou, Vanessa; Beaudoin, David J.; Burgaud, Gaëtan; Edgcomb, Virginia P.

2016-01-01

The deep sedimentary biosphere, extending 100s of meters below the seafloor harbors unexpected diversity of Bacteria, Archaea, and microbial eukaryotes. Far less is known about microbial eukaryotes in subsurface habitats, albeit several studies have indicated that fungi dominate microbial eukaryotic communities and fungal molecular signatures (of both yeasts and filamentous forms) have been detected in samples as deep as 1740 mbsf. Here, we compare and contrast fungal ribosomal RNA gene signatures and whole community metatranscriptomes present in sediment core samples from 6 and 95 mbsf from Peru Margin site 1229A and from samples from 12 and 345 mbsf from Canterbury Basin site U1352. The metatranscriptome analyses reveal higher relative expression of amino acid and peptide transporters in the less nutrient rich Canterbury Basin sediments compared to the nutrient rich Peru Margin, and higher expression of motility genes in the Peru Margin samples. Higher expression of genes associated with metals transporters and antibiotic resistance and production was detected in Canterbury Basin sediments. A poly-A focused metatranscriptome produced for the Canterbury Basin sample from 345 mbsf provides further evidence for active fungal communities in the subsurface in the form of fungal-associated transcripts for metabolic and cellular processes, cell and membrane functions, and catalytic activities. Fungal communities at comparable depths at the two geographically separated locations appear dominated by distinct taxa. Differences in taxonomic composition and expression of genes associated with particular metabolic activities may be a function of sediment organic content as well as oceanic province. Microscopic analysis of Canterbury Basin sediment samples from 4 and 403 mbsf produced visualizations of septate fungal filaments, branching fungi, conidiogenesis, and spores. These images provide another important line of evidence supporting the occurrence and activity of fungi in the deep subseafloor biosphere. PMID:27375571

Fungal and Prokaryotic Activities in the Marine Subsurface Biosphere at Peru Margin and Canterbury Basin Inferred from RNA-Based Analyses and Microscopy.

PubMed

Pachiadaki, Maria G; Rédou, Vanessa; Beaudoin, David J; Burgaud, Gaëtan; Edgcomb, Virginia P

2016-01-01

The deep sedimentary biosphere, extending 100s of meters below the seafloor harbors unexpected diversity of Bacteria, Archaea, and microbial eukaryotes. Far less is known about microbial eukaryotes in subsurface habitats, albeit several studies have indicated that fungi dominate microbial eukaryotic communities and fungal molecular signatures (of both yeasts and filamentous forms) have been detected in samples as deep as 1740 mbsf. Here, we compare and contrast fungal ribosomal RNA gene signatures and whole community metatranscriptomes present in sediment core samples from 6 and 95 mbsf from Peru Margin site 1229A and from samples from 12 and 345 mbsf from Canterbury Basin site U1352. The metatranscriptome analyses reveal higher relative expression of amino acid and peptide transporters in the less nutrient rich Canterbury Basin sediments compared to the nutrient rich Peru Margin, and higher expression of motility genes in the Peru Margin samples. Higher expression of genes associated with metals transporters and antibiotic resistance and production was detected in Canterbury Basin sediments. A poly-A focused metatranscriptome produced for the Canterbury Basin sample from 345 mbsf provides further evidence for active fungal communities in the subsurface in the form of fungal-associated transcripts for metabolic and cellular processes, cell and membrane functions, and catalytic activities. Fungal communities at comparable depths at the two geographically separated locations appear dominated by distinct taxa. Differences in taxonomic composition and expression of genes associated with particular metabolic activities may be a function of sediment organic content as well as oceanic province. Microscopic analysis of Canterbury Basin sediment samples from 4 and 403 mbsf produced visualizations of septate fungal filaments, branching fungi, conidiogenesis, and spores. These images provide another important line of evidence supporting the occurrence and activity of fungi in the deep subseafloor biosphere.

The life sulfuric: microbial ecology of sulfur cycling in marine sediments.

PubMed

Wasmund, Kenneth; Mußmann, Marc; Loy, Alexander

2017-08-01

Almost the entire seafloor is covered with sediments that can be more than 10 000 m thick and represent a vast microbial ecosystem that is a major component of Earth's element and energy cycles. Notably, a significant proportion of microbial life in marine sediments can exploit energy conserved during transformations of sulfur compounds among different redox states. Sulfur cycling, which is primarily driven by sulfate reduction, is tightly interwoven with other important element cycles (carbon, nitrogen, iron, manganese) and therefore has profound implications for both cellular- and ecosystem-level processes. Sulfur-transforming microorganisms have evolved diverse genetic, metabolic, and in some cases, peculiar phenotypic features to fill an array of ecological niches in marine sediments. Here, we review recent and selected findings on the microbial guilds that are involved in the transformation of different sulfur compounds in marine sediments and emphasise how these are interlinked and have a major influence on ecology and biogeochemistry in the seafloor. Extraordinary discoveries have increased our knowledge on microbial sulfur cycling, mainly in sulfate-rich surface sediments, yet many questions remain regarding how sulfur redox processes may sustain the deep-subsurface biosphere and the impact of organic sulfur compounds on the marine sulfur cycle. © 2017 The Authors. Environmental Microbiology published by Society for Applied Microbiology and John Wiley & Sons Ltd.

Effects of legacy nuclear waste on the compositional diversity and distributions of sulfate-reducing bacteria in a terrestrial subsurface aquifer.

PubMed

Bagwell, Christopher E; Liu, Xuaduan; Wu, Liyou; Zhou, Jizhong

2006-03-01

The impact of legacy nuclear waste on the compositional diversity and distribution of sulfate-reducing bacteria in a heavily contaminated subsurface aquifer was examined. dsrAB clone libraries were constructed and restriction fragment length polymorphism (RFLP) analysis used to evaluate genetic variation between sampling wells. Principal component analysis identified nickel, nitrate, technetium, and organic carbon as the primary variables contributing to well-to-well geochemical variability, although comparative sequence analysis showed the sulfate-reducing bacteria community structure to be consistent throughout contaminated and uncontaminated regions of the aquifer. Only 3% of recovered dsrAB gene sequences showed apparent membership to the Deltaproteobacteria. The remainder of recovered sequences may represent novel, deep-branching lineages that, to our knowledge, do not presently contain any cultivated members; although corresponding phylotypes have recently been reported from several different marine ecosystems. These findings imply resiliency and adaptability of sulfate-reducing bacteria to extremes in environmental conditions, although the possibility for horizontal transfer of dsrAB is also discussed.

Deep-Subsurface Marine Methane Hydrate Microbial Communities: Who's There and What Are They Doing?

NASA Astrophysics Data System (ADS)

Colwell, F.; Reed, D.; Fujita, Y.; Delwiche, M.; Blackwelder, D.; Uchida, T.; Fujii, T.; Lu, H.

2001-12-01

Natural gas hydrates are crystalline deposits of freshwater and primarily methane. They are estimated to represent a potentially vast reservoir of energy. Relatively little is known regarding microbial communities surrounding deep [>100 meters below sea floor (mbsf)] hydrate-bearing sediments. Deep sediment cores were collected in zones above, within, and below the hydrate bearing strata in an accretionary prism off the coast of Japan. Microorganisms were characterized using cultivation- and non-cultivation-based microbiological techniques to better understand the role that they play in the production and distribution of methane in gas hydrates. Direct counts show cell density at 105 cells/g throughout the hydrate strata. Lipid and 16S rDNA analyses indicate that diverse bacterial and archaeal microorganisms are represented throughout the strata. Acetate and hydrogen were utilized as an energy source for methane-producing microorganisms from each sediment depth. Although the methanogenic biomarker coenzyme M was not present above the detection limit in any of the samples, cloning and characterization of amplified 16S ribosomal RNA genes indicated the presence of methanogenic microorganisms related to the Methanobacteriales and Methanococcales. In addition, archaeal clones closely related to the hyperthermophilic Pyrodictiales were detected. Analysis of eubacterial clones indicated a more diverse eubacterial community compared to the archaea, including members from the groups of cyanobacteria, proteobacteria, gram positive bacteria, and flexibacter-cytophaga-bacteriodes. This study suggests that the diversity of microbial communities associated with the presence of methane in gas hydrate-rich deep marine sediments is greater than previously estimated.

Identification and Removal of Contaminant Sequences From Ribosomal Gene Databases: Lessons From the Census of Deep Life

PubMed Central

Sheik, Cody S.; Reese, Brandi Kiel; Twing, Katrina I.; Sylvan, Jason B.; Grim, Sharon L.; Schrenk, Matthew O.; Sogin, Mitchell L.; Colwell, Frederick S.

2018-01-01

Earth’s subsurface environment is one of the largest, yet least studied, biomes on Earth, and many questions remain regarding what microorganisms are indigenous to the subsurface. Through the activity of the Census of Deep Life (CoDL) and the Deep Carbon Observatory, an open access 16S ribosomal RNA gene sequence database from diverse subsurface environments has been compiled. However, due to low quantities of biomass in the deep subsurface, the potential for incorporation of contaminants from reagents used during sample collection, processing, and/or sequencing is high. Thus, to understand the ecology of subsurface microorganisms (i.e., the distribution, richness, or survival), it is necessary to minimize, identify, and remove contaminant sequences that will skew the relative abundances of all taxa in the sample. In this meta-analysis, we identify putative contaminants associated with the CoDL dataset, recommend best practices for removing contaminants from samples, and propose a series of best practices for subsurface microbiology sampling. The most abundant putative contaminant genera observed, independent of evenness across samples, were Propionibacterium, Aquabacterium, Ralstonia, and Acinetobacter. While the top five most frequently observed genera were Pseudomonas, Propionibacterium, Acinetobacter, Ralstonia, and Sphingomonas. The majority of the most frequently observed genera (high evenness) were associated with reagent or potential human contamination. Additionally, in DNA extraction blanks, we observed potential archaeal contaminants, including methanogens, which have not been discussed in previous contamination studies. Such contaminants would directly affect the interpretation of subsurface molecular studies, as methanogenesis is an important subsurface biogeochemical process. Utilizing previously identified contaminant genera, we found that ∼27% of the total dataset were identified as contaminant sequences that likely originate from DNA extraction and DNA cleanup methods. Thus, controls must be taken at every step of the collection and processing procedure when working with low biomass environments such as, but not limited to, portions of Earth’s deep subsurface. Taken together, we stress that the CoDL dataset is an incredible resource for the broader research community interested in subsurface life, and steps to remove contamination derived sequences must be taken prior to using this dataset. PMID:29780369

Identification and Removal of Contaminant Sequences From Ribosomal Gene Databases: Lessons From the Census of Deep Life.

PubMed

Sheik, Cody S; Reese, Brandi Kiel; Twing, Katrina I; Sylvan, Jason B; Grim, Sharon L; Schrenk, Matthew O; Sogin, Mitchell L; Colwell, Frederick S

2018-01-01

Earth's subsurface environment is one of the largest, yet least studied, biomes on Earth, and many questions remain regarding what microorganisms are indigenous to the subsurface. Through the activity of the Census of Deep Life (CoDL) and the Deep Carbon Observatory, an open access 16S ribosomal RNA gene sequence database from diverse subsurface environments has been compiled. However, due to low quantities of biomass in the deep subsurface, the potential for incorporation of contaminants from reagents used during sample collection, processing, and/or sequencing is high. Thus, to understand the ecology of subsurface microorganisms (i.e., the distribution, richness, or survival), it is necessary to minimize, identify, and remove contaminant sequences that will skew the relative abundances of all taxa in the sample. In this meta-analysis, we identify putative contaminants associated with the CoDL dataset, recommend best practices for removing contaminants from samples, and propose a series of best practices for subsurface microbiology sampling. The most abundant putative contaminant genera observed, independent of evenness across samples, were Propionibacterium , Aquabacterium , Ralstonia , and Acinetobacter . While the top five most frequently observed genera were Pseudomonas , Propionibacterium , Acinetobacter , Ralstonia , and Sphingomonas . The majority of the most frequently observed genera (high evenness) were associated with reagent or potential human contamination. Additionally, in DNA extraction blanks, we observed potential archaeal contaminants, including methanogens, which have not been discussed in previous contamination studies. Such contaminants would directly affect the interpretation of subsurface molecular studies, as methanogenesis is an important subsurface biogeochemical process. Utilizing previously identified contaminant genera, we found that ∼27% of the total dataset were identified as contaminant sequences that likely originate from DNA extraction and DNA cleanup methods. Thus, controls must be taken at every step of the collection and processing procedure when working with low biomass environments such as, but not limited to, portions of Earth's deep subsurface. Taken together, we stress that the CoDL dataset is an incredible resource for the broader research community interested in subsurface life, and steps to remove contamination derived sequences must be taken prior to using this dataset.

Single cell genomic study of dehalogenating Chloroflexi from deep sea sediments of Peruvian Margin

NASA Astrophysics Data System (ADS)

Spormann, A.; Kaster, A.; Meyer-Blackwell, K.; Biddle, J.

2012-12-01

Dehalogenating Chloroflexi, such as Dehalococcoidites (Dhc), are members of the rare biosphere of deep sea sediments but were originally discovered as the key microbes mediating reductive dehalogenation of the prevalent groundwater contaminants tetrachloroethene and trichloroethene to ethene. Dhc are slow growing, highly niche adapted microbes that are specialized to organohalide respiration as the sole mode of energy conservation. These strictly anaerobic microbes depend on a supporting microbial community to mitigate electron donor and cofactor requirements among other factors. Molecular and genomic studies on the key enzymes for energy conservation, reductive dehalogenases, have provided evidence for rapid adaptive evolution in terrestrial environments. However, the metabolic life style of Dhc in the absence of anthropogenic contaminants, such as in pristine deep sea sediments, is still unknown. In order to provide fundamental insights into life style, genomic population structure and evolution of Dhc, we analyzed a non-contaminated deep sea sediment sample of the Peru Margin 1230 site collected 6 mbf by a metagenomic and single cell genomic. We present for the first time single cell genomic data on dehalogenating Chloroflexi, a significant microbial population in the poorly understood oligotrophic marine sub-surface environments.

Single cell genomic study of dehalogenating Chloroflexi in deep sea sediments of Peru Margin 1230

NASA Astrophysics Data System (ADS)

Kaster, A.; Meyer-Blackwell, K.; Biddle, J.; Spormann, A.

2012-12-01

Dehalogenating Chloroflexi, such as Dehalococcoidites (Dhc), are members of the rare biosphere of deep sea sediments but were originally discovered as the key microbes mediating reductive dehalogenation of the prevalent groundwater contaminants tetrachloroethene and trichloroethene to ethene. Dhc are slow growing, highly niche adapted microbes that are specialized to organohalide respiration as the sole mode of energy conservation. They are strictly anaerobic microbes that depend on a supporting microbial community for electron donor and cofactor requirements among other factors. Molecular and genomic studies on the key enzymes for energy conservation, reductive dehalogenases, have provided evidence for rapid adaptive evolution in terrestrial environments. However, the metabolic life style of Dhc in the absence of anthropogenic contaminants, such as in pristine deep sea sediments, is still unknown. In order to provide fundamental insights into life style, genomic population structure and evolution of Dhc, we analyzed a non-contaminated deep sea sediment sample of the Peru Margin 1230 site collected 6 mbsf by a metagenomic and single cell genomic approach. We present for the first time single cell genomic data on dehalogenating Chloroflexi, a significant microbial population in the poorly understood oligotrophic marine sub-surface environment.

Microbial metagenomes from three aquifers in the Fennoscandian shield terrestrial deep biosphere reveal metabolic partitioning among populations

PubMed Central

Wu, Xiaofen; Holmfeldt, Karin; Hubalek, Valerie; Lundin, Daniel; Åström, Mats; Bertilsson, Stefan; Dopson, Mark

2016-01-01

Microorganisms in the terrestrial deep biosphere host up to 20% of the earth's biomass and are suggested to be sustained by the gases hydrogen and carbon dioxide. A metagenome analysis of three deep subsurface water types of contrasting age (from <20 to several thousand years) and depth (171 to 448 m) revealed phylogenetically distinct microbial community subsets that either passed or were retained by a 0.22 μm filter. Such cells of <0.22 μm would have been overlooked in previous studies relying on membrane capture. Metagenomes from the three water types were used for reconstruction of 69 distinct microbial genomes, each with >86% coverage. The populations were dominated by Proteobacteria, Candidate divisions, unclassified archaea and unclassified bacteria. The estimated genome sizes of the <0.22 μm populations were generally smaller than their phylogenetically closest relatives, suggesting that small dimensions along with a reduced genome size may be adaptations to oligotrophy. Shallow ‘modern marine' water showed community members with a predominantly heterotrophic lifestyle. In contrast, the deeper, ‘old saline' water adhered more closely to the current paradigm of a hydrogen-driven deep biosphere. The data were finally used to create a combined metabolic model of the deep terrestrial biosphere microbial community. PMID:26484735

Microbial metagenomes from three aquifers in the Fennoscandian shield terrestrial deep biosphere reveal metabolic partitioning among populations.

PubMed

Wu, Xiaofen; Holmfeldt, Karin; Hubalek, Valerie; Lundin, Daniel; Åström, Mats; Bertilsson, Stefan; Dopson, Mark

2016-05-01

Microorganisms in the terrestrial deep biosphere host up to 20% of the earth's biomass and are suggested to be sustained by the gases hydrogen and carbon dioxide. A metagenome analysis of three deep subsurface water types of contrasting age (from <20 to several thousand years) and depth (171 to 448 m) revealed phylogenetically distinct microbial community subsets that either passed or were retained by a 0.22 μm filter. Such cells of <0.22 μm would have been overlooked in previous studies relying on membrane capture. Metagenomes from the three water types were used for reconstruction of 69 distinct microbial genomes, each with >86% coverage. The populations were dominated by Proteobacteria, Candidate divisions, unclassified archaea and unclassified bacteria. The estimated genome sizes of the <0.22 μm populations were generally smaller than their phylogenetically closest relatives, suggesting that small dimensions along with a reduced genome size may be adaptations to oligotrophy. Shallow 'modern marine' water showed community members with a predominantly heterotrophic lifestyle. In contrast, the deeper, 'old saline' water adhered more closely to the current paradigm of a hydrogen-driven deep biosphere. The data were finally used to create a combined metabolic model of the deep terrestrial biosphere microbial community.

The Search for Sustainable Subsurface Habitats on Mars, and the Sampling of Impact Ejecta

NASA Astrophysics Data System (ADS)

Ivarsson, Magnus; Lindgren, Paula

2010-07-01

On Earth, the deep subsurface biosphere of both the oceanic and the continental crust is well known for surviving harsh conditions and environments characterized by high temperatures, high pressures, extreme pHs, and the absence of sunlight. The microorganisms of the terrestrial deep biosphere have an excellent capacity for adapting to changing geochemistry, as the alteration of the crust proceeds and the conditions of their habitats slowly change. Despite an almost complete isolation from surface conditions and the surface biosphere, the deep biosphere of the crustal rocks has endured over geologic time. This indicates that the deep biosphere is a self-sufficient system, independent of the global events that occur at the surface, such as impacts, glaciations, sea level fluctuations, and climate changes. With our sustainable terrestrial subsurface biosphere in mind, the subsurface on Mars has often been suggested as the most plausible place to search for fossil Martian life, or even present Martian life. Since the Martian surface is more or less sterile, subsurface settings are the only place on Mars where life could have been sustained over geologic time. To detect a deep biosphere in the Martian basement, drilling is a requirement. However, near future Mars sample return missions are limited by the mission's payload, which excludes heavy drilling equipment and restrict the missions to only dig the topmost meter of the Martian soil. Therefore, the sampling and analysis of Martian impact ejecta has been suggested as a way of accessing the deeper Martian subsurface without using heavy drilling equipment. Impact cratering is a natural geological process capable of excavating and exposing large amounts of rock material from great depths up to the surface. Several studies of terrestrial impact deposits show the preservation of pre-impact biosignatures, such as fossilized organisms and chemical biological markers. Therefore, if the Martian subsurface contains a record of life, it is reasonable to assume that biosignatures derived from the Martian subsurface could also be preserved in the Martian impact ejecta.

Viral Tracer Studies Indicate Contamination of Marine Waters by Sewage Disposal Practices in Key Largo, Florida

PubMed Central

Paul, J. H.; Rose, J. B.; Brown, J.; Shinn, E. A.; Miller, S.; Farrah, S. R.

1995-01-01

Domestic wastewater disposal practices in the Florida Keys are primarily limited to on-site disposal systems such as septic tanks, injection wells, and illegal cesspits. Poorly treated sewage is thus released into the highly porous subsurface Key Largo limestone matrix. To investigate the fate and transport of sewage in the subsurface environment and the potential for contamination of marine surface waters, we employed bacteriophages as tracers in a domestic septic system and a simulated injection well in Key Largo, Florida. Transport of bacteriophage (Phi)HSIC-1 from the septic tank to adjacent surface canal waters and outstanding marine waters occurred in as little as 11 and 23 h, respectively. Transport of the Salmonella phage PRD1 from the simulated injection well to a canal adjacent to the injection site occurred in 11.2 h. Estimated rates of migration of viral tracers ranged from 0.57 to 24.2 m/h, over 500-fold greater than flow rates measured previously by subsurface flow meters in similar environments. These results suggest that current on-site disposal practices can lead to contamination of the subsurface and surface marine waters in the Keys. PMID:16535046

Viral tracer studies indicate contamination of marine waters by sewage disposal practices in key largo, Florida.

PubMed

Paul, J H; Rose, J B; Brown, J; Shinn, E A; Miller, S; Farrah, S R

1995-06-01

Domestic wastewater disposal practices in the Florida Keys are primarily limited to on-site disposal systems such as septic tanks, injection wells, and illegal cesspits. Poorly treated sewage is thus released into the highly porous subsurface Key Largo limestone matrix. To investigate the fate and transport of sewage in the subsurface environment and the potential for contamination of marine surface waters, we employed bacteriophages as tracers in a domestic septic system and a simulated injection well in Key Largo, Florida. Transport of bacteriophage (Phi)HSIC-1 from the septic tank to adjacent surface canal waters and outstanding marine waters occurred in as little as 11 and 23 h, respectively. Transport of the Salmonella phage PRD1 from the simulated injection well to a canal adjacent to the injection site occurred in 11.2 h. Estimated rates of migration of viral tracers ranged from 0.57 to 24.2 m/h, over 500-fold greater than flow rates measured previously by subsurface flow meters in similar environments. These results suggest that current on-site disposal practices can lead to contamination of the subsurface and surface marine waters in the Keys.

In-Situ Contained And Of Volatile Soil Contaminants

DOEpatents

Varvel, Mark Darrell

2005-12-27

The invention relates to a novel approach to containing and removing toxic waste from a subsurface environment. More specifically the present invention relates to a system for containing and removing volatile toxic chemicals from a subsurface environment using differences in surface and subsurface pressures. The present embodiment generally comprises a deep well, a horizontal tube, at least one injection well, at least one extraction well and a means for containing the waste within the waste zone (in-situ barrier). During operation the deep well air at the bottom of well (which is at a high pressure relative to the land surface as well as relative to the air in the contaminated soil) flows upward through the deep well (or deep well tube). This stream of deep well air is directed into the horizontal tube, down through the injection tube(s) (injection well(s)) and into the contaminate plume where it enhances volatization and/or removal of the contaminants.

In-Situ Containment and Extraction of Volatile Soil Contaminants

DOEpatents

Varvel, Mark Darrell

2005-12-27

The invention relates to a novel approach to containing and removing toxic waste from a subsurface environment. More specifically the present invention relates to a system for containing and removing volatile toxic chemicals from a subsurface environment using differences in surface and subsurface pressures. The present embodiment generally comprises a deep well, a horizontal tube, at least one injection well, at least one extraction well and a means for containing the waste within the waste zone (in-situ barrier). During operation the deep well air at the bottom of well (which is at a high pressure relative to the land surface as well as relative to the air in the contaminated soil) flows upward through the deep well (or deep well tube). This stream of deep well air is directed into the horizontal tube, down through the injection tube(s) (injection well(s)) and into the contaminate plume where it enhances volatization and/or removal of the contaminants.

Trends and future challenges in sampling the deep terrestrial biosphere.

PubMed

Wilkins, Michael J; Daly, Rebecca A; Mouser, Paula J; Trexler, Ryan; Sharma, Shihka; Cole, David R; Wrighton, Kelly C; Biddle, Jennifer F; Denis, Elizabeth H; Fredrickson, Jim K; Kieft, Thomas L; Onstott, Tullis C; Peterson, Lee; Pfiffner, Susan M; Phelps, Tommy J; Schrenk, Matthew O

2014-01-01

Research in the deep terrestrial biosphere is driven by interest in novel biodiversity and metabolisms, biogeochemical cycling, and the impact of human activities on this ecosystem. As this interest continues to grow, it is important to ensure that when subsurface investigations are proposed, materials recovered from the subsurface are sampled and preserved in an appropriate manner to limit contamination and ensure preservation of accurate microbial, geochemical, and mineralogical signatures. On February 20th, 2014, a workshop on "Trends and Future Challenges in Sampling The Deep Subsurface" was coordinated in Columbus, Ohio by The Ohio State University and West Virginia University faculty, and sponsored by The Ohio State University and the Sloan Foundation's Deep Carbon Observatory. The workshop aims were to identify and develop best practices for the collection, preservation, and analysis of terrestrial deep rock samples. This document summarizes the information shared during this workshop.

Marine magnetic survey and onshore gravity and magnetic survey, San Pablo Bay, northern California

USGS Publications Warehouse

Ponce, David A.; Denton, Kevin M.; Watt, Janet T.

2016-09-12

IntroductionFrom November 2011 to August 2015, the U.S. Geological Survey (USGS) collected more than 1,000 line-kilometers (length of lines surveyed in kilometers) of marine magnetic data on San Pablo Bay, 98 onshore gravity stations, and over 27 line-kilometers of ground magnetic data in northern California. Combined magnetic and gravity investigations were undertaken to study subsurface geologic structures as an aid in understanding the geologic framework and earthquake hazard potential in the San Francisco Bay Area. Furthermore, marine magnetic data illuminate local subsurface geologic features in the shallow crust beneath San Pablo Bay where geologic exposure is absent.Magnetic and gravity methods, which reflect contrasting physical properties of the subsurface, are ideal for studying San Pablo Bay. Exposed rock units surrounding San Pablo Bay consist mainly of Jurassic Coast Range ophiolite, Great Valley sequence, Franciscan Complex rocks, Miocene sedimentary rocks, and unconsolidated alluvium (Graymer and others, 2006). The contrasting magnetic and density properties of these rocks enable us to map their subsurface extent.

Subsurface dolomite formation during post-depositional flow of sulphate-bearing fluids from underlying salt giants: Early Pliocene example at DSDP Leg 42A, Site 374, Ionian Abyssal Plain

NASA Astrophysics Data System (ADS)

McKenzie, Judith A.; Evans, Nick; Hodell, David; Aloisi, Giovanni; Vasconcelos, Crisogono

2017-04-01

Deciphering exact mechanisms for the formation of massive dolomite deposits has long been an enigma in sedimentary geology. The recognition that microbes can play a role in the dolomite precipitation process has added a new dimension to the study of the origin of dolomite formations in both shallow and deep-water environments. This scientific advance has evolved, particularly, through the investigation of dolomite-containing, organic-rich hemipelagic sediments cored on various continental margins during DSDP and ODP drilling campaigns, as well as intensive evaluations of modern hypersaline dolomite-precipitating environments with complementary culture experiments conducted in the laboratory. For example, the association of an active subsurface microbial community in contact with underlying brines of unknown origin leading to in situ dolomite precipitation has been observed in a Quaternary sequence of hemi-pelagic, organic carbon-rich sediments drilled on the Peru Margin, ODP Leg 201, Site 1229 (1). Specifically, it can be concluded that the long-term activity of subsurface microbes can be maintained by post-depositional flow of sulfate-bearing fluids from underlying large-scale evaporite deposits, or salt giants, promoting in situ dolomite precipitation. Another example of dolomite precipitation directly associated with the underlying Messinian salt giant was found at DSDP Leg 42A, Site 374 in the Ionian Abyssal Plain. Deep-sea drilling recovered a lowermost Pliocene sequence of diagenetically altered sediment (Unit II) separating the overlying Pliocene open-marine deposits (Unit I) and the underlying end Messinian dolomitic mudstone with gypsum layers (Unit III). The lower portion of this altered interval contained in Core 11, Section 2 (378.0 - 381.5 mbsf) comprises a dolomicrite with an unusual crystal morphology (2). The original interstitial water geochemical profiles indicate that a saline brine is diffusing upwards from below and into the dolomicrite sequence. There appears to be on-going bacterial sulfate reduction in this boundary zone between the evaporitic and normal pelagic sediments with a significant decrease in sulfate concentrations, whereas the chloride profile remains constant. It was concluded that the earliest Pliocene marine sediments of Unit II had been dolomitized after burial as a consequence of ionic migration across a steep Mg-concentration gradient (3). However, with the addition of a microbial factor into the study of the dolomite precipitation process, an alternate interpretation is possible. We propose that, at the location of DSDP Leg 42A, Site 374, modern subsurface dolomite precipitation is ongoing and the site is a "natural laboratory" in which to investigate the microbial phenomenon in the context of a giant evaporite deposit. This actualistic example may provide a new model for the origin of massive dolomite deposits associated with other salt giants in the rock record. (1) Meister, P., et al., 2007. Sedimentology, 54, 1007-1031. (2) Bernoulli, D. & Mélières, F., 1978. In: Hsü, K., Montadert, L. et al., 1978. Initial Reports of the Deep Sea Drilling Project, Volume 42, Part 1, 621-633. (3) McDuff, R.E., et al., 1978. In: Hsü, K., Montadert, L. et al., 1978. Initial Reports of the Deep Sea Drilling Project, Volume 42, Part 1, 561-568.

Genomic Evidence of Chemotrophic Metabolisms in Deep-Dwelling Chloroflexi Conferred by Ancient Horizontal Gene Transfer Events

NASA Astrophysics Data System (ADS)

Momper, L. M.; Magnabosco, C.; Amend, J.; Osburn, M. R.; Fournier, G. P.

2017-12-01

The marine and terrestrial subsurface biospheres represent quite likely the largest reservoirs for life on Earth, directly impacting surface processes and global cycles throughout Earth's history. In the deep subsurface biosphere (DSB) organic carbon and energy are often extremely scarce. However, archaea and bacteria are able to persist in the DSB to at least 3.5 km below surface [1]. Understanding how they persist, and by what metabolisms they subsist, are key questions in this biosphere. To address these questions we investigated 5 global DSB environments: one legacy mine in South Dakota, USA, 3 mines in South Africa and marine fluids circulating beneath the Juan de Fuca Ridge. Boreholes within these mines provided access to fluids buried beneath the earth's surface and sampled depths down to 3.1 km. Geochemical data were collected concomitantly with DNA for metagenomic sequencing. We examined genomes of the ancient and deeply branching Chloroflexi for metabolic capabilities and interrogated the geochemical drivers behind those metabolisms with in situ thermodynamic modeling of reaction energetics. In total, 23 Chloroflexi genomes were identified and analyzed from the 5 subsurface sites. Genes for nitrate reduction (nar) and sulfite reduction (dsr) were found in many of the South Africa Chloroflexi but were absent from genomes collected in South Dakota. Indeed, nitrate reduction was among the most energetically favorable reactions in South African fluids (10-14 kJ cell-1 sec -1 per mol of reactant) and sulfur reduction with Fe2+ or H2 was also exergonic [2]. Conversely, genes for nitrite and nitrous oxide reduction (nrf, nir and nos) were found in genomes collected in South Dakota and Juan de Fuca, but not South Africa. We examined the origin of genes conferring these metabolisms in the Chloroflexi genomes. We discovered evidence for horizontal gene transfer (HGT) for all of these putative metabolisms. Retention of these genes in Chloroflexi lineages indicates HGT may have conferred an advantageous metabolism in DSB environments. We are using molecular dating techniques to constrain the timing of these HGT events on geologic timescales. [1] Baker J. B. et al. (2003) Environ Microbiol., 5, 267-277. [2] Magnabosco C. et al. (2016) ISME J, 10(3), 730-741.

[Microbes on the edge of global biosphere].

PubMed

Naganuma, T

2000-12-01

The search for life on the edge of global biosphere is a frontier to bridge conventional bio/ecology and exo/astrobiology. This communication reviews the foci of microbiological studies on the inhabitants of the selected "edges", i.e., deep-sea, deep subsurface and Antarctic habitats. The deep-sea is characterized as the no-light (non-photosynthetic) habitat, and the primary production is mostly due to the chemosynthetic autotrophy at the hydrothermal vents and methane-rich seeps. Formation of the chemosynthesis-dependent animal communities in the deep leads to the idea that such communities may be found in "ocean" of the Jovian satellite, Europa. The oxygen minimal layer (OML) in mid-water provides another field of deep-sea research. Modern OML is a relatively thin layer, found between the water depth of 200 and 1000 m, but was much thicker during the periods of oceanic anoxia events (OAEs) in the past. The history of oceanic biosphere is regarded as the cycle of OAE and non-OAE periods, and the remnants of the past OAEs may be seen in the modem OML. Anoxic (no-O2) condition is also characteristic of deep subsurface biosphere. Microorganisms in deep subsurface biosphere exploit every available oxidant, or terminal electron acceptor (TEA), for anaerobic respiration. Sulfate, nitrate, iron (III) and CO2 are the representative TEAs in the deep subsurface. Subsurface of hydrothermal vents, or sub-vent biosphere, may house brine (high salt) habitats and halophilic microorganisms. Some sub-vent halophiles were phylogenetically closely similar to the ones found in the Antarctic habitats which are extremely dry by the liophilizing climate. Below the 3000-4000 m-thick glacier on Antarctica, there have been >70 lakes with liquid water located. One of such sub-glacial lakes, Lake Vostok, has been a target of "life in extreme environments" and is about to be drill-penetrated for microbiological studies. These 'microbiological platforms' will provide new knowledge about the diversity and potential of the Earth's life and facilitate the capability of astrobiologial exploration.

Biodiversity of polycyclic aromatic hydrocarbon-degrading bacteria from deep sea sediments of the Middle Atlantic Ridge.

PubMed

Cui, Zhisong; Lai, Qiliang; Dong, Chunming; Shao, Zongze

2008-08-01

The bacteria involved in the biodegradation of polycyclic aromatic hydrocarbons (PAHs) in deep sea subsurface environments are largely unknown. In order to reveal their biodiversity, sediments from 2.2 m under the bottom surface at a water depth of 3542 m were sampled on the Middle Atlantic Ridge with a gravity column sampler. The sediments were promptly enriched with either crude oil or a mixture of PAHs (naphthalene, phenanthrene and pyrene) as the sole carbon source, and further enriched with the PAH mixture mentioned above in the lab. The resulting consortia were named C2CO and C2PPN respectively. Their bacterial composition was analysed with plate cultivation, PCR-DGGE and 16S rDNA library analysis. On plates, isolates belonging to Pseudoalteromonas, Halomonas, Marinobacter, Thalassospira and Tistrella dominated the culturable populations. With PCR-DGGE, five major bands closely related to Cycloclasticus, Alteromonas, Thalassospira, Alcanivorax and Rhodospirillaceae were detected in consortium C2CO, while only one major band of Cycloclasticus was detected in consortium C2PPN. In addition, the dynamics of community structure in response to aromatic substrate alterations were examined. As a result, three ribotypes of Cycloclasticus were detected by 16S rDNA library analysis, one which played a key role in phenanthrene degradation; two Alteromonas bacteria dominated the naphthalene reselected consortium. Although bacteria of the two genera grew as the main members of the communities, none of them were isolated, probably owing to their poor cultivability. These results confirm that bacteria of Cycloclasticus are important obligate PAH degraders in marine environments, and coexist with other degrading bacteria that inhabit the deep subsurface sediment of the Atlantic. This supports the view that PAH accumulation and bioattenuation occur in remote areas consistently and continuously.

Biodiversity of polycyclic aromatic hydrocarbon-degrading bacteria from deep sea sediments of the Middle Atlantic Ridge

PubMed Central

Cui, Zhisong; Lai, Qiliang; Dong, Chunming; Shao, Zongze

2008-01-01

The bacteria involved in the biodegradation of polycyclic aromatic hydrocarbons (PAHs) in deep sea subsurface environments are largely unknown. In order to reveal their biodiversity, sediments from 2.2 m under the bottom surface at a water depth of 3542 m were sampled on the Middle Atlantic Ridge with a gravity column sampler. The sediments were promptly enriched with either crude oil or a mixture of PAHs (naphthalene, phenanthrene and pyrene) as the sole carbon source, and further enriched with the PAH mixture mentioned above in the lab. The resulting consortia were named C2CO and C2PPN respectively. Their bacterial composition was analysed with plate cultivation, PCR-DGGE and 16S rDNA library analysis. On plates, isolates belonging to Pseudoalteromonas, Halomonas, Marinobacter, Thalassospira and Tistrella dominated the culturable populations. With PCR-DGGE, five major bands closely related to Cycloclasticus, Alteromonas, Thalassospira, Alcanivorax and Rhodospirillaceae were detected in consortium C2CO, while only one major band of Cycloclasticus was detected in consortium C2PPN. In addition, the dynamics of community structure in response to aromatic substrate alterations were examined. As a result, three ribotypes of Cycloclasticus were detected by 16S rDNA library analysis, one which played a key role in phenanthrene degradation; two Alteromonas bacteria dominated the naphthalene reselected consortium. Although bacteria of the two genera grew as the main members of the communities, none of them were isolated, probably owing to their poor cultivability. These results confirm that bacteria of Cycloclasticus are important obligate PAH degraders in marine environments, and coexist with other degrading bacteria that inhabit the deep subsurface sediment of the Atlantic. This supports the view that PAH accumulation and bioattenuation occur in remote areas consistently and continuously. PMID:18445026

Microbiological and Geochemical Survey of CO2-Dominated Mofette and Mineral Waters of the Cheb Basin, Czech Republic.

PubMed

Krauze, Patryk; Kämpf, Horst; Horn, Fabian; Liu, Qi; Voropaev, Andrey; Wagner, Dirk; Alawi, Mashal

2017-01-01

The Cheb Basin (NW Bohemia, Czech Republic) is a shallow, neogene intracontinental basin. It is a non-volcanic region which features frequent earthquake swarms and large-scale diffuse degassing of mantle-derived CO 2 at the surface that occurs in the form of CO 2 -rich mineral springs and wet and dry mofettes. So far, the influence of CO 2 degassing onto the microbial communities has been studied for soil environments, but not for aquatic systems. We hypothesized, that deep-trenching CO 2 conduits interconnect the subsurface with the surface. This admixture of deep thermal fluids should be reflected in geochemical parameters and in the microbial community compositions. In the present study four mineral water springs and two wet mofettes were investigated through an interdisciplinary survey. The waters were acidic and differed in terms of organic carbon and anion/cation concentrations. Element geochemical and isotope analyses of fluid components were used to verify the origin of the fluids. Prokaryotic communities were characterized through quantitative PCR and Illumina 16S rRNA gene sequencing. Putative chemolithotrophic, anaerobic and microaerophilic organisms connected to sulfur (e.g., Sulfuricurvum, Sulfurimonas ) and iron (e.g., Gallionella, Sideroxydans ) cycling shaped the core community. Additionally, CO 2 -influenced waters form an ecosystem containing many taxa that are usually found in marine or terrestrial subsurface ecosystems. Multivariate statistics highlighted the influence of environmental parameters such as pH, Fe 2+ concentration and conductivity on species distribution. The hydrochemical and microbiological survey introduces a new perspective on mofettes. Our results support that mofettes are either analogs or rather windows into the deep biosphere and furthermore enable access to deeply buried paleo-sediments.

Microbiological and Geochemical Survey of CO2-Dominated Mofette and Mineral Waters of the Cheb Basin, Czech Republic

PubMed Central

Krauze, Patryk; Kämpf, Horst; Horn, Fabian; Liu, Qi; Voropaev, Andrey; Wagner, Dirk; Alawi, Mashal

2017-01-01

The Cheb Basin (NW Bohemia, Czech Republic) is a shallow, neogene intracontinental basin. It is a non-volcanic region which features frequent earthquake swarms and large-scale diffuse degassing of mantle-derived CO2 at the surface that occurs in the form of CO2-rich mineral springs and wet and dry mofettes. So far, the influence of CO2 degassing onto the microbial communities has been studied for soil environments, but not for aquatic systems. We hypothesized, that deep-trenching CO2 conduits interconnect the subsurface with the surface. This admixture of deep thermal fluids should be reflected in geochemical parameters and in the microbial community compositions. In the present study four mineral water springs and two wet mofettes were investigated through an interdisciplinary survey. The waters were acidic and differed in terms of organic carbon and anion/cation concentrations. Element geochemical and isotope analyses of fluid components were used to verify the origin of the fluids. Prokaryotic communities were characterized through quantitative PCR and Illumina 16S rRNA gene sequencing. Putative chemolithotrophic, anaerobic and microaerophilic organisms connected to sulfur (e.g., Sulfuricurvum, Sulfurimonas) and iron (e.g., Gallionella, Sideroxydans) cycling shaped the core community. Additionally, CO2-influenced waters form an ecosystem containing many taxa that are usually found in marine or terrestrial subsurface ecosystems. Multivariate statistics highlighted the influence of environmental parameters such as pH, Fe2+ concentration and conductivity on species distribution. The hydrochemical and microbiological survey introduces a new perspective on mofettes. Our results support that mofettes are either analogs or rather windows into the deep biosphere and furthermore enable access to deeply buried paleo-sediments. PMID:29321765

Marine biogeochemistry: Methylmercury manufacture

NASA Astrophysics Data System (ADS)

Cossa, Daniel

2013-10-01

The neurotoxin methylmercury can accumulate in marine food webs, contaminating seafood. An analysis of the isotopic composition of fish in the North Pacific suggests that much of the mercury that enters the marine food web originates from low-oxygen subsurface waters.

The metatranscriptome of a deep-sea hydrothermal plume is dominated by water column methanotrophs and lithotrophs

PubMed Central

Lesniewski, Ryan A; Jain, Sunit; Anantharaman, Karthik; Schloss, Patrick D; Dick, Gregory J

2012-01-01

Microorganisms mediate geochemical processes in deep-sea hydrothermal vent plumes, which are a conduit for transfer of elements and energy from the subsurface to the oceans. Despite this important microbial influence on marine geochemistry, the ecology and activity of microbial communities in hydrothermal plumes is largely unexplored. Here, we use a coordinated metagenomic and metatranscriptomic approach to compare microbial communities in Guaymas Basin hydrothermal plumes to background waters above the plume and in the adjacent Carmen Basin. Despite marked increases in plume total RNA concentrations (3–4 times) and microbially mediated manganese oxidation rates (15–125 times), plume and background metatranscriptomes were dominated by the same groups of methanotrophs and chemolithoautotrophs. Abundant community members of Guaymas Basin seafloor environments (hydrothermal sediments and chimneys) were not prevalent in the plume metatranscriptome. De novo metagenomic assembly was used to reconstruct genomes of abundant populations, including Marine Group I archaea, Methylococcaceae, SAR324 Deltaproteobacteria and SUP05 Gammaproteobacteria. Mapping transcripts to these genomes revealed abundant expression of genes involved in the chemolithotrophic oxidation of ammonia (amo), methane (pmo) and sulfur (sox). Whereas amo and pmo gene transcripts were abundant in both plume and background, transcripts of sox genes for sulfur oxidation from SUP05 groups displayed a 10–20-fold increase in plumes. We conclude that the biogeochemistry of Guaymas Basin hydrothermal plumes is mediated by microorganisms that are derived from seawater rather than from seafloor hydrothermal environments such as chimneys or sediments, and that hydrothermal inputs serve as important electron donors for primary production in the deep Gulf of California. PMID:22695860

The metatranscriptome of a deep-sea hydrothermal plume is dominated by water column methanotrophs and lithotrophs.

PubMed

Lesniewski, Ryan A; Jain, Sunit; Anantharaman, Karthik; Schloss, Patrick D; Dick, Gregory J

2012-12-01

Microorganisms mediate geochemical processes in deep-sea hydrothermal vent plumes, which are a conduit for transfer of elements and energy from the subsurface to the oceans. Despite this important microbial influence on marine geochemistry, the ecology and activity of microbial communities in hydrothermal plumes is largely unexplored. Here, we use a coordinated metagenomic and metatranscriptomic approach to compare microbial communities in Guaymas Basin hydrothermal plumes to background waters above the plume and in the adjacent Carmen Basin. Despite marked increases in plume total RNA concentrations (3-4 times) and microbially mediated manganese oxidation rates (15-125 times), plume and background metatranscriptomes were dominated by the same groups of methanotrophs and chemolithoautotrophs. Abundant community members of Guaymas Basin seafloor environments (hydrothermal sediments and chimneys) were not prevalent in the plume metatranscriptome. De novo metagenomic assembly was used to reconstruct genomes of abundant populations, including Marine Group I archaea, Methylococcaceae, SAR324 Deltaproteobacteria and SUP05 Gammaproteobacteria. Mapping transcripts to these genomes revealed abundant expression of genes involved in the chemolithotrophic oxidation of ammonia (amo), methane (pmo) and sulfur (sox). Whereas amo and pmo gene transcripts were abundant in both plume and background, transcripts of sox genes for sulfur oxidation from SUP05 groups displayed a 10-20-fold increase in plumes. We conclude that the biogeochemistry of Guaymas Basin hydrothermal plumes is mediated by microorganisms that are derived from seawater rather than from seafloor hydrothermal environments such as chimneys or sediments, and that hydrothermal inputs serve as important electron donors for primary production in the deep Gulf of California.

Marine Subsurface Microbial Communities Across a Hydrothermal Gradient in Okinawa Trough Sediments

NASA Astrophysics Data System (ADS)

Brandt, L. D.; Hser Wah Saw, J.; Ettema, T.; House, C. H.

2015-12-01

IODP Expedition 331 to the Okinawa backarc basin provided an opportunity to study the microbial stratigraphy within the sediments surrounding a hydrothermal vent. The Okinawa backarc basin is a sedimented region of the seafloor located on a continental margin, and also hosts a hydrothermal network within the subsurface. Site C0014 within the Iheya North hydrothermal field is located 450 m east of the active vent and has a surface temperature of 5°C with no evidence of hydrothermal alteration within the top 10 meters below sea floor (mbsf). Temperature increases with depth at an estimated rate of 3°C/m and transitions from non-hydrothermal margin sediments to a hydrothermally altered regime below 10 mbsf. In this study, we utilized deep 16S rRNA sequencing of DNA from IODP Expedition 331 Site C0014 sediment horizons in order to assess diversity throughout the sediment column as well as determine the potential limits of the biosphere. Analysis of the amplicon data shows a shift over 15 mbsf from a heterogeneous community of cosmopolitan marine subsurface taxa toward an archaeal-dominated community in the deepest horizons of the predicted biosphere. Notably, the phylum Chloroflexi represents a substantial taxon through most horizons, where it appears to be replaced below 10 mbsf by punctuations of thermophilic and methanotrophic Archaea and Miscellaneous Crenarchaeotic Group abundances. DNA from the aforementioned transition horizons was further analyzed using metagenomic sequencing. Preliminary taxonomic analysis of the metagenomic data agrees well with amplicon data in capturing the shift in relative abundance of Archaea increasing with depth. Additionally, reverse gyrase, a gene found exclusively in hyperthermophilic microorganisms, was recovered only in the metagenome of the deepest horizon. A BLAST search of this protein sequence against the GenBank non-redudnant protein database produced top hits with reverse gyrase from Thermococcus and Pyrococcus, which are known thermophiles. Up until now, thermophiles and hyperthermophiles have been studied in cultured hydrothermal vent fluid samples, or have been identified from 16S rRNA taxonomic analyses. These recovered genes provide direct evidence for a pervasive subsurface hyperthermophilic biosphere in off-axis hydrothermal sediments.

Halite-clay interplay in the Israeli Messinian

NASA Astrophysics Data System (ADS)

Cohen, Avigdor

1993-08-01

The Mavqi'im Formation in Israel is the equivalent of the evaporite part of the Messinian stage (Upper Miocene). It is found in the subsurface in the offshore with eastward extensions into ancient buried channels in the coastal plain and in the Jordan Rift valley and in a few outcrops southwest of Lake Tiberias. Most of the anhydrite horizons can be used as correlation markers. Lateral facies changes between halite, anhydrite and shales can be traced. This is interpreted as contemporaneous sedimentation in giant marine salt ponds (halite and anhydrite) and in drowned desert valleys and/or salt-marsh coasts (shales with sabkha-like anhydrites). Another type of shale is that directly underflooring halite horizons. It is regarded as deep-water halite facies, in contrast with shallow-water facies where halite overlies gypsum and/or anhydrite. A "twofold bull's-eye model" is proposed, which assumes that either: (a) sedimentation of gypsum and halite was 'separated in space'—i.e., gypsum was deposited in the part of the basin proximal to oceanic inlets or on shallow shelves, whereas halite was deposited in the central deep part of the basin or on its distal edge; or (b) sedimentation of gypsum and halite was not contemporaneous, or 'separated in time'—i.e., in the deep parts of the basin gypsum precipitates were disintegrated by anaerobic bacteria which removed the sulfate. The lower limit of gypsum deposition is considered to be 200 m, which is the lower limit of the photic and wave zones. In the Israeli Messinian there is no difference between the clay minerals of marine and fluvial shales. Differentiation of marine shales from fluvial and mud flat shales is based on their geometry, i.e., thin persistent horizons spreading across the whole area versus thick shale lenses wedging out in 500-1000 m distances. Another consideration is the palynologic and microfauna remains: in the first case the cyst/pollen ratio may be as high as 100, whereas in the second pollen is dominant.

Organic and Inorganic Carbon in the Rio Tinto (Spain) Deep Subsurface System: a Possible Model for Subsurface Carbon and Lithoautotrophs on Mars.

NASA Astrophysics Data System (ADS)

Bonaccorsi, R.; Stoker, C. R.; MARTE Science Team

2007-12-01

The subsurface is the key environment for searching for life on planets lacking surface life. Subsurface ecosystems are of great relevance to astrobiology including the search for past/present life on Mars. Conditions on the Martian surface do not support biological activity but the subsurface might preserve organics and host subsurface life [1]. A key requirement for the analysis of subsurface samples on Mars is the ability to characterize organic vs. inorganic carbon pools. This information is needed to determine if the sample contains organic material of biological origin and/ or to establish if pools of inorganic carbon can support subsurface biospheres. The Mars Analog Rio Tinto Experiment (MARTE) performed deep drilling of cores i.e., down to 165-m depth, in a volcanically-hosted-massive-sulfide deposit at Rio Tinto, Spain, which is considered an important analog of the Sinus Meridiani site on Mars. Results from MARTE suggest the existence of a relatively complex subsurface life including aerobic and anaerobic chemoautotrophs, and strict anaerobic methanogens sustained by Fe and S minerals in anoxic conditions, which is an ideal model analog for a deep subsurface Martian environment. We report here on the distribution of organic (C-org: 0.01-0.3Wt% and inorganic carbon (IC = 0.01-7.0 Wt%) in a subsurface rock system including weathered/oxidized i.e., gossan, and unaltered pyrite stockwork. Cores were analyzed from 3 boreholes (BH-4, BH-7, and BH-8) that penetrated down to a depth of ~165 m into massive sulfide. Nearsurface phyllosilicate rich-pockets contain the highest amounts of organics (0.3Wt%) [2], while the deeper rocks contain the highest amount of carbonates. Assessing the amount of C pools available throughout the RT subsurface brings key insight on the type of trophic system sustaining its microbial ecosystem (i.e., heterotrophs vs. autotrophs) and the biogeochemical relationships that characterize a new type of subsurface biosphere at RT. This potentially novel biosphere on Earth could be used as a model to test for extant and extinct life on Mars. Furthermore, having found carbonates in an hyperacidic system (pH ~2.3) brings new insights on the possible occurrence of deep carbonates deposits under low-pH condition on Mars. [1] Boston, P.J., et al., 1992. Icarus 95,300-308; Bonaccorsi, Stoker and Sutter, 2007 Accepted with review in Astrobiology.

Ecology, physiology, and phylogeny of deep subsurface Sphingomonas sp.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Fredrickson, Jim K.; Balkwill, David L.; Romine, Margaret F.

Several new species of the genus Sphingomonas including S. aromaticivorans, S. stygia, and S. subterranea that have the capacity for degrading a broad range of aromatic compounds including toluene, naphthalene, xylenes, p-cresol, fluorene, biphenyl, and dibenzothiophene, were isolated from deeply-buried (>200 m) sediments of the US Atlantic coastal plain (ACP). In S. aromaticivorans F199, many of the genes involved in the catabolism of these aromatic compounds are encoded on a 184-kb conjugative plasmid; some of the genes involved in aromatic catabolism are plasmid-encoded in the other strains as well. Members of the genus Sphingomonas were common among aerobic heterotrophic bacteriamore » cultured from ACP sediments and have been detected in deep subsurface environments elsewhere. The major source of organic carbon for heterotrophic metabolism in ACP deep aquifers is lignite that originated from plant material buried with the sediments. We speculate that the ability of the subsurface Sphingomonas strains to degrade a wide array of aromatic compounds represents an adaptation for utilization of sedimentary lignite. These and related subsurface Sphingomonas spp may play an important role in the transformation of sedimentary organic carbon in the aerobic and microaerobic regions of the deep aquifers of the ACP.« less

Ecology, physiology, and phylogeny of deep subsurface Sphingomonas sp.

PubMed

Fredrickson, J K; Balkwill, D L; Romine, M F; Shi, T

1999-10-01

Several new species of the genus Sphingomonas including S. aromaticivorans, S. stygia, and S. subterranea that have the capacity for degrading a broad range of aromatic compounds including toluene, naphthalene, xylenes, p-cresol, fluorene, biphenyl, and dibenzothiophene, were isolated from deeply-buried (>200 m) sediments of the US Atlantic coastal plain (ACP). In S. aromaticivorans F199, many of the genes involved in the catabolism of these aromatic compounds are encoded on a 184-kb conjugative plasmid; some of the genes involved in aromatic catabolism are plasmid-encoded in the other strains as well. Members of the genus Sphingomonas were common among aerobic heterotrophic bacteria cultured from ACP sediments and have been detected in deep subsurface environments elsewhere. The major source of organic carbon for heterotrophic metabolism in ACP deep aquifers is lignite that originated from plant material buried with the sediments. We speculate that the ability of the subsurface Sphingomonas strains to degrade a wide array of aromatic compounds represents an adaptation for utilization of sedimentary lignite. These and related subsurface Sphingomonas spp may play an important role in the transformation of sedimentary organic carbon in the aerobic and microaerobic regions of the deep aquifers of the ACP.

Patterns and drivers of bacterial α- and β-diversity across vertical profiles from surface to subsurface sediments.

PubMed

Luna, Gian Marco; Corinaldesi, Cinzia; Rastelli, Eugenio; Danovaro, Roberto

2013-10-01

We investigated the patterns and drivers of bacterial α- and β-diversity, along with viral and prokaryotic abundance and the carbon production rates, in marine surface and subsurface sediments (down to 1 m depth) in two habitats: vegetated sediments (seagrass meadow) and non-vegetated sediments. Prokaryotic abundance and production decreased with depth in the sediment, but cell-specific production rates and the virus-to-prokaryote ratio increased, highlighting unexpectedly high activity in the subsurface. The highest diversity was observed in vegetated sediments. Bacterial β-diversity between sediment horizons was high, and only a minor number of taxa was shared between surface and subsurface layers. Viruses significantly contributed to explain α- and β-diversity patterns. Despite potential limitations due to the only use of fingerprinting techniques, this study indicates that the coastal subsurface host highly active and diversified bacterial assemblages, that subsurface cells are more active than expected and that viruses promote β-diversity and stimulate bacterial metabolism in subsurface layers. The limited number of taxa shared between habitats, and between surface and subsurface sediment horizons, suggests that future investigations of the shallow subsurface will provide insights into the census of bacterial diversity, and the comprehension of the patterns and drivers of prokaryotic diversity in marine ecosystems. © 2013 John Wiley & Sons Ltd and Society for Applied Microbiology.

Putting the Deep Biosphere on the Map for Oceanography Courses: Gas Hydrates As a Case Study for the Deep Biosphere

NASA Astrophysics Data System (ADS)

Sikorski, J. J.; Briggs, B. R.

2014-12-01

The ocean is essential for life on our planet. It covers 71% of the Earth's surface, is the source of the water we drink, the air we breathe, and the food we eat. Yet, the exponential growth in human population is putting the ocean and thus life on our planet at risk. However, based on student evaluations from our introductory oceanography course it is clear that our students have deficiencies in ocean literacy that impact their ability to recognize that the ocean and humans are inextricably connected. Furthermore, life present in deep subsurface marine environments is also interconnected to the study of the ocean, yet the deep biosphere is not typically covered in undergraduate oceanography courses. In an effort to improve student ocean literacy we developed an instructional module on the deep biosphere focused on gas hydrate deposits. Specifically, our module utilizes Google Earth and cutting edge research about microbial life in the ocean to support three inquiry-based activities that each explore different facets of gas hydrates (i.e. environmental controls, biologic controls, and societal implications). The relevant nature of the proposed module also makes it possible for instructors of introductory geology courses to modify module components to discuss related topics, such as climate, energy, and geologic hazards. This work, which will be available online as a free download, is a solid contribution toward increasing the available teaching resources focused on the deep biosphere for geoscience educators.

Remote sensing in marine environment - acquiring, processing, and interpreting GLORIA sidescan sonor images of deep sea floor

DOE Office of Scientific and Technical Information (OSTI.GOV)

O'Leary, D.W.

1989-03-01

The US Geological Survey's remote sensing instrument for regional imaging of the deep sea floor (> 400 m water depth) is the GLORIA (Geologic Long-Range Inclined Asdic) sidescan sonar system, designed and operated by the British Institute of Oceanographic Sciences. A 30-sec sweep rate provides for a swath width of approximately 45 km, depending on water depth. The return signal is digitally recorded as 8 bit data to provide a cross-range pixel dimension of 50 m. Postcruise image processing is carried out by using USGS software. Processing includes precision water-column removal, geometric and radiometric corrections, and contrast enhancement. Mosaicking includesmore » map grid fitting, concatenation, and tone matching. Seismic reflection profiles, acquired along track during the survey, are image correlative and provide a subsurface dimension unique to marine remote sensing. Generally GLORIA image interpretation is based on brightness variations which are largely a function of (1) surface roughness at a scale of approximately 1 m and (2) slope changes of more than about 4/degrees/ over distances of at least 50 m. Broader, low-frequency changes in slope that cannot be detected from the Gloria data can be determined from seismic profiles. Digital files of bathymetry derived from echo-sounder data can be merged with GLORIA image data to create relief models of the sea floor for geomorphic interpretation of regional slope effects.« less

Development of Deep-tow Autonomous Cable Seismic (ACS) for Seafloor Massive Sulfides (SMSs) Exploration.

NASA Astrophysics Data System (ADS)

Asakawa, Eiichi; Murakami, Fumitoshi; Tsukahara, Hitoshi; Saito, Shutaro; Lee, Sangkyun; Tara, Kenji; Kato, Masafumi; Jamali Hondori, Ehsan; Sumi, Tomonori; Kadoshima, Kazuyuki; Kose, Masami

2017-04-01

Within the EEZ of Japan, numerous surveys exploring ocean floor resources have been conducted. The exploration targets are gas hydrates, mineral resources (manganese, cobalt or rare earth) and especially seafloor massive sulphide (SMS) deposits. These resources exist in shallow subsurface areas in deep waters (>1500m). For seismic explorations very high resolution images are required. These cannot be effectively obtained with conventional marine seismic techniques. Therefore we have been developing autonomous seismic survey systems which record the data close to the seafloor to preserve high frequency seismic energy. Very high sampling rate (10kHz) and high accurate synchronization between recording systems and shot time are necessary. We adopted Cs-base atomic clock considering its power consumption. At first, we developed a Vertical Cable Seismic (VCS) system that uses hydrophone arrays moored vertically from the ocean bottom to record close to the target area. This system has been successfully applied to SMS exploration. Specifically it fixed over known sites to assess the amount of reserves with the resultant 3D volume. Based on the success of VCS, we modified the VCS system to use as a more efficient deep-tow seismic survey system. Although there are other examples of deep-tow seismic systems, signal transmission cables present challenges in deep waters. We use our autonomous recording system to avoid these problems. Combining a high frequency piezoelectric source (Sub Bottom Profiler:SBP) that automatically shots with a constant interval, we achieve the high resolution deep-tow seismic without data transmission/power cable to the board. Although the data cannot be monitored in real-time, the towing system becomes very simple. We have carried out survey trial, which showed the systems utility as a high-resolution deep-tow seismic survey system. Furthermore, the frequency ranges of deep-towed source (SBP) and surface towed sparker are 700-2300Hz and 10-200Hz respectively. Therefore we can use these sources simultaneously and distinguish the records of each source in the data processing stage. We have developed new marine seismic survey systems with autonomous recording for the exploration of the ocean floor resources. The applications are vertical cable seismic (VCS) and deep-tow seismic (ACS). These enable us the recording close to the seafloor and give the high resolution results with a simple, cost-effective configuration.

Experimental validation of a sub-surface model of solar power for distributed marine sensor systems

NASA Astrophysics Data System (ADS)

Hahn, Gregory G.; Cantin, Heather P.; Shafer, Michael W.

2016-04-01

The capabilities of distributed sensor systems such as marine wildlife telemetry tags could be significantly enhanced through the integration of photovoltaic modules. Photovoltaic cells could be used to supplement the primary batteries for wildlife telemetry tags to allow for extended tag deployments, wherein larger amounts of data could be collected and transmitted in near real time. In this article, we present experimental results used to validate and improve key aspects of our original model for sub-surface solar power. We discuss the test methods and results, comparing analytic predictions to experimental results. In a previous work, we introduced a model for sub-surface solar power that used analytic models and empirical data to predict the solar irradiance available for harvest at any depth under the ocean's surface over the course of a year. This model presented underwater photovoltaic transduction as a viable means of supplementing energy for marine wildlife telemetry tags. The additional data provided by improvements in daily energy budgets would enhance the temporal and spatial comprehension of the host's activities and/or environments. Photovoltaic transduction is one method that has not been widely deployed in the sub-surface marine environments despite widespread use on terrestrial and avian species wildlife tag systems. Until now, the use of photovoltaic cells for underwater energy harvesting has generally been disregarded as a viable energy source in this arena. In addition to marine telemetry systems, photovoltaic energy harvesting systems could also serve as a means of energy supply for autonomous underwater vehicles (AUVs), as well as submersible buoys for oceanographic data collection.

Metabolic stratification driven by surface and subsurface interactions in a terrestrial mud volcano.

PubMed

Cheng, Ting-Wen; Chang, Yung-Hsin; Tang, Sen-Lin; Tseng, Ching-Hung; Chiang, Pei-Wen; Chang, Kai-Ti; Sun, Chih-Hsien; Chen, Yue-Gau; Kuo, Hung-Chi; Wang, Chun-Ho; Chu, Pao-Hsuan; Song, Sheng-Rong; Wang, Pei-Ling; Lin, Li-Hung

2012-12-01

Terrestrial mud volcanism represents the prominent surface geological feature, where fluids and hydrocarbons are discharged along deeply rooted structures in tectonically active regimes. Terrestrial mud volcanoes (MVs) directly emit the major gas phase, methane, into the atmosphere, making them important sources of greenhouse gases over geological time. Quantification of methane emission would require detailed insights into the capacity and efficiency of microbial metabolisms either consuming or producing methane in the subsurface, and establishment of the linkage between these methane-related metabolisms and other microbial or abiotic processes. Here we conducted geochemical, microbiological and genetic analyses of sediments, gases, and pore and surface fluids to characterize fluid processes, community assemblages, functions and activities in a methane-emitting MV of southwestern Taiwan. Multiple lines of evidence suggest that aerobic/anaerobic methane oxidation, sulfate reduction and methanogenesis are active and compartmentalized into discrete, stratified niches, resembling those in marine settings. Surface evaporation and oxidation of sulfide minerals are required to account for the enhanced levels of sulfate that fuels subsurface sulfate reduction and anaerobic methanotrophy. Methane flux generated by in situ methanogenesis appears to alter the isotopic compositions and abundances of thermogenic methane migrating from deep sources, and to exceed the capacity of microbial consumption. This metabolic stratification is sustained by chemical disequilibria induced by the mixing between upward, anoxic, methane-rich fluids and downward, oxic, sulfate-rich fluids.

Large fluctuations of dissolved oxygen in the Indian and Pacific oceans during Dansgaard-Oeschger oscillations caused by variations of North Atlantic Deep Water subduction

NASA Astrophysics Data System (ADS)

Schmittner, Andreas; Galbraith, Eric D.; Hostetler, Steven W.; Pedersen, Thomas F.; Zhang, Rong

2007-09-01

Paleoclimate records from glacial Indian and Pacific oceans sediments document millennial-scale fluctuations of subsurface dissolved oxygen levels and denitrification coherent with North Atlantic temperature oscillations. Yet the mechanism of this teleconnection between the remote ocean basins remains elusive. Here we present model simulations of the oxygen and nitrogen cycles that explain how changes in deepwater subduction in the North Atlantic can cause large and synchronous variations of oxygen minimum zones throughout the Northern Hemisphere of the Indian and Pacific oceans, consistent with the paleoclimate records. Cold periods in the North Atlantic are associated with reduced nutrient delivery to the upper Indo-Pacific oceans, thereby decreasing productivity. Reduced export production diminishes subsurface respiration of organic matter leading to higher oxygen concentrations and less denitrification. This effect of reduced oxygen consumption dominates at low latitudes. At high latitudes in the Southern Ocean and North Pacific, increased mixed layer depths and steepening of isopycnals improve ocean ventilation and oxygen supply to the subsurface. Atmospheric teleconnections through changes in wind-driven ocean circulation modify this basin-scale pattern regionally. These results suggest that changes in the Atlantic Ocean circulation, similar to those projected by climate models to possibly occur in the centuries to come because of anthropogenic climate warming, can have large effects on marine ecosystems and biogeochemical cycles even in remote areas.

Metabolic stratification driven by surface and subsurface interactions in a terrestrial mud volcano

PubMed Central

Cheng, Ting-Wen; Chang, Yung-Hsin; Tang, Sen-Lin; Tseng, Ching-Hung; Chiang, Pei-Wen; Chang, Kai-Ti; Sun, Chih-Hsien; Chen, Yue-Gau; Kuo, Hung-Chi; Wang, Chun-Ho; Chu, Pao-Hsuan; Song, Sheng-Rong; Wang, Pei-Ling; Lin, Li-Hung

2012-01-01

Terrestrial mud volcanism represents the prominent surface geological feature, where fluids and hydrocarbons are discharged along deeply rooted structures in tectonically active regimes. Terrestrial mud volcanoes (MVs) directly emit the major gas phase, methane, into the atmosphere, making them important sources of greenhouse gases over geological time. Quantification of methane emission would require detailed insights into the capacity and efficiency of microbial metabolisms either consuming or producing methane in the subsurface, and establishment of the linkage between these methane-related metabolisms and other microbial or abiotic processes. Here we conducted geochemical, microbiological and genetic analyses of sediments, gases, and pore and surface fluids to characterize fluid processes, community assemblages, functions and activities in a methane-emitting MV of southwestern Taiwan. Multiple lines of evidence suggest that aerobic/anaerobic methane oxidation, sulfate reduction and methanogenesis are active and compartmentalized into discrete, stratified niches, resembling those in marine settings. Surface evaporation and oxidation of sulfide minerals are required to account for the enhanced levels of sulfate that fuels subsurface sulfate reduction and anaerobic methanotrophy. Methane flux generated by in situ methanogenesis appears to alter the isotopic compositions and abundances of thermogenic methane migrating from deep sources, and to exceed the capacity of microbial consumption. This metabolic stratification is sustained by chemical disequilibria induced by the mixing between upward, anoxic, methane-rich fluids and downward, oxic, sulfate-rich fluids. PMID:22739492

Photosynthesis below the surface in a cryptic microbial mat

NASA Astrophysics Data System (ADS)

Rothschild, Lynn J.; Giver, Lorraine J.

2002-10-01

The discovery of subsurface communities has encouraged speculation that such communities might be present on planetary bodies exposed to harsh surface conditions, including the early Earth. While the astrobiology community has focused on the deep subsurface, near-subsurface environments are unique in that they provide some protection while allowing partial access to photosynthetically active radiation. Previously we identified near-surface microbial communities based on photosynthesis. Here we assess the productivity of such an ecosystem by measuring in situ carbon fixation rates in an intertidal marine beach through a diurnal cycle, and find them surprisingly productive. Gross fixation along a transect (99×1 m) perpendicular to the shore was highly variable and depended on factors such as moisture and mat type, with a mean of ~41 mg C fixed m[minus sign]2 day[minus sign]1. In contrast, an adjacent well-established cyanobacterial mat dominated by Lyngbya aestuarii was ~12 times as productive (~500 mg C fixed m[minus sign]2 day[minus sign]1). Measurements made of the Lyngbya mat at several times per year revealed a correlation between total hours of daylight and gross daily production. From these data, annual gross fixation was estimated for the Lyngbya mat and yielded a value of ~1.3×105 g m[minus sign]2 yr[minus sign]1. An analysis of pulse-chase data obtained in the study in conjunction with published literature on similar ecosystems suggests that subsurface interstitial mats may be an overlooked endogenous source of organic carbon, mostly in the form of excreted fixed carbon.

Community dynamics of anaerobic bacteria in deep petroleum reservoirs

NASA Astrophysics Data System (ADS)

Hallmann, Christian; Schwark, Lorenz; Grice, Kliti

2008-09-01

The nature, activity and metabolism of microbes that inhabit the deep subsurface environment are a matter of ongoing debate. Primarily limited by temperature, little is known about secondary factors that restrict or enhance microbial activity or about the extent of a habitable environment deep below the surface. In particular, the degraders of chemically inert organic substrates remain elusive. Petroleum reservoirs can be regarded as natural bioreactors and are ideally suited for the study of microbial metabolism in the deep subsurface. Here we analyse series of oil samples that were biodegraded to different degrees. We find fatty acids after hydrolysis of purified crude oil fractions, indicating the presence of intact phospholipids and suggesting that indigenous bacteria inhabit petroleum reservoirs in sediment depths of up to 2,000m. A major change in bacterial community structure occurs after the removal of n-alkanes, indicating that more than one consortium is responsible for petroleum degradation. Our results suggest that further study of petroleum fluids will help understand bacterial metabolism and diversity in this habitat of the deep subsurface.

Novel Degenerate PCR Method for Whole-Genome Amplification Applied to Peru Margin (ODP Leg 201) Subsurface Samples

PubMed Central

Martino, Amanda J.; Rhodes, Matthew E.; Biddle, Jennifer F.; Brandt, Leah D.; Tomsho, Lynn P.; House, Christopher H.

2011-01-01

A degenerate polymerase chain reaction (PCR)-based method of whole-genome amplification, designed to work fluidly with 454 sequencing technology, was developed and tested for use on deep marine subsurface DNA samples. While optimized here for use with Roche 454 technology, the general framework presented may be applicable to other next generation sequencing systems as well (e.g., Illumina, Ion Torrent). The method, which we have called random amplification metagenomic PCR (RAMP), involves the use of specific primers from Roche 454 amplicon sequencing, modified by the addition of a degenerate region at the 3′ end. It utilizes a PCR reaction, which resulted in no amplification from blanks, even after 50 cycles of PCR. After efforts to optimize experimental conditions, the method was tested with DNA extracted from cultured E. coli cells, and genome coverage was estimated after sequencing on three different occasions. Coverage did not vary greatly with the different experimental conditions tested, and was around 62% with a sequencing effort equivalent to a theoretical genome coverage of 14.10×. The GC content of the sequenced amplification product was within 2% of the predicted values for this strain of E. coli. The method was also applied to DNA extracted from marine subsurface samples from ODP Leg 201 site 1229 (Peru Margin), and results of a taxonomic analysis revealed microbial communities dominated by Proteobacteria, Chloroflexi, Firmicutes, Euryarchaeota, and Crenarchaeota, among others. These results were similar to those obtained previously for those samples; however, variations in the proportions of taxa identified illustrates well the generally accepted view that community analysis is sensitive to both the amplification technique used and the method of assigning sequences to taxonomic groups. Overall, we find that RAMP represents a valid methodology for amplifying metagenomes from low-biomass samples. PMID:22319519

Plasmid incidence in bacteria from deep subsurface sediments

DOE Office of Scientific and Technical Information (OSTI.GOV)

Fredrickson, J.K.; Hicks, R.J.; Li, S.W.

Bacteria were isolated from deep terrestrial subsurface sediments underlying the coastal plain of South Carolina. A total of 163 isolates from deep sediments, surface soil, and return drill muds were examined for plasmid DNA content and resistance to the antibiotics penicillin, ampicillin, carbenicillin, streptomycin, kanamycin, and tetracycline. MICs of Cu{sup 2+}, Cr{sup 3+}, and Hg{sup 2+} for each isolate were also determined. The overall frequency of plasmid occurrence in the subsurface bacteria was 33%. Resistance was most frequent to penicillin (70% of all isolates), ampicillin (49%), and carbenicillin (32%) and was concluded to be related to the concentrations of themore » individual antibiotics in the disks used for assaying resistance and to the production of low levels of {beta}-lactamase. The frequencies of resistance to penicillin and ampicillin were significantly greater for isolates bearing plasmids than for plasmidless isolates; however, resistance was not transferable to penicillin-sensitive Escherichia coli. Hybridization of subsurface bacterial plasmids and chromosomal DNA with a whole-TOL-plasmid (pWWO) probe revealed some homology of subsurface bacterial plasmid and chromosomal DNAs, indicating a potential for those bacterial to harbor catabolic genes on plasmids or chromosomes. The incidences of antibiotic resistance and MICs of metals for subsurface bacteria were significantly different from those drill mud bacteria, ruling out the possibility that bacteria from sediments were derived from drill muds.« less

Chemolithotrophy in the continental deep subsurface: Sanford Underground Research Facility (SURF), USA

PubMed Central

Osburn, Magdalena R.; LaRowe, Douglas E.; Momper, Lily M.; Amend, Jan P.

2014-01-01

The deep subsurface is an enormous repository of microbial life. However, the metabolic capabilities of these microorganisms and the degree to which they are dependent on surface processes are largely unknown. Due to the logistical difficulty of sampling and inherent heterogeneity, the microbial populations of the terrestrial subsurface are poorly characterized. In an effort to better understand the biogeochemistry of deep terrestrial habitats, we evaluate the energetic yield of chemolithotrophic metabolisms and microbial diversity in the Sanford Underground Research Facility (SURF) in the former Homestake Gold Mine, SD, USA. Geochemical data, energetic modeling, and DNA sequencing were combined with principle component analysis to describe this deep (down to 8100 ft below surface), terrestrial environment. SURF provides access into an iron-rich Paleoproterozoic metasedimentary deposit that contains deeply circulating groundwater. Geochemical analyses of subsurface fluids reveal enormous geochemical diversity ranging widely in salinity, oxidation state (ORP 330 to −328 mV), and concentrations of redox sensitive species (e.g., Fe2+ from near 0 to 6.2 mg/L and Σ S2- from 7 to 2778μg/L). As a direct result of this compositional buffet, Gibbs energy calculations reveal an abundance of energy for microorganisms from the oxidation of sulfur, iron, nitrogen, methane, and manganese. Pyrotag DNA sequencing reveals diverse communities of chemolithoautotrophs, thermophiles, aerobic and anaerobic heterotrophs, and numerous uncultivated clades. Extrapolated across the mine footprint, these data suggest a complex spatial mosaic of subsurface primary productivity that is in good agreement with predicted energy yields. Notably, we report Gibbs energy normalized both per mole of reaction and per kg fluid (energy density) and find the later to be more consistent with observed physiologies and environmental conditions. Further application of this approach will significantly expand our understanding of the deep terrestrial biosphere. PMID:25429287

The Limits of Life in the Deep Subsurface - Implications for the Origin of Life

NASA Astrophysics Data System (ADS)

Baross, John

2013-06-01

There are very few environments on Earth where life is absent. Microbial life has proliferated into habitats that span nearly every imaginable physico-chemical variable. Only the availability of liquid water and temperature are known to prevent the growth of organisms. The other extreme physical and chemical variables, such as pH, pressure, high concentrations of solutes, damaging radiation, and toxic metals, are life-prohibiting factors for most organisms but not for all. The deep subsurface environments span all of the extreme conditions encountered by life including habitat conditions not yet explored, such as those that combine high temperature, high and low pH and extreme pressures. Some of the ``extremophile'' microorganisms inhabiting the deep subsurface environments have been shown to be among the most ``ancient'' of extant life. Their genomes and physiologies have led to a broader understanding of the geological settings of early life, the most ancient energy pathways, and the importance of water/rock interactions and tectonics in the origin and early evolution of life. The case can now be made that deep subsurface environments contributed to life's origin and provided the habitat(s) for the earliest microbial communities. However, there is much more to be done to further our understanding on the role of moderate to high pressures and temperatures on the chemical and biochemical ``steps'' leading to life, and on the evolution and physiology of both ancient and present-day subsurface microbial communities.

Selective phylogenetic analysis targeting 16S rRNA genes of hyperthermophilic archaea in the deep-subsurface hot biosphere.

PubMed

Kimura, Hiroyuki; Ishibashi, Jun-Ichiro; Masuda, Harue; Kato, Kenji; Hanada, Satoshi

2007-04-01

International drilling projects for the study of microbial communities in the deep-subsurface hot biosphere have been expanded. Core samples obtained by deep drilling are commonly contaminated with mesophilic microorganisms in the drilling fluid, making it difficult to examine the microbial community by 16S rRNA gene clone library analysis. To eliminate mesophilic organism contamination, we previously developed a new method (selective phylogenetic analysis [SePA]) based on the strong correlation between the guanine-plus-cytosine (G+C) contents of the 16S rRNA genes and the optimal growth temperatures of prokaryotes, and we verified the method's effectiveness (H. Kimura, M. Sugihara, K. Kato, and S. Hanada, Appl. Environ. Microbiol. 72:21-27, 2006). In the present study we ascertained SePA's ability to eliminate contamination by archaeal rRNA genes, using deep-sea hydrothermal fluid (117 degrees C) and surface seawater (29.9 degrees C) as substitutes for deep-subsurface geothermal samples and drilling fluid, respectively. Archaeal 16S rRNA gene fragments, PCR amplified from the surface seawater, were denatured at 82 degrees C and completely digested with exonuclease I (Exo I), while gene fragments from the deep-sea hydrothermal fluid remained intact after denaturation at 84 degrees C because of their high G+C contents. An examination using mixtures of DNAs from the two environmental samples showed that denaturation at 84 degrees C and digestion with Exo I completely eliminated archaeal 16S rRNA genes from the surface seawater. Our method was quite useful for culture-independent community analysis of hyperthermophilic archaea in core samples recovered from deep-subsurface geothermal environments.

Autonomous gliders reveal features of the water column associated with foraging by adelie penguins.

PubMed

Kahl, L Alex; Schofield, Oscar; Fraser, William R

2010-12-01

Despite their strong dependence on the pelagic environment, seabirds and other top predators in polar marine ecosystems are generally studied during their reproductive phases in terrestrial environments. As a result, a significant portion of their life history is understudied which in turn has led to limited understanding. Recent advances in autonomous underwater vehicle (AUV) technologies have allowed satellite-tagged Adélie penguins to guide AUV surveys of the marine environment at the Palmer Long-Term Ecological Research (LTER) site on the western Antarctic Peninsula. Near real-time data sent via Iridium satellites from the AUVs to a centralized control center thousands of miles away allowed scientists to adapt AUV sampling strategies to meet the changing conditions of the subsurface. Such AUV data revealed the water masses and fine-scale features associated with Adélie penguin foraging trips. During this study, the maximum concentration of chlorophyll was between 30 and 50 m deep. Encompassing this peak in the chlorophyll concentration, within the water-column, was a mixture of nutrient-laden Upper Circumpolar Deep (UCDW) and western Antarctic Peninsula winter water (WW). Together, data from the AUV survey and penguin dives reveal that 54% of foraging by Adélie penguins occurs immediately below the chlorophyll maximum. These data demonstrate how bringing together emerging technologies, such as AUVs, with established methods such as the radio-tagging of penguins can provide powerful tools for monitoring and hypothesis testing of previously inaccessible ecological processes. Ocean and atmosphere temperatures are expected to continue increasing along the western Antarctic Peninsula, which will undoubtedly affect regional marine ecosystems. New and emerging technologies such as unmanned underwater vehicles and individually mounted satellite tracking devices will provide the tools critical to documenting and understanding the widespread ecological change expected in polar regions.

Non-local drivers of the summer hypoxia in the East China Sea off the Changjiang Estuary

NASA Astrophysics Data System (ADS)

Qian, Wei; Dai, Minhan; Xu, Min; Kao, Shuh-ji; Du, Chuanjun; Liu, Jinwen; Wang, Hongjie; Guo, Liguo; Wang, Lifang

2017-11-01

The East China Sea (ECS) off the Changjiang (Yangtze River) Estuary, located around the near field of the Changjiang plume (CJP) is a hot spot where phytoplankton blooms in the surface water and hypoxias in the subsurface/bottom waters are frequently observed. Based on field observations conducted in summer 2009 and 2011, we examined non-local drivers associated with the initial dissolved oxygen (DO) levels that had significant impact on the development of summer hypoxias in the ECS off the Changjiang Estuary. The bottom water mass therein could be traced isopycnally at 24.2 < σθ < 25.2 back to the vicinity of the Luzon Strait, ∼1300 km upstream, where subsurface Kuroshio water (∼220 m deep with ∼190 μmol DO kg-1) mixed with the South China Sea subsurface water (∼120 m deep with ∼130 μmol DO kg-1). Owing to the difference in DO of these two source water masses, their mixing ratio ultimately determined the initial DO supply to the ECS bottom water that eventually reached the hypoxic zone. This water mass mixture was also subject to biogeochemical alteration during its travel (∼60 days) after it intruded into the ECS at the northeastern tip of Taiwan. Along the pathway of the intruded bottom-hugging water, we found systematic increases in nutrient concentrations and apparent oxygen utilization, or drawdown in DO following Redfield stoichiometry as a result of marine organic matter decomposition. These non-local factors exerted a synergistic control on the initial DO of CJP bottom water promoting hypoxia formation, although the residence time of the CJP bottom water was relatively short (∼11 days). We contend that such far field drivers should be taken into account in order to better predict the future scenarios of coastal hypoxias in the context of global warming.

Deep subsurface life in Bengal Fan sediments (IODP Exp. 354)

NASA Astrophysics Data System (ADS)

Adhikari, R. R.; Heuer, V. B.; Elvert, M.; Kallmeyer, J.; Kitte, J. A.; Wörmer, L.; Hinrichs, K. U.

2017-12-01

We collected Bengal Fan sediment samples along a 8°N transect during International Ocean Discovery Program Expedition 354 (February - March 2015, Singapore - Colombo, Sri Lanka) to study subseafloor life in this, as yet unstudied, area. Among other biogeochemical parameters, we quantified microbial biomass by analyzing prokaryotic cells using epifluorescence microscopy after detaching cells from the sediment, and bacterial endospores by analyzing the diagnostic biomarker dipicolinic acid (DPA) by detection of fluorescence of the terbium-DPA complex. To gain understanding of total microbial activity, we quantified hydrogen utilization potential of hydrogenase enzymes, which are ubiquitous in subsurface microorganisms, by using a tritium assay. We measured highest cell concentrations of ca. 108 cells g-1 in shallow sediments close to the seafloor. These concentrations are one to two orders of magnitude lower than in most marine continental margin settings [1]. Similar to the global trend [1], cell concentrations decreased with depth according to a power-law function. Endospore concentrations scattered between ca. 105 and 107 cells g-1 sediment at all sites and depths. We could not observe a clear relationship of endospore concentration and sediment depth; instead, it appears to be linked to lithology and total organic carbon content. Bulk Hydrogenase enzyme activity ranged from nmolar to μmolar range of H2 g-1d-1. Similar to previous observations [2], per-cell hydrogen utilization depends on vertical biogeochemical zones, which could be due to the differences in hydrogen utilization requirements/efficiency of the respective metabolic processes such as sulfate reduction, methanogenesis, fermentation etc. Bengal fan is highly dynamic due to channel and levee systems and the sediments are dominated by turbidites, thick sand layers and hemipelagic deposits, which may control biogeochemical zonation. Based on our microbial biomass and activity data, we suggest that the nature, quality and origin of sedimentary material influence the deep subsurface life. [1] Kallmeyer et al., (2012) PNAS 109(40), 16213-16216 [2] Adhikari et al., (2016) Frontiers in Microbiology 7:8

Biological formation of ethane and propane in the deep marine subsurface.

PubMed

Hinrichs, Kai-Uwe; Hayes, John M; Bach, Wolfgang; Spivack, Arthur J; Hmelo, Laura R; Holm, Nils G; Johnson, Carl G; Sylva, Sean P

2006-10-03

Concentrations and isotopic compositions of ethane and propane in cold, deeply buried sediments from the southeastern Pacific are best explained by microbial production of these gases in situ. Reduction of acetate to ethane provides one feasible mechanism. Propane is enriched in (13)C relative to ethane. The amount is consistent with derivation of the third C from inorganic carbon dissolved in sedimentary pore waters. At typical sedimentary conditions, the reactions yield free energy sufficient for growth. Relationships with competing processes are governed mainly by the abundance of H(2). Production of C(2) and C(3) hydrocarbons in this way provides a sink for acetate and hydrogen but upsets the general belief that hydrocarbons larger than methane derive only from thermal degradation of fossil organic material.

Biological formation of ethane and propane in the deep marine subsurface

PubMed Central

Hinrichs, Kai-Uwe; Hayes, John M.; Bach, Wolfgang; Spivack, Arthur J.; Hmelo, Laura R.; Holm, Nils G.; Johnson, Carl G.; Sylva, Sean P.

2006-01-01

Concentrations and isotopic compositions of ethane and propane in cold, deeply buried sediments from the southeastern Pacific are best explained by microbial production of these gases in situ. Reduction of acetate to ethane provides one feasible mechanism. Propane is enriched in 13C relative to ethane. The amount is consistent with derivation of the third C from inorganic carbon dissolved in sedimentary pore waters. At typical sedimentary conditions, the reactions yield free energy sufficient for growth. Relationships with competing processes are governed mainly by the abundance of H2. Production of C2 and C3 hydrocarbons in this way provides a sink for acetate and hydrogen but upsets the general belief that hydrocarbons larger than methane derive only from thermal degradation of fossil organic material. PMID:16990430

Accumulated energy norm for full waveform inversion of marine data

NASA Astrophysics Data System (ADS)

Shin, Changsoo; Ha, Wansoo

2017-12-01

Macro-velocity models are important for imaging the subsurface structure. However, the conventional objective functions of full waveform inversion in the time and the frequency domain have a limited ability to recover the macro-velocity model because of the absence of low-frequency information. In this study, we propose new objective functions that can recover the macro-velocity model by minimizing the difference between the zero-frequency components of the square of seismic traces. Instead of the seismic trace itself, we use the square of the trace, which contains low-frequency information. We apply several time windows to the trace and obtain zero-frequency information of the squared trace for each time window. The shape of the new objective functions shows that they are suitable for local optimization methods. Since we use the acoustic wave equation in this study, this method can be used for deep-sea marine data, in which elastic effects can be ignored. We show that the zero-frequency components of the square of the seismic traces can be used to recover macro-velocities from synthetic and field data.

Clays and Carbonates in a Groundwater-Fed 3.8 Ga Martian Lake: Insights to Subsurface Habitability on Mars

NASA Technical Reports Server (NTRS)

Michalski, Joseph; Niles, Paul

2015-01-01

On Earth, the deep biosphere remains a largely unexplored, but clearly important carbon reservoir. Results from some uplifted central peaks in craters on Mars indicate that substantial carbon was also present at depth and might have helped sustain a deep biosphere. In fact, many factors relevant to deep biosphere habitability are more favorable on Mars than on Earth (e.g. porosity of the crust, geothermal gradient). Future exploration of Mars should include landing sites where materials have been exhumed from depth by meteor impact or basins where subsurface fluids have emerged, carrying clues to subsurface habitability. One of the most astrobiologically interesting sites on Mars McLaughlin Crater, a 93 km-diameter impact crater that formed approximately 4 b.y. ago. On the floor of the crater is a stratigraphic section of subhorizontal, layered sedimentary rocks with strong spectroscopic evidence for Fe-rich clay minerals and Mg-rich carbonates, which we interpret as ancient lacustrine deposits. The fluids that formed these materials likely originated in the subsurface, based on the paucity of channels leading into the crater basin and the fact that this is one of the deepest basins on Mars - a good candidate to have experienced upwelling of subsurface fluids. Therefore, the deposits within McLaughlin crater provide insight into subsurface processes on Mars. In this presentation, we will discuss the habitability of the martian subsurface as well as the geology of McLaughlin Crater and the possibility to detect biomarkers at that site with a future landed mission.

Regional biostratigraphy and paleoenvironmental history of Miocene of onshore and offshore Alabama

DOE Office of Scientific and Technical Information (OSTI.GOV)

Smith, C.C.

1989-09-01

Subsurface Miocene sediments of coastal Alabama and the adjoining state and federal waters consist of a clastic wedge varying in thickness from less than 1,000 ft in southern Alabama to a maximum of about 6,000 ft in the northeastern portion of the Main Pass area. Relatively deep-water and open-marine transgressive basal Miocene clays and shales unconformably overlie a gently southwestward-dipping late Oligocene-earliest Miocene carbonate platform. Middle and late Miocene sediments consist of a regressive offlapping sequence of sand and shale deposited in varying neritic paleoenvironments. Analysis of planktonic and benthonic foraminifera has resulted in a refined biostratigraphic zonation of thesemore » sediments, permitting the recognition of several regional time-equivalent datum levels, or biohorizons. These biohorizons are shown on a series of subsurface cross sections that show the dramatic southwestward thickening of middle and late Miocene sediments as well as illustrate the relationships of the producing intervals within the Cibicides carstensi and Discorbis 12 interval zones. The paleoenvironmental history of the Miocene has been reconstructed on a series of paleobathymetric maps drawn for selected regional biohorizons. Among other features, these maps have proven the existence and outlined the margins of previously unrecognized shallow-meritic deltaic sediments in southeastern Mobile County and in the Chandeleur and Viosca Knoll (north) areas. Analysis of sedimentation rates, which range from less than 25 to 1,370 ft/m.y., further aids in understanding the coastal shelf, deltaic, and open-marine depositional history of the Miocene of Alabama and the adjoining state and federal waters.« less

Preservation of high primary porosity in Paleozoic crinoidal and bioclastic grainstones: Mississippian and Permian subsurface examples from western Canada and Texas

DOE Office of Scientific and Technical Information (OSTI.GOV)

Eby, D.E.; Kirkby, K.C.

1991-03-01

Limestone reservoirs with anomalously high porosity and permeability exist in several Paleozoic basinal settings in western North America. They are commonly either crinoidal or bioclastic grainstones that escaped the varied diagenetic environments that most carbonate shelves and slopes experience during sea-level fluctuations. Thus, these diagenetically 'conservative' settings can preserve most of the primary depositional porosity in calcarenites because of sedimentation and burial within normal marine basinal waters. These excellent reservoirs are often encased in deep marine, highly organic shales which may serve as both source rock and seal. Several subsurface examples of remarkable primary porosity occur within Mississippian Waulsortian buildupsmore » of western Canada and north-center Texas. Buildups within the Pekisko Formation of Alberta, for instance, contain abundant flanking crinoidal/bryozoan grainstones with up to 25% primary porosity and 10 d permeability. Muddy core facies with productive flank and capping calcarenites are up to 300 ft (90 m) thick and 600-1,200 ft (182-364 m) in diameter. The Bowar 'reef complex' in the Chappel Formation of Stephens County, Texas (2.6 MMBO to date) is similar in many respects to the Canadian buildups. Diagenetic 'conservatism' has also promoted excellent reservoir quality within the outer slope to basinal lower Permian bioclastic grain-flow deposit ('Wolfcamp detrital') plays of the eastern Midland basin where significant diagenesis was arrested after basinal deposition. Interpretations of these examples based upon core and outcrop control provide analogs for future exploration and exploitation in highly porous basinal carbonate reservoirs.« less

High frequency of phylogenetically diverse reductive dehalogenase-homologous genes in deep subseafloor sedimentary metagenomes

PubMed Central

Kawai, Mikihiko; Futagami, Taiki; Toyoda, Atsushi; Takaki, Yoshihiro; Nishi, Shinro; Hori, Sayaka; Arai, Wataru; Tsubouchi, Taishi; Morono, Yuki; Uchiyama, Ikuo; Ito, Takehiko; Fujiyama, Asao; Inagaki, Fumio; Takami, Hideto

2014-01-01

Marine subsurface sediments on the Pacific margin harbor diverse microbial communities even at depths of several hundreds meters below the seafloor (mbsf) or more. Previous PCR-based molecular analysis showed the presence of diverse reductive dehalogenase gene (rdhA) homologs in marine subsurface sediment, suggesting that anaerobic respiration of organohalides is one of the possible energy-yielding pathways in the organic-rich sedimentary habitat. However, primer-independent molecular characterization of rdhA has remained to be demonstrated. Here, we studied the diversity and frequency of rdhA homologs by metagenomic analysis of five different depth horizons (0.8, 5.1, 18.6, 48.5, and 107.0 mbsf) at Site C9001 off the Shimokita Peninsula of Japan. From all metagenomic pools, remarkably diverse rdhA-homologous sequences, some of which are affiliated with novel clusters, were observed with high frequency. As a comparison, we also examined frequency of dissimilatory sulfite reductase genes (dsrAB), key functional genes for microbial sulfate reduction. The dsrAB were also widely observed in the metagenomic pools whereas the frequency of dsrAB genes was generally smaller than that of rdhA-homologous genes. The phylogenetic composition of rdhA-homologous genes was similar among the five depth horizons. Our metagenomic data revealed that subseafloor rdhA homologs are more diverse than previously identified from PCR-based molecular studies. Spatial distribution of similar rdhA homologs across wide depositional ages indicates that the heterotrophic metabolic processes mediated by the genes can be ecologically important, functioning in the organic-rich subseafloor sedimentary biosphere. PMID:24624126

High frequency of phylogenetically diverse reductive dehalogenase-homologous genes in deep subseafloor sedimentary metagenomes.

PubMed

Kawai, Mikihiko; Futagami, Taiki; Toyoda, Atsushi; Takaki, Yoshihiro; Nishi, Shinro; Hori, Sayaka; Arai, Wataru; Tsubouchi, Taishi; Morono, Yuki; Uchiyama, Ikuo; Ito, Takehiko; Fujiyama, Asao; Inagaki, Fumio; Takami, Hideto

2014-01-01

Marine subsurface sediments on the Pacific margin harbor diverse microbial communities even at depths of several hundreds meters below the seafloor (mbsf) or more. Previous PCR-based molecular analysis showed the presence of diverse reductive dehalogenase gene (rdhA) homologs in marine subsurface sediment, suggesting that anaerobic respiration of organohalides is one of the possible energy-yielding pathways in the organic-rich sedimentary habitat. However, primer-independent molecular characterization of rdhA has remained to be demonstrated. Here, we studied the diversity and frequency of rdhA homologs by metagenomic analysis of five different depth horizons (0.8, 5.1, 18.6, 48.5, and 107.0 mbsf) at Site C9001 off the Shimokita Peninsula of Japan. From all metagenomic pools, remarkably diverse rdhA-homologous sequences, some of which are affiliated with novel clusters, were observed with high frequency. As a comparison, we also examined frequency of dissimilatory sulfite reductase genes (dsrAB), key functional genes for microbial sulfate reduction. The dsrAB were also widely observed in the metagenomic pools whereas the frequency of dsrAB genes was generally smaller than that of rdhA-homologous genes. The phylogenetic composition of rdhA-homologous genes was similar among the five depth horizons. Our metagenomic data revealed that subseafloor rdhA homologs are more diverse than previously identified from PCR-based molecular studies. Spatial distribution of similar rdhA homologs across wide depositional ages indicates that the heterotrophic metabolic processes mediated by the genes can be ecologically important, functioning in the organic-rich subseafloor sedimentary biosphere.

Pollen and spores date origin of rift basins from Texas to nova scotia as early late triassic.

PubMed

Traverse, A

1987-06-12

Palynological studies of the nonmarine Newark Supergroup of eastern North America and of rift basins in the northern Gulf of Mexico facilitate correlation with well-dated marine sections of Europe. New information emphasizes the chronological link between the Newark basins and a Gulf of Mexico basin and their common history in the rifting of North America from Pangea. Shales from the subsurface South Georgia Basin are shown to be of late Karnian age (early Late Triassic). The known time of earliest sedimentation in the Culpeper Basin is extended from Norian (late Late Triassic) to mid-Karnian, and the date of earliest sedimentation in the Richmond and Deep River basins is moved to at least earliest Karnian, perhaps Ladinian. The subsurface Eagle Mills Formation in Texas and Arkansas has been dated palynologically as mid- to late Karnian. The oldest parts of the Newark Supergroup, and the Eagle Mills Formation, mostly began deposition in precursor rift basins that formed in Ladinian to early Karnian time. In the southern Newark basins, sedimentation apparently ceased in late Karnian but continued in the northern basins well into the Jurassic, until genesis of the Atlantic ended basin sedimentation.

The Deep-Sea and Sub-Seafloor Frontier initiative - a key to link EC research and international scientific ocean drilling

NASA Astrophysics Data System (ADS)

Kopf, A.

2009-04-01

The Deep-Sea and Sub-Seafloor Frontiers project, DS3F, represents the continuation of the DSF roadmap towards the sustainable management of oceanic resources on a European scale. It will develop strategies for sub-seafloor sampling to contribute to a better understanding of deep-sea and sub-seafloor processes by connecting marine research in life and geosciences, climate and environmental change, as well as socio-economic issues and policy building. We propose to establish a long-lived research approach that considers (i) the need for a sustainable management of the ocean, and particularly the deep sea with enhanced activity (fishery, hydrocarbon exploration), (ii) the necessity to unravel deep-seated geological processes that drive seafloor ecosystems, and (iii) the value of seabed archives for the reconstruction of paleo-environmental conditions and the improved prediction of future climate change. Sub-seafloor drilling and sampling can provide two key components in understanding how deep-sea ecosystems function at present, and how they will respond to global change: (a) an inventory of present subsurface processes and biospheres, and their links to surface ecosystems, including seafloor observation and baseline studies, and (b) a high resolution archive of past variations in environmental conditions and biodiversity. For both components, an international effort is needed to share knowledge, methods and technologies, including mission-specific platforms to increase the efficiency, coverage and accuracy of sub-seafloor sampling and exploration. The deep biosphere has been discovered only within the past two decades and comprises the last major frontier for biological exploration. We lack fundamental knowledge of composition, diversity, distribution and metabolism in sub-seafloor biological communities at Earth's extremes, and their repercussions on seafloor ecosystems and life in the deep sea. There is equally an emerging need to shed light on geodynamic processes fuelling biological activity, and how such processes tie into the emission of geofuels and the formation of hydrocarbons and other resources. In addition, geodynamic processes may be cause natural hazards such as earthquake slip, submarine landslides, or tsunamis with a profound effect for humans and ecosystems. Their governing principles and potential triggers are poorly understood and often related to the sub-seafloor environment. In summary, the three main research areas in the Integrated Ocean Drilling Program (IODP; see Initial Science Plan www.iodp.org/isp/), i.e. geodynamics, climate and deep biosphere, as well as the goals of DS3F show a strong overlap and suggest an emerging need to join forces. This will result in the most efficient use of sub-seafloor sampling techniques and existing marine infrastructure to study the geosystem and its effects on biosphere and marine ecosystems. The DS3F initiative aims at providing a comprehensive "white paper" for a sustainable use of the oceans, an European Maritime Policy, and a strong link between European mission-specific drilling projects including IODP, IMAGES, ESF-EuroMARC and EC campaigns.

Phylogenetic and enzymatic diversity of deep subseafloor aerobic microorganisms in organics- and methane-rich sediments off Shimokita Peninsula.

PubMed

Kobayashi, Tohru; Koide, Osamu; Mori, Kozue; Shimamura, Shigeru; Matsuura, Takae; Miura, Takeshi; Takaki, Yoshihiro; Morono, Yuki; Nunoura, Takuro; Imachi, Hiroyuki; Inagaki, Fumio; Takai, Ken; Horikoshi, Koki

2008-07-01

"A meta-enzyme approach" is proposed as an ecological enzymatic method to explore the potential functions of microbial communities in extreme environments such as the deep marine subsurface. We evaluated a variety of extra-cellular enzyme activities of sediment slurries and isolates from a deep subseafloor sediment core. Using the new deep-sea drilling vessel "Chikyu", we obtained 365 m of core sediments that contained approximately 2% organic matter and considerable amounts of methane from offshore the Shimokita Peninsula in Japan at a water depth of 1,180 m. In the extra-sediment fraction of the slurry samples, phosphatase, esterase, and catalase activities were detected consistently throughout the core sediments down to the deepest slurry sample from 342.5 m below seafloor (mbsf). Detectable enzyme activities predicted the existence of a sizable population of viable aerobic microorganisms even in deep subseafloor habitats. The subsequent quantitative cultivation using solid media represented remarkably high numbers of aerobic, heterotrophic microbial populations (e.g., maximally 4.4x10(7) cells cm(-3) at 342.5 mbsf). Analysis of 16S rRNA gene sequences revealed that the predominant cultivated microbial components were affiliated with the genera Bacillus, Shewanella, Pseudoalteromonas, Halomonas, Pseudomonas, Paracoccus, Rhodococcus, Microbacterium, and Flexibacteracea. Many of the predominant and scarce isolates produced a variety of extra-cellular enzymes such as proteases, amylases, lipases, chitinases, phosphatases, and deoxyribonucleases. Our results indicate that microbes in the deep subseafloor environment off Shimokita are metabolically active and that the cultivable populations may have a great potential in biotechnology.

Evidence for Methyl-Compound-Activated Life in Coal Bed System 2 km Below Sea Floor

NASA Astrophysics Data System (ADS)

Trembath-reichert, E.; Morono, Y.; Dawson, K.; Wanger, G.; Bowles, M.; Heuer, V.; Hinrichs, K. U.; Inagaki, F.; Orphan, V. J.

2014-12-01

IODP Expedition 337 set the record for deepest marine scientific drilling down to 2.4 kmbsf. This cruise also had the unique opportunity to retrieve deep cores from the Shimokita coal bed system in Japan with the aseptic and anaerobic conditions necessary to look for deep life. Onboard scientists prepared nearly 1,700 microbiology samples shared among five different countries to study life in the deep biosphere. Samples spanned over 1 km in sampling depths and include representatives of shale, sandstone, and coal lithologies. Findings from previous IODP and deep mine expeditions suggest the genetic potential for methylotrophy in the deep subsurface, but it has yet to be observed in incubations. A subset of Expedition 337 anoxic incubations were prepared with a range of 13C-methyl substrates (methane, methylamine, and methanol) and maintained near in situ temperatures. To observe 13C methyl compound metabolism over time, we monitored the δ13C of the dissolved inorganic carbon (by-product of methyl compound metabolism) over a period of 1.5 years. Elemental analysis (EA), ion chromatograph (IC), 13C volatile fatty acid (VFA), and mineral-associated microscopy data were also collected to constrain initial and endpoint conditions in these incubations. Our geochemical evidence suggests that the coal horizon incubated with 13C-methane showed the highest activity of all methyl incubations. This provides the first known observation of methane-activated metabolism in the deep biosphere, and suggests there are not only active cells in the deeply buried terrigenous coal bed at Shimokita, but the presence of a microbial community activated by methylotrophic compounds.

Reactive Fe(II) layers in deep-sea sediments

NASA Astrophysics Data System (ADS)

König, Iris; Haeckel, Matthias; Drodt, Matthias; Suess, Erwin; Trautwein, Alfred X.

1999-05-01

The percentage of the structural Fe(II) in clay minerals that is readily oxidized to Fe(III) upon contact with atmospheric oxygen was determined across the downcore tan-green color change in Peru Basin sediments. This latent fraction of reactive Fe(II) was only found in the green strata, where it proved to be large enough to constitute a deep reaction layer with respect to the pore water O 2 and NO 3-. Large variations were detected in the proportion of the reactive Fe(II) concentration to the organic matter content along core profiles. Hence, the commonly observed tan-green color change in marine sediments marks the top of a reactive Fe(II) layer, which may represent the major barrier to the movement of oxidation fronts in pelagic subsurface sediments. This is also demonstrated by numerical model simulations. The findings imply that geochemical barriers to pore water oxidation fronts form diagenetically in the sea floor wherever the stage of iron reduction is reached, provided that the sediments contain a significant amount of structural iron in clay minerals.

Marine Subsurface Microbial Community Shifts Across a Hydrothermal Gradient in Okinawa Trough Sediments

PubMed Central

2016-01-01

Sediments within the Okinawa back-arc basin overlay a subsurface hydrothermal network, creating intense temperature gradients with sediment depth and potential limits for microbial diversity. We investigated taxonomic changes across 45 m of recovered core with a temperature gradient of 3°C/m from the dynamic Iheya North Hydrothermal System. The interval transitions sharply from low-temperature marine mud to hydrothermally altered clay at 10 meters below seafloor (mbsf). Here, we present taxonomic results from an analysis of the 16S rRNA gene that support a conceptual model in which common marine subsurface taxa persist into the subsurface, while high temperature adapted archaeal taxa show localized peaks in abundances in the hydrothermal clay horizons. Specifically, the bacterial phylum Chloroflexi accounts for a major proportion of the total microbial community within the upper 10 mbsf, whereas high temperature archaea (Terrestrial Hot Spring Crenarchaeotic Group and methanotrophic archaea) appear in varying local abundances in deeper, hydrothermal clay horizons with higher in situ temperatures (up to 55°C, 15 mbsf). In addition, geochemical evidence suggests that methanotrophy may be occurring in various horizons. There is also relict DNA (i.e., DNA preserved after cell death) that persists in horizons where the conditions suitable for microbial communities have ceased. PMID:28096736

An oligotrophic deep-subsurface community dependent on syntrophy is dominated by sulfur-driven autotrophic denitrifiers

PubMed Central

Kieft, Thomas L.; Kuloyo, Olukayode; Linage-Alvarez, Borja; van Heerden, Esta; Lindsay, Melody R.; Magnabosco, Cara; Wang, Wei; Wiggins, Jessica B.; Guo, Ling; Perlman, David H.; Kyin, Saw; Shwe, Henry H.; Harris, Rachel L.; Oh, Youmi; Yi, Min Joo; Purtschert, Roland; Slater, Greg F.; Ono, Shuhei; Wei, Siwen; Li, Long; Sherwood Lollar, Barbara; Onstott, Tullis C.

2016-01-01

Subsurface lithoautotrophic microbial ecosystems (SLiMEs) under oligotrophic conditions are typically supported by H2. Methanogens and sulfate reducers, and the respective energy processes, are thought to be the dominant players and have been the research foci. Recent investigations showed that, in some deep, fluid-filled fractures in the Witwatersrand Basin, South Africa, methanogens contribute <5% of the total DNA and appear to produce sufficient CH4 to support the rest of the diverse community. This paradoxical situation reflects our lack of knowledge about the in situ metabolic diversity and the overall ecological trophic structure of SLiMEs. Here, we show the active metabolic processes and interactions in one of these communities by combining metatranscriptomic assemblies, metaproteomic and stable isotopic data, and thermodynamic modeling. Dominating the active community are four autotrophic β-proteobacterial genera that are capable of oxidizing sulfur by denitrification, a process that was previously unnoticed in the deep subsurface. They co-occur with sulfate reducers, anaerobic methane oxidizers, and methanogens, which each comprise <5% of the total community. Syntrophic interactions between these microbial groups remove thermodynamic bottlenecks and enable diverse metabolic reactions to occur under the oligotrophic conditions that dominate in the subsurface. The dominance of sulfur oxidizers is explained by the availability of electron donors and acceptors to these microorganisms and the ability of sulfur-oxidizing denitrifiers to gain energy through concomitant S and H2 oxidation. We demonstrate that SLiMEs support taxonomically and metabolically diverse microorganisms, which, through developing syntrophic partnerships, overcome thermodynamic barriers imposed by the environmental conditions in the deep subsurface. PMID:27872277

Unique microbial community in drilling fluids from Chinese continental scientific drilling

USGS Publications Warehouse

Zhang, Gengxin; Dong, Hailiang; Jiang, Hongchen; Xu, Zhiqin; Eberl, Dennis D.

2006-01-01

Circulating drilling fluid is often regarded as a contamination source in investigations of subsurface microbiology. However, it also provides an opportunity to sample geological fluids at depth and to study contained microbial communities. During our study of deep subsurface microbiology of the Chinese Continental Scientific Deep drilling project, we collected 6 drilling fluid samples from a borehole from 2290 to 3350 m below the land surface. Microbial communities in these samples were characterized with cultivation-dependent and -independent techniques. Characterization of 16S rRNA genes indicated that the bacterial clone sequences related to Firmicutes became progressively dominant with increasing depth. Most sequences were related to anaerobic, thermophilic, halophilic or alkaliphilic bacteria. These habitats were consistent with the measured geochemical characteristics of the drilling fluids that have incorporated geological fluids and partly reflected the in-situ conditions. Several clone types were closely related to Thermoanaerobacter ethanolicus, Caldicellulosiruptor lactoaceticus, and Anaerobranca gottschalkii, an anaerobic metal-reducer, an extreme thermophile, and an anaerobic chemoorganotroph, respectively, with an optimal growth temperature of 50–68°C. Seven anaerobic, thermophilic Fe(III)-reducing bacterial isolates were obtained and they were capable of reducing iron oxide and clay minerals to produce siderite, vivianite, and illite. The archaeal diversity was low. Most archaeal sequences were not related to any known cultivated species, but rather to environmental clone sequences recovered from subsurface environments. We infer that the detected microbes were derived from geological fluids at depth and their growth habitats reflected the deep subsurface conditions. These findings have important implications for microbial survival and their ecological functions in the deep subsurface.

Cultivation Of Deep Subsurface Microbial Communities

NASA Astrophysics Data System (ADS)

Obrzut, Natalia; Casar, Caitlin; Osburn, Magdalena R.

2018-01-01

The potential habitability of surface environments on other planets in our solar system is limited by exposure to extreme radiation and desiccation. In contrast, subsurface environments may offer protection from these stressors and are potential reservoirs for liquid water and energy that support microbial life (Michalski et al., 2013) and are thus of interest to the astrobiology community. The samples used in this project were extracted from the Deep Mine Microbial Observatory (DeMMO) in the former Homestake Mine at depths of 800 to 2000 feet underground (Osburn et al., 2014). Phylogenetic data from these sites indicates the lack of cultured representatives within the community. We used geochemical data to guide media design to cultivate and isolate organisms from the DeMMO communities. Media used for cultivation varied from heterotrophic with oxygen, nitrate or sulfate to autotrophic media with ammonia or ferrous iron. Environmental fluid was used as inoculum in batch cultivation and strains were isolated via serial transfers or dilution to extinction. These methods resulted in isolating aerobic heterotrophs, nitrate reducers, sulfate reducers, ammonia oxidizers, and ferric iron reducers. DNA sequencing of these strains is underway to confirm which species they belong to. This project is part of the NASA Astrobiology Institute Life Underground initiative to detect and characterize subsurface microbial life; by characterizing the intraterrestrials, the life living deep within Earth’s crust, we aim to understand the controls on how and where life survives in subsurface settings. Cultivation of terrestrial deep subsurface microbes will provide insight into the survival mechanisms of intraterrestrials guiding the search for these life forms on other planets.

Generation of sedimentary fabrics and facies by repetitive excavation and storm infilling of burrow networks Holocene of south Florida and Caicos Platform, B. W. I

DOE Office of Scientific and Technical Information (OSTI.GOV)

Tedesco, L.P.; Wanless, H.R.

Excavation of deep, open burrow networks and subsequent infilling with sediment from the surface produces an entirely new sedimentary deposit and results in obliteration to severe diagenetic transformation of precursor depositional facies. Repetitive excavation and infilling is responsible for creating the preserved depositional facies of many marine deposits. Excavating burrowers occur from intertidal to abyssal depths, and are important throughout the Phanerozoic. The repetitive coupling of deep, open burrow excavation with subsequent storm sediment infilling of open burrow networks is a gradual process that ultimately results in the loss of the original deposit and the generation of new lithologies, fabricsmore » and facies. The new lithologies are produced in the subsurface and possess fabrics, textures and skeletal assemblages that are not a direct reflection of either precursor facies or the surficial depositional conditions. Sedimentary facies generated by repetitive burrow excavation and infilling commonly are massively bedded and generally are mottled skeletal packstones. Skeletal grains usually are well-preserved and coarser components are concentrated in burrow networks, pockets and patches. The coarse skeletal components of burrow-generated facies are a mixture of coarse bioclasts from the precursor facies and both the coarse and fine skeletal material introduced from the sediment surface. Many so-called bioturbated or massive facies may, in fact, be primary depositional facies generated in the subsurface and represent severe diagenetic transformation of originally deposited sequences. In addition, mudstones and wackestones mottled with packstone patches may record storm sedimentation.« less

Dissolved Organophosphate Esters and Polybrominated Diphenyl Ethers in Remote Marine Environments: Arctic Surface Water Distributions and Net Transport through Fram Strait.

PubMed

McDonough, Carrie A; De Silva, Amila O; Sun, Caoxin; Cabrerizo, Ana; Adelman, David; Soltwedel, Thomas; Bauerfeind, Eduard; Muir, Derek C G; Lohmann, Rainer

2018-06-05

Organophosphate esters (OPEs) have been found in remote environments at unexpectedly high concentrations, but very few measurements of OPE concentrations in seawater are available, and none are available in subsurface seawater. In this study, passive polyethylene samplers (PEs) deployed on deep-water moorings in the Fram Strait and in surface waters of Canadian Arctic lakes and coastal sites were analyzed for a suite of common OPEs. Total OPEs ( ∑ 11 OPE) at deep-water sites were dominated by chlorinated OPEs, and ranged from 6.3 to 440 pg/L. Concentrations were similar in eastern and western Fram Strait. Chlorinated OPEs were also dominant in Canadian Arctic surface waters (mean concentration ranged from < DL to 4400 pg/L), while nonhalogenated alkyl/aryl-substituted OPEs remained low (1.3-55 pg/L), possibly due to the greater long-range transport potential of chlorinated OPEs. Polybrominated diphenyl ethers (PBDEs) were found at much lower concentrations than OPEs (

Issues in subsurface exploration of ice sheets

NASA Technical Reports Server (NTRS)

French, L.; Carsey, F.; Zimmerman, W.

2000-01-01

Exploration of the deep subsurface ice sheets of Earth, Mars, Europa, and Titan has become a major consideration in addressing scientific objectives in climate change, extremophile biology, exobiology,chemical weathering, planetary evolution and ice dynamics.

Large fluctuations of dissolved oxygen in the Indian and Pacific oceans during Dansgaard-Oeschger oscillations caused by variations of North Atlantic Deep Water subduction

USGS Publications Warehouse

Schmittner, A.; Galbraith, E.D.; Hostetler, S.W.; Pedersen, Thomas F.; Zhang, R.

2007-01-01

Paleoclimate records from glacial Indian and Pacific oceans sediments document millennial-scale fluctuations of subsurface dissolved oxygen levels and denitrification coherent with North Atlantic temperature oscillations. Yet the mechanism of this teleconnection between the remote ocean basins remains elusive. Here we present model simulations of the oxygen and nitrogen cycles that explain how changes in deepwater subduction in the North Atlantic can cause large and synchronous variations of oxygen minimum zones, throughout the Northern Hemisphere of the Indian and Pacific oceans, consistent with the paleoclimate records. Cold periods in the North Atlantic are associated with reduced nutrient delivery to the upper Indo-Pacific oceans, thereby decreasing productivity. Reduced export production diminishes subsurface respiration of organic matter leading to higher oxygen concentrations and less denitrification. This effect of reduced oxygen consumption dominates at low latitudes. At high latitudes in the Southern Ocean and North Pacific, increased mixed layer depths and steepening of isopycnals improve ocean ventilation and oxygen supply to the subsurface. Atmospheric teleconnections through changes in wind-driven ocean circulation modify this basin-scale pattern regionally. These results suggest that changes in the Atlantic Ocean circulation, similar to those projected by climate models to possibly occur in the centuries to come because of anthropogenic climate warming, can have large effects on marine ecosystems and biogeochemical cycles even in remote areas. Copyright 2007 by the American Geophysical Union.

Reconstructing Deep Ocean Circulation in the North Atlantic from Bermuda Rise, and Beyond

NASA Astrophysics Data System (ADS)

McManus, J. F.

2016-12-01

The large-scale subsurface circulation of the ocean is an important component of the Earth's climate system, and contributes to the global and regional transport of heat and mass. Assessing how this system has changed in the past is thus a priority for understanding natural climate variability. A long-coring campaign on Bermuda Rise has provided additional abundant high-quality sediments from this site of rapid accumulation in the deep western basin, situated beneath the subtropical gyre of the North Atlantic Ocean. These sediments allow the high-resolution reconstruction of deepwater chemistry and export from this key location throughout the last 150,000 years, covering the entire last glacial cycle in a continuous section of 35 meters in core KNR191-CDH19. The suite of proxy indicators analyzed includes uranium-series disequilibria, neodymium isotopes, and benthic stable isotopes. Combined with multiple previous studies of nearby cores on Bermuda Rise, the published and new proxy data from CDH19 confirm the variability of the deep circulation in the Atlantic Ocean in association with past climate changes. The multiple indicators, along with complementary data from other locations, display coherent evidence for contrasts between deep circulation during glacial and interglacial intervals, with persistent strong, deep ventilation only within the peak interglacial of marine isotope stage 5e (MIS 5e) and the Holocene. In contrast, repeated, dramatic variability in deep ocean circulation accompanied the millennial climate changes of the last glaciation and deglaciation. The largest magnitude circulation shifts occurred at the transitions into stadials associated with the Hudson strait iceberg discharges and between them and the ensuing northern interstadial warmings, significantly exceeding that of the overall glacial-interglacial difference, highlighting the potential oceanographic and climatic importance of short-term perturbations to the deep ocean circulation.

Diverse molecular signatures for ribosomally ‘active’ Perkinsea in marine sediments

PubMed Central

2014-01-01

Background Perkinsea are a parasitic lineage within the eukaryotic superphylum Alveolata. Recent studies making use of environmental small sub-unit ribosomal RNA gene (SSU rDNA) sequencing methodologies have detected a significant diversity and abundance of Perkinsea-like phylotypes in freshwater environments. In contrast only a few Perkinsea environmental sequences have been retrieved from marine samples and only two groups of Perkinsea have been cultured and morphologically described and these are parasites of marine molluscs or marine protists. These two marine groups form separate and distantly related phylogenetic clusters, composed of closely related lineages on SSU rDNA trees. Here, we test the hypothesis that Perkinsea are a hitherto under-sampled group in marine environments. Using 454 diversity ‘tag’ sequencing we investigate the diversity and distribution of these protists in marine sediments and water column samples taken from the Deep Chlorophyll Maximum (DCM) and sub-surface using both DNA and RNA as the source template and sampling four European offshore locations. Results We detected the presence of 265 sequences branching with known Perkinsea, the majority of them recovered from marine sediments. Moreover, 27% of these sequences were sampled from RNA derived cDNA libraries. Phylogenetic analyses classify a large proportion of these sequences into 38 cluster groups (including 30 novel marine cluster groups), which share less than 97% sequence similarity suggesting this diversity encompasses a range of biologically and ecologically distinct organisms. Conclusions These results demonstrate that the Perkinsea lineage is considerably more diverse than previously detected in marine environments. This wide diversity of Perkinsea-like protists is largely retrieved in marine sediment with a significant proportion detected in RNA derived libraries suggesting this diversity represents ribosomally ‘active’ and intact cells. Given the phylogenetic range of hosts infected by known Perkinsea parasites, these data suggest that Perkinsea either play a significant but hitherto unrecognized role as parasites in marine sediments and/or members of this group are present in the marine sediment possibly as part of the ‘seed bank’ microbial community. PMID:24779375

Viral Predation and Host Immunity Structure Microbial Communities in a Terrestrial Deep Subsurface, Hydraulically Fractured Shale System

NASA Astrophysics Data System (ADS)

Daly, R. A.; Mouser, P. J.; Trexler, R.; Wrighton, K. C.

2014-12-01

Despite a growing appreciation for the ecological role of viruses in marine and gut systems, little is known about their role in the terrestrial deep (> 2000 m) subsurface. We used assembly-based metagenomics to examine the viral component in fluids from hydraulically fractured Marcellus shale gas wells. Here we reconstructed microbial and viral genomes from samples collected 7, 82, and 328 days post fracturing. Viruses accounted for 4.14%, 0.92% and 0.59% of the sample reads that mapped to the assembly. We identified 6 complete, circularized viral genomes and an additional 92 viral contigs > 5 kb with a maximum contig size of 73.6 kb. A BLAST comparison to NCBI viral genomes revealed that 85% of viral contigs had significant hits to the viral order Caudovirales, with 43% of sequences belonging to the family Siphoviridae, 38% to Myoviridae, and 12% to Podoviridae. Enrichment of Caudovirales viruses was supported by a large number of predicted proteins characteristic of tailed viruses including terminases (TerL), tape measure, tail formation, and baseplate related proteins. The viral contigs included evidence of lytic and temperate lifestyles, with the 7 day sample having the greatest number of detected lytic viruses. Notably in this sample, the most abundant virus was lytic and its inferred host, a member of the Vibrionaceae, was not detected at later time points. Analyses of CRISPR sequences (a viral and foreign DNA immune system in bacteria and archaea), linked 18 viral contigs to hosts. CRISPR linkages increased through time and all bacterial and archaeal genomes recovered in the final time point had genes for CRISPR-mediated viral defense. The majority of CRISPR sequences linked phage genomes to several Halanaerobium strains, which are the dominant and persisting members of the community inferred to be responsible for carbon and sulfur cycling in these shales. Network analysis revealed that several viruses were present in the 82 and 328 day samples; this viral persistence is consistent with concomitant temporal stability in geochemistry and microbial community composition. Our findings suggest that after a disturbance (hydraulic fracturing) viral predation and host immunity is an important controller of microbial community structure, metabolism, and thus biogeochemical cycling in the deep subsurface.

Homoacetogenesis in Deep-Sea Chloroflexi, as Inferred by Single-Cell Genomics, Provides a Link to Reductive Dehalogenation in Terrestrial Dehalococcoidetes

PubMed Central

Sewell, Holly L.; Kaster, Anne-Kristin

2017-01-01

ABSTRACT The deep marine subsurface is one of the largest unexplored biospheres on Earth and is widely inhabited by members of the phylum Chloroflexi. In this report, we investigated genomes of single cells obtained from deep-sea sediments of the Peruvian Margin, which are enriched in such Chloroflexi. 16S rRNA gene sequence analysis placed two of these single-cell-derived genomes (DscP3 and Dsc4) in a clade of subphylum I Chloroflexi which were previously recovered from deep-sea sediment in the Okinawa Trough and a third (DscP2-2) as a member of the previously reported DscP2 population from Peruvian Margin site 1230. The presence of genes encoding enzymes of a complete Wood-Ljungdahl pathway, glycolysis/gluconeogenesis, a Rhodobacter nitrogen fixation (Rnf) complex, glyosyltransferases, and formate dehydrogenases in the single-cell genomes of DscP3 and Dsc4 and the presence of an NADH-dependent reduced ferredoxin:NADP oxidoreductase (Nfn) and Rnf in the genome of DscP2-2 imply a homoacetogenic lifestyle of these abundant marine Chloroflexi. We also report here the first complete pathway for anaerobic benzoate oxidation to acetyl coenzyme A (CoA) in the phylum Chloroflexi (DscP3 and Dsc4), including a class I benzoyl-CoA reductase. Of remarkable evolutionary significance, we discovered a gene encoding a formate dehydrogenase (FdnI) with reciprocal closest identity to the formate dehydrogenase-like protein (complex iron-sulfur molybdoenzyme [CISM], DET0187) of terrestrial Dehalococcoides/Dehalogenimonas spp. This formate dehydrogenase-like protein has been shown to lack formate dehydrogenase activity in Dehalococcoides/Dehalogenimonas spp. and is instead hypothesized to couple HupL hydrogenase to a reductive dehalogenase in the catabolic reductive dehalogenation pathway. This finding of a close functional homologue provides an important missing link for understanding the origin and the metabolic core of terrestrial Dehalococcoides/Dehalogenimonas spp. and of reductive dehalogenation, as well as the biology of abundant deep-sea Chloroflexi. PMID:29259088

Biodegradation of crude oil in Arctic subsurface water from the Disko Bay (Greenland) is limited.

PubMed

Scheibye, Katrine; Christensen, Jan H; Johnsen, Anders R

2017-04-01

Biological degradation is the main process for oil degradation in a subsurface oil plume. There is, however, little information on the biodegradation potential of Arctic, marine subsurface environments. We therefore investigated oil biodegradation in microcosms at 2 °C containing Arctic subsurface seawater from the Disko Bay (Greenland) and crude oil at three concentrations of 2.5-10 mg/L. Within 71 days, the total petroleum hydrocarbon concentration decreased only by 18 ± 18% for an initial concentration of 5 mg/L. The saturated alkanes nC13-nC30 and the isoprenoids iC18-iC21 were biodegraded at all concentrations indicating a substantial potential for biodegradation of these compound classes. Polycyclic aromatic compounds (PACs) disappeared from the oil phase, but dissolution was the main process of removal. Analysis of diagnostic ratios indicated almost no PAC biodegradation except for the C1-naphthalenes. To conclude, the marine subsurface microorganisms from the Disko Bay had the potential for biodegradation of n-alkanes and isoprenoids while the metabolically complex and toxic PACs and their alkylated homologs remained almost unchanged. Copyright © 2016 Elsevier Ltd. All rights reserved.

A Deep-towed Digital Multichannel Seismic Streamer For Very High-resolution Studies Of Marine Subsurface Structures

NASA Astrophysics Data System (ADS)

Breitzke, M.; Bialas, J.; Inggas Working Group

A deep-towed digital multichannel seismic streamer and side scan sonar system has been developed to collect marine seismic data with a very high lateral in- and cross- line resolution particularly in regions of special interest for gas hydrate research. As marine seismic sources conventional air-, GI or waterguns will be shot close to the sea surface. A depressor of about 2 tons weight ensures the slightly buoyant deep-towed system to keep in depth. The streamer is a modular digital system which can be operated in water depths up to 6000 m. At this stage of development, it consists of a 50 m lead-in cable towed behind the side scan sonar fish and 26 single nodes for each channel. Each node houses a sin- gle hydrophone, low- and high-cut filter, preamplifier and 24-bit AD converter. Three special engineering nodes additionally include a pressure sensor and compass which provide information on the depth of the node and on its geographical position relative to the ship. Nodes are interchangeable and can arbitrarily be connected by cables of 1 or 6.5 m length. A minimum sample interval of 0.25 ms allows to use sufficiently high- frequency seismic sources to guarantee both a very high vertical and lateral resolution. Data are stored both underwater on a linux-based PC with 120 GB storage capacity installed in a pressure vessel mounted on the side scan sonar fish, and onboard on a PC running a data acquisition program and a DLT device. Data are transferred between underwater and onboard systems via telemetry controlled by a second linux-based PC onboard, using coaxial cable or fibre optic technology. The exact position of the side scan sonar fish is determined by the ultra-short base line (USBL) Posidonia system. It mainly consists of a hull-mounted acoustic unit (antenna) and a responder mounted on the side scan sonar fish. Additionally, the three engineering nodes measure the depth and heading of the streamer at three positions relative to the side scan sonar fish. All deep-towed and laboratory components are synchronized by DGPS time based trigger signals. This deep-towed system will first be tested during the SO162 cruise of RV Sonne (21.2. - 12.3.02) off Peru and Ecuador along profile lines where conventional multi- channel seismic reflection data have already been collected during a fomer cruise.

Observation to Theory in Deep Subsurface Microbiology Research: Can We Piece It Together?

NASA Astrophysics Data System (ADS)

Colwell, F. S.; Thurber, A. R.

2016-12-01

Three decades of observations of microbes in deep environments have led to startling discoveries of life in the subsurface. Now, a few theoretical frameworks exist that help to define Stygian life. Temperature, redox gradients, productivity (e.g., in the overlying ocean), and microbial power requirements are thought to determine the distribution of microbes in the subsurface. Still, we struggle to comprehend the spatial and temporal spectra of Earth processes that define how deep microbe communities survive. Stommel diagrams, originally used to guide oceanographic sampling, may be useful in depicting the subsurface where microbial communities are impacted by co-occurring spatial and temporal phenomena that range across exponential scales. Spatially, the geological settings that influence the activity and distribution of microbes range from individual molecules or minerals all the way up to the planetary-scale where geological formations, occupying up to 105 km3, dictate the bio- and functional geography of microbial communities. Temporally, life in the subsurface may respond in time units familiar to humans (e.g., seconds to days) or to events that unfold over hundred millennial time periods. While surface community dynamics are underpinned by solar and lunar cycles, these cycles only fractionally dictate survival underground where phenomena like tectonic activity, isostatic rebound, and radioactive decay are plausible drivers of microbial life. Geological or planetary processes that occur on thousand or million year cycles could be uniquely important to microbial viability in the subsurface. Such an approach aims at a holistic comprehension of the interaction of Earth system dynamics with microbial ecology.

Trends and Future Challenges in Sampling the Deep Terrestrial Biosphere

DOE Office of Scientific and Technical Information (OSTI.GOV)

Wilkins, Michael J.; Daly, Rebecca; Mouser, Paula J.

2014-09-12

Research in the deep terrestrial biosphere is driven by interest in novel biodiversity and metabolisms, biogeochemical cycling, and the impact of human activities on this ecosystem. As this interest continues to grow, it is important to ensure that when subsurface investigations are proposed, materials recovered from the subsurface are sampled and preserved in an appropriate manner to limit contamination and ensure preservation of accurate microbial, geochemical, and mineralogical signatures. On February 20th, 2014, a workshop on “Trends and Future Challenges in Sampling The Deep Subsurface” was coordinated in Columbus, Ohio by The Ohio State University and West Virginia University faculty,more » and sponsored by The Ohio State University and the Sloan Foundation’s Deep Carbon Observatory. The workshop aims were to identify and develop best practices for the collection, preservation, and analysis of terrestrial deep rock samples. This document summarizes the information shared during this workshop.« less

Novel determination of radon-222 velocity in deep subsurface rocks and the feasibility to using radon as an earthquake precursor

NASA Astrophysics Data System (ADS)

Zafrir, Hovav; Ben Horin, Yochai; Malik, Uri; Chemo, Chaim; Zalevsky, Zeev

2016-09-01

A novel technique utilizing simultaneous radon monitoring by gamma and alpha detectors to differentiate between the radon climatic driving forces and others has been improved and used for deep subsurface investigation. Detailed long-term monitoring served as a proxy for studying radon movement within the shallow and deep subsurface, as well as for analyzing the effect of various parameters of the radon transport pattern. The main achievements of the investigation are (a) determination, for the first time, of the radon movement velocity within rock layers at depths of several tens of meters, namely, 25 m/h on average; (b) distinguishing between the diurnal periodical effect of the ambient temperature and the semidiurnal effect of the ambient pressure on the radon temporal spectrum; and (c) identification of a radon random preseismic anomaly preceding the Nuweiba, M 5.5 earthquake of 27 June 2015 that occurred within Dead Sea Fault Zone.

Deep water circulation, residence time, and chemistry in a karst complex.

PubMed

Aquilina, L; Ladouche, B; Doerfliger, N; Bakalowicz, M

2003-01-01

We investigated the hydrochemistry of a complex karst hydrosystem made of two carbonate units along a coastal lagoon. Ground water emerges on the lagoon floor from a submarine spring. In addition, thermal waters circulate through the limestone and mix with karst water near the lagoon shore. A distinction between the water from the two carbonate units is related to marine influences and human activities. In one of the massifs, the data show an incongruent dissolution of dolomite with time. In the other system, a slight contamination by saline fluids from the thermal reservoir has led to high calcium and magnesium concentrations. 36Cl, 14C, and 3H data constrain the residence time of the water, and allow for the distinguishing of four circulation types: (1) shallow surface circulation (primarily above sea level) in the karstic units with short residence times (<20 years); (2) shallow subsurface circulation (approximately 0 to -50 m) below the karstic units with residence time in the order of 50 years; (3) deep circulation at depth of 700 to 1500 m in the Jurassic limestones below thick sedimentary cover, with residence time of several thousand years for a part of the water; and (4) deep circulation at a depth of approximately 2500 m, which represents the thermal reservoir in the Jurassic units with residence time of approximately 100,000 years. An interpretative hydrogeological framework is based on the constraints of the geochemical analyses of the deep thermal system, and by water flow from the surface to the deep parts of the carbonate formations.

Microbes, Minerals and Electrodes at the Sanford Underground Research Facility (SURF): Electrochemistry 4100 ft below the surface.

NASA Astrophysics Data System (ADS)

Rowe, A. R.; Abuyen, K.; Casar, C. P.; Osburn, M. R.; Kruger, B.; El-Naggar, M.; Amend, J.

2017-12-01

Little is known about the importance of mineral oxidation processes in subsurface environments. This stems, in part from our limited insight into the biochemistry of many of these metabolisms, especially where redox interactions with solid surfaces is concerned. To this aim, we have been developing electrochemical cultivation techniques, to target enrichment and isolation of microbes capable of oxidative extracellular electron transfer (oxEET)—transfer of electrons from the exterior of the cell to the interior. Our previous worked focused on marine sediments; using an electrode poised at a given redox potential to isolate mineral-oxidizing microbes. Electrode oxidizing microbes isolated from these enrichments belong to the genera Thioclava, Marinobacter, Halomonas, Idiomarina, Thalassospira, and Pseudamonas; organisms commonly detected in marine and deep sea sediments but not generally associated with mineral, sulfur and/or iron oxidation. At the Sanford Underground Research Facility (SURF) in Leed, South Dakota, we have been utilizing similar electrocultivation techniques to understand: 1) the potential for mineral oxidation by subsurface microbes, 2) their selective colonization on mineral vs. electrode surfaces, as well as 3) the community composition of microbes capable of these metabolic interactions. An electrochemical and mineral enrichment scheme was designed and installed into a sulfidic groundwater flow, located at the 4100 ft level of the former gold mine. The communities enriched on electrodes (graphite and indium tin oxide coated glass) and minerals (sulfur, pyrite, and schists from the location) were compared to the long-term ground water microbial community observed. Ultimately, these observations will help inform the potential activity of a lithotrophic microbes in situ and will in turn guide our culturing efforts.

The role of soil processes in determining mechanisms of slope failure and hillslope development in a humid-tropical forest eastern Puerto Rico

USGS Publications Warehouse

Simon, A.; Larsen, M.C.; Hupp, C.R.

1990-01-01

Translational failures, with associated downslope earthflow components and shallow slides, appear to be the primary mechanism of hillslope denudation in the humid tropical forests of the mountains of eastern Puerto Rico. In-situ weathering of quartz diorite and marine-deposited volcaniclastics produces residual soil (saprolite; up to 21 m deep) / weathered rock profiles. Discontinuous zones of contrasting density and permeability particularly in quartz-diorite slopes at 0.5 m, and between 3 and 7 m, create both pathways and impedances for water that can result in excess pore pressures and, ultimately, aid in determining the location of failure planes and magnitudes of slope failures. In combination with relict fractures which create planes of weakness within the saprolite, and the potential significance of tensile stresses in the upper zone of saprolite (hypothesized to be caused by subsurface soil creep), shear failure can then occur during or after periods of heavy rainfall. Results of in-situ shear-strength testing show negative y-intercepts on the derived Mohr-Coulomb failure envelopes (approximately 50% of all tests) that are interpreted as apparent tensile stresses. Observation of tension cracks 1-2 m deep support the test data. Subsurface soil creep can cause extension of the soil and the development of tensile stresses along upper-slope segments. Shear-strength data support this hypothesis for both geologic types. Apparent values of maximum and mean tensile stress are greatest along upper slopes (16.5 and 6.29 kPa). Previously documented maximum rates of downslope movement coincided with local minima of shear strength, and the shear-strength minimum for all tests was located near 0.5 m below land surface, the shallow zone of contrasting permeabilities. These results indicate that subsurface soil creep, a slow semi-continuous process, may exert a profound influence on rapid, shallow slope failures in saprolitic soils. Data indicate that cove slopes in quartz diorite tend to be the most unstable when saturation levels reach 75%. Deep failures (7 m deep) appear the most critical but not the most frequent because pore pressure build-up will occur more rapidly in the upper perched zone of translocated clays before reaching the lower zone between 3 and 7 m. Frequent shallow failures could reduce the probability of deeper failures by removing overburden and reducing shear stress at depth. Deep failures are more likely to result from storm events of great duration and intensity. Sixty-six 'naturally occurring' and more than 100 'road-related' landslides were mapped. Forest elevations exceed 1000 m, but the majority of these failures were found between 600 and 800 m in elevation. This appears to be the area where there is sufficient concentration of subsurface water to result in excess pore pressures. The high percentage of slope failures in the 600-800-m range, relative to the percentage at higher elevations, suggests that differences in soil-water processes are responsible for the form of these mountain slopes. Steep linear segments are maintained at higher elevations. Slope angles are reduced in the 600-800-m range by frequent shallow slides, creating a largely concave surface. In combination, slope segments above 800 m, and those between 600 and 800 m, produce the characteristic form of the mountains of eastern Puerto Rico. ?? 1990.

Quantifying microbial activity in deep subsurface sediments using a tritium based hydrognease enzyme assay

NASA Astrophysics Data System (ADS)

Adhikari, R.; Nickel, J.; Kallmeyer, J.

2012-12-01

Microbial life is widespread in Earth's subsurface and estimated to represent a significant fraction of Earth's total living biomass. However, very little is known about subsurface microbial activity and its fundamental role in biogeochemical cycles of carbon and other biologically important elements. Hydrogen is one of the most important elements in subsurface anaerobic microbial metabolism. Heterotrophic and chemoautotrophic microorganisms use hydrogen in their metabolic pathways. They either consume or produce protons for ATP synthesis. Hydrogenase (H2ase) is a ubiquitous intracellular enzyme that catalyzes the interconversion of molecular hydrogen and/or water into protons and electrons. The protons are used for the synthesis of ATP, thereby coupling energy generating metabolic processes to electron acceptors such as CO2 or sulfate. H2ase enzyme targets a key metabolic compound in cellular metabolism therefore the assay can be used as a measure for total microbial activity without the need to identify any specific metabolic process. Using the highly sensitive tritium assay we measured H2ase enzyme activity in the organic-rich sediments of Lake Van, a saline, alkaline lake in eastern Turkey, in marine sediments of the Barents Sea and in deep subseafloor sediments from the Nankai Trough. H2ase activity could be quantified at all depths of all sites but the activity distribution varied widely with depth and between sites. At the Lake Van sites H2ase activity ranged from ca. 20 mmol H2 cm-3d-1 close to the sediment-water interface to 0.5 mmol H2 cm-3d-1 at a depth of 0.8 m. In samples from the Barents Sea H2ase activity ranged between 0.1 to 2.5 mmol H2 cm-3d-1 down to a depth of 1.60 m. At all sites the sulfate reduction rate profile followed the upper part of the H2ase activity profile until sulfate reduction reached the minimum detection limit (ca. 10 pmol cm-3d-1). H2ase activity could still be quantified after the decline of sulfate reduction, indicating that other microbial processes are becoming quantitatively more important. Similarly, H2ase activity could be quantified at greater depths (ca. 400 mbsf) in Nankai Trough sediments. Nankai Trough is one of the world's most geologically active accretionary wedges, where the Philippine Plate is subducting under the southwest of Japan. Due to the transient faulting, huge amounts of energy are liberated that enhance chemical transformations of organic and inorganic matter. An increase in H2ase activity could be observed at greater depth, which suggests that microbial activity is stimulated by the fault activity. Current techniques for the quantification of microbial activity in deep sediments have already reached their physical and technical limits and-in many cases- are still not sensitive enough to quantify extremely low rates of microbial activity. Additional to the quantification of specific processes, estimates of total microbial activity will provide valuable information on energy flux and microbial metabolism in the subsurface biosphere and other low-energy environments as well as help identifying hotspots of microbial activity. The tritium H2ase assay has a potential to become a valuable tool to measure total subsurface microbial activity.

An extreme internal solitary wave event observed in the northern South China Sea

PubMed Central

Huang, Xiaodong; Chen, Zhaohui; Zhao, Wei; Zhang, Zhiwei; Zhou, Chun; Yang, Qingxuan; Tian, Jiwei

2016-01-01

With characteristics of large amplitude and strong current, internal solitary wave (ISW) is a major hazard to marine engineering and submarine navigation; it also has significant impacts on marine ecosystems and fishery activity. Among the world oceans, ISWs are particular active in the northern South China Sea (SCS). In this spirit, the SCS Internal Wave Experiment has been conducted since March 2010 using subsurface mooring array. Here, we report an extreme ISW captured on 4 December 2013 with a maximum amplitude of 240 m and a peak westward current velocity of 2.55 m/s. To the authors’ best knowledge, this is the strongest ISW of the world oceans on record. Full-depth measurements also revealed notable impacts of the extreme ISW on deep-ocean currents and thermal structures. Concurrent mooring measurements near Batan Island showed that the powerful semidiurnal internal tide generation in the Luzon Strait was likely responsible for the occurrence of the extreme ISW event. Based on the HYCOM data-assimilation product, we speculate that the strong stratification around Batan Island related to the strengthening Kuroshio may have contributed to the formation of the extreme ISW. PMID:27444063

Distribution of surface deposits in the Gijón urban subsurface (NW Spain)

NASA Astrophysics Data System (ADS)

López-Fernández, Carlos; Pando, Luis; María Díaz-Díaz, Luis; Arias, Daniel; Flor-Blanco, Germán

2016-04-01

Gijón is the second most populous city (278.285 inhabitants in 2015) of the Spanish north coast. The urban subsurface is mostly formed (≈80%) by Quaternary sediments which exceeds 20 meters of thickness when cover the Jurassic carbonate basement (Gijón Formation). This work has allowed to know the spatial distribution of the different types of sediments in urban area. To do this, a GIS database was developed that contains data from more than 450 geotechnical reports. Information provided by fieldwork and the exploration of excavation works in progress throughout the city was also incorporated. Currently, the geodatabase developed comprises more than 1,400 site investigation points: boreholes, dynamic probing and trial pits. This has been supplemented with hundreds on-site and laboratory tests carried out on core samples of soils and rocks, performed following renowned testing standards. Quaternary formations, largely concealed below man-made fills, set up two main areas composed by granular and cohesive soils: the littoral zone at the northern urban perimeter and the continental zone at the southern sector. The first one, fluvial-marine deposits, consist of sandy sediments related to beach/dune systems and marsh deposits, with gravels, organogenic mud and layers of Holocene peat. The southern area is composed by residual clays -silt and coarse-grained soils to a lesser extent- linked to the dissolution of the Mesozoic substrate. Associated with these two types of deposits, two main aquifers can be differentiated. The thickness of the man-made deposits, fluvial-marine sediments and residual deposits was determined in this work. Thus, a 3-d model of Gijón subsurface at urban scale was obtained. A map of the Jurassic bedrock bedrock was also produced. Building construction works may be affected by the geotechnical behavior of the Quaternary deposits and the saturation of granular sediments., This is because the shallowness of the water table, the usual low bearing capacity and other issues such as clays consolidation or swelling phenomena. The use of concrete slabs, deep foundations and piled/anchored retaining walls is very common when projecting underground floors under these conditions.

Spatial distribution of marine crenarchaeota group I in the vicinity of deep-sea hydrothermal systems.

PubMed

Takai, Ken; Oida, Hanako; Suzuki, Yohey; Hirayama, Hisako; Nakagawa, Satoshi; Nunoura, Takuro; Inagaki, Fumio; Nealson, Kenneth H; Horikoshi, Koki

2004-04-01

Distribution profiles of marine crenarchaeota group I in the vicinity of deep-sea hydrothermal systems were mapped with culture-independent molecular techniques. Planktonic samples were obtained from the waters surrounding two geographically and geologically distinct hydrothermal systems, and the abundance of marine crenarchaeota group I was examined by 16S ribosomal DNA clone analysis, quantitative PCR, and whole-cell fluorescence in situ hybridization. A much higher proportion of marine crenarchaeota group I within the microbial community was detected in deep-sea hydrothermal environments than in normal deep and surface seawaters. The highest proportion was always obtained from the ambient seawater adjacent to hydrothermal emissions and chimneys but not from the hydrothermal plumes. These profiles were markedly different from the profiles of epsilon-Proteobacteria, which are abundant in the low temperatures of deep-sea hydrothermal environments.

Microbial Biogeography on the Legacies of Historical Events in the Arctic Subsurface Sediments

NASA Astrophysics Data System (ADS)

Han, Dukki; Nam, Seung-Il; Hur, Hor-Gil

2017-04-01

The Arctic marine environment consists of various microbial habitats. The niche preference of microbial assemblages in the Arctic Ocean has been surveyed with the modern environmental change by oceanographic traits such as sea-ice dynamics, current circulation, and sedimentation. The North Pacific inflow from the shallow and narrow Bering Strait is highly susceptible to sea-level fluctuations, and thus the water mass exchange mediated by the history of sea-ice between the North Pacific and the Chukchi Sea in the Arctic Ocean. Over geological timescale, the climate change may provide putative evidences for ecological niche for the Arctic microbial assemblages as well as geological records in response to the paleoclimate change. In the present study, the multidisciplinary approach, based on microbiology, geology, and geochemistry, was applied to survey the microbial assemblages in the Arctic subsurface sediments and help further integrate the microbial biogeography and biogeochemical patterns in the Arctic subsurface biosphere. Our results describe microbial assemblages with high-resolution paleoceanographic records in the Chukchi Sea sediment core (ARA02B/01A-GC; 5.4 mbsf) to show the processes that drive microbial biogeographic patterns in the Arctic subsurface sediments. We found microbial habitat preferences closely linked to Holocene paleoclimate records as well as geological, geochemical, and microbiological evidence for the inference of the sulphate-methane transition zone (SMTZ) in the Chukchi Sea. Especially, the vertically distributed predominant populations of Gammaproteobacteria and Marine Group II Euryarchaeota in the ARA02B/01A-GC consistent with the patterns of the known global SMTZs and Holocene sedimentary records, suggesting that in-depth microbiological profiles integrated with geological records may be indirectly useful for reconstructing Arctic paleoclimate changes. In the earliest phase of Mid Holocene in the ARA02B/01A-GC with concentrated crenarchaeol (a unique biomarker for Marine Group I Thaumarchaea), the most abundant archaeal population was Marine Group II Euryarchaeota rather than Marine Group I Thaumarchaea, suggesting that the interpretation of archaeal tetraether lipids in subsurface sediments needs careful consideration for paleoceanography. In conclusion, our findings have important implications for the availability of microbial biogeography in the sedimentary record. The present study offers a deeper understanding of the legacies of historical events during the Holocene and implies that the survey of microbial biogeography may be an appropriate tool to monitor potential effects from the climate change in the Arctic Ocean.

Simulating pathways of subsurface oil in the Faroe-Shetland Channel using an ocean general circulation model.

PubMed

Main, C E; Yool, A; Holliday, N P; Popova, E E; Jones, D O B; Ruhl, H A

2017-01-15

Little is known about the fate of subsurface hydrocarbon plumes from deep-sea oil well blowouts and their effects on processes and communities. As deepwater drilling expands in the Faroe-Shetland Channel (FSC), oil well blowouts are a possibility, and the unusual ocean circulation of this region presents challenges to understanding possible subsurface oil pathways in the event of a spill. Here, an ocean general circulation model was used with a particle tracking algorithm to assess temporal variability of the oil-plume distribution from a deep-sea oil well blowout in the FSC. The drift of particles was first tracked for one year following release. Then, ambient model temperatures were used to simulate temperature-mediated biodegradation, truncating the trajectories of particles accordingly. Release depth of the modeled subsurface plumes affected both their direction of transport and distance travelled from their release location, and there was considerable interannual variability in transport. Copyright © 2016 The Authors. Published by Elsevier Ltd.. All rights reserved.

Surface assessment of CaF2 deep-ultraviolet and vacuum-ultraviolet optical components by the quasi-Brewster angle technique.

PubMed

Wang, Jue; Maier, Robert L

2006-08-01

The requirements for optical components have drastically increased for the deep-ultraviolet and vacuum-ultraviolet spectral regions. Low optical loss, high laser damage threshold, and long lifetime fluoride optics are required for microlithographic applications. A nondestructive quasi-Brewster angle technique (qBAT) has been developed for evaluating the quality of optical surfaces including both top surface and subsurface information. By using effective medium approximation, the negative quasi-Brewster angle shift at wavelengths longer than 200 nm has been used to model the distribution of subsurface damage, whereas the positive quasi-Brewster angle shift for wavelengths shorter than 200 nm has been explained by subsurface contamination. The top surface roughness depicted by the qBAT is consistent with atomic force microscopy measurements. The depth and the microporous structure of the subsurface damage measured by the qBAT has been confirmed by magnetorheological finishing. The technique has been extended to evaluate both polished and antireflection-coated CaF(2) components.

Variability in aerobic methane oxidation over the past 1.2 Myrs recorded in microbial biomarker signatures from Congo fan sediments

NASA Astrophysics Data System (ADS)

Talbot, Helen M.; Handley, Luke; Spencer-Jones, Charlotte L.; Dinga, Bienvenu Jean; Schefuß, Enno; Mann, Paul J.; Poulsen, John R.; Spencer, Robert G. M.; Wabakanghanzi, Jose N.; Wagner, Thomas

2014-05-01

Methane (CH4) is a strong greenhouse gas known to have perturbed global climate in the past, especially when released in large quantities over short time periods from continental or marine sources. It is therefore crucial to understand and, if possible, quantify the individual and combined response of these variable methane sources to natural climate variability. However, past changes in the stability of greenhouse gas reservoirs remain uncertain and poorly constrained by geological evidence. Here, we present a record from the Congo fan of a highly specific bacteriohopanepolyol (BHP) biomarker for aerobic methane oxidation (AMO), 35-aminobacteriohopane-30,31,32,33,34-pentol (aminopentol), that identifies discrete periods of increased AMO as far back as 1.2 Ma. Fluctuations in the concentration of aminopentol, and other 35-aminoBHPs, follow a pattern that correlates with late Quaternary glacial-interglacial climate cycles, with highest concentrations during warm periods. We discuss possible sources of aminopentol, and the methane consumed by the precursor methanotrophs, within the context of the Congo River setting, including supply of methane oxidation markers from terrestrial watersheds and/or marine sources (gas hydrate and/or deep subsurface gas reservoir). Compound-specific carbon isotope values of -30‰ to -40‰ for BHPs in ODP 1075 and strong similarities between the BHP signature of the core and surface sediments from the Congo estuary and floodplain wetlands from the interior of the Congo River Basin, support a methanotrophic and likely terrigenous origin of the 35-aminoBHPs found in the fan sediments. This new evidence supports a causal connection between marine sediment BHP records of tropical deep sea fans and wetland settings in the feeding river catchments, and thus tropical continental hydrology. Further research is needed to better constrain the different sources and pathways of methane emission. However, this study identifies the large potential of aminoBHPs, in particular aminopentol, to trace and, once better calibrated and understood, quantify past methane sources and fluxes from terrestrial and potentially also marine sources.

Bacterial Growth, Necromass Turnover, And Endospore Abundance In The Deep Subseafloor Sediments Of The Greenland Shelf Using D:L Amino Acid Model.

NASA Astrophysics Data System (ADS)

Mhatre, S. S.; Braun, S.; Jaussi, M.; Røy, H.; Jørgensen, B. B.; Lomstein, B. A.

2015-12-01

The subsurface realm is colonized by a large number of microorganisms- about 3 × 1029. Microbial cells in these very stable and oligotrophic settings catabolize at a much slower rate than model organisms in nutrient rich cultures. The aim of this work was to use recently developed D:L-amino acid racemization model for studying the turnover times of microbial biomass and microbial necromass in a ~12,000 years old Greenland shelf marine sediment samples. Sediments were analyzed for total hydrolysable amino acids (THAA), the bacterial endospore marker dipicolinic acid (DPA), and amino acid enantiomers of aspartic acid. The percentage amino acid carbon content (%TAAC) and the percentage amino acid nitrogen content (%TAAN) were used for determining the degradation state of the organic matter. Endospores quantified using DPA quantification method were found to be as abundant as vegetative cells. The microbial necromass turnover times were thousand years, and biomass turnover times were in the range of tens to hundred years. Studies with deeper sediment cores will further improve our understanding of the energetic limits of life in the deep biosphere.

Data on subsurface storage of liquid waste near Pensacola, Florida, 1963-1980

USGS Publications Warehouse

Hull, R.W.; Martin, J.B.

1982-01-01

Since 1963, when industrial waste was first injected into the subsurface in northwest Florida, considerable data have been collected relating to the geochemistry of subsurface waste storage. This report presents hydrogeologic data on two subsurface waste storage. This report presents hydrogeologic data on two subsurface storage systems near Pensacola, Fla., which inject liquid industrial waste through deep wells into a saline aquifer. Injection sites are described giving a history of well construction, injection, and testing; geologic data from cores and grab samples; hydrographs of injection rates, volume, pressure, and water levels; and chemical and physical data from water-quality samples collected from injection and monitor wells. (USGS)

Estimation of subsurface thermal structure using sea surface height and sea surface temperature

NASA Technical Reports Server (NTRS)

Kang, Yong Q. (Inventor); Jo, Young-Heon (Inventor); Yan, Xiao-Hai (Inventor)

2012-01-01

A method of determining a subsurface temperature in a body of water is disclosed. The method includes obtaining surface temperature anomaly data and surface height anomaly data of the body of water for a region of interest, and also obtaining subsurface temperature anomaly data for the region of interest at a plurality of depths. The method further includes regressing the obtained surface temperature anomaly data and surface height anomaly data for the region of interest with the obtained subsurface temperature anomaly data for the plurality of depths to generate regression coefficients, estimating a subsurface temperature at one or more other depths for the region of interest based on the generated regression coefficients and outputting the estimated subsurface temperature at the one or more other depths. Using the estimated subsurface temperature, signal propagation times and trajectories of marine life in the body of water are determined.

SUBSURFACE PROPERTY RIGHTS: IMPLICATIONS FOR GEOLOGIC CO2 STORAGE

EPA Science Inventory

The paper discusses subsurface property rights as they apply to geologic sequestration (GS) of carbon dioxide (CO2). GS projects inject captured CO2 into deep (greater than ~1 km) geologic formations for the explicit purpose of avoiding atmospheric emission of CO2. Because of the...

SUBSURFACE PROPERTY RIGHTS: IMPLICATIONS FOR GEOLOGIC CO2 SEQUESTRATION

EPA Science Inventory

The chapter discusses subsurface property rights as they apply to geologic sequestration (GS) of carbon dioxide (CO2). GS projects inject captured CO2 into deep (greater than ~1 km) geologic formations for the explicit purpose of avoiding atmospheric emission of CO2. Because of t...

Heat Stress Dictates Microbial Lipid Composition along a Thermal Gradient in Marine Sediments

PubMed Central

Sollich, Miriam; Yoshinaga, Marcos Y.; Häusler, Stefan; Price, Roy E.; Hinrichs, Kai-Uwe; Bühring, Solveig I.

2017-01-01

Temperature exerts a first-order control on microbial populations, which constantly adjust the fluidity and permeability of their cell membrane lipids to minimize loss of energy by ion diffusion across the membrane. Analytical advances in liquid chromatography coupled to mass spectrometry have allowed the detection of a stunning diversity of bacterial and archaeal lipids in extreme environments such as hot springs, hydrothermal vents and deep subsurface marine sediments. Here, we investigated a thermal gradient from 18 to 101°C across a marine sediment field and tested the hypothesis that cell membrane lipids provide a major biochemical basis for the bioenergetics of archaea and bacteria under heat stress. This paper features a detailed lipidomics approach with the focus on membrane lipid structure-function. Membrane lipids analyzed here include polar lipids of bacteria and polar and core lipids of archaea. Reflecting the low permeability of their ether-linked isoprenoids, we found that archaeal polar lipids generally dominate over bacterial lipids in deep layers of the sediments influenced by hydrothermal fluids. A close examination of archaeal and bacterial lipids revealed a membrane quandary: not only low permeability, but also increased fluidity of membranes are required as a unified property of microbial membranes for energy conservation under heat stress. For instance, bacterial fatty acids were composed of longer chain lengths in concert with higher degree of unsaturation while archaea modified their tetraethers by incorporation of additional methyl groups at elevated sediment temperatures. It is possible that these configurations toward a more fluidized membrane at elevated temperatures are counterbalanced by the high abundance of archaeal glycolipids and bacterial sphingolipids, which could reduce membrane permeability through strong intermolecular hydrogen bonding. Our results provide a new angle for interpreting membrane lipid structure-function enabling archaea and bacteria to survive and grow in hydrothermal systems. PMID:28878741

Potential for Nitrogen Fixation and Nitrification in the Granite-Hosted Subsurface at Henderson Mine, CO

PubMed Central

Swanner, Elizabeth D.; Templeton, Alexis S.

2011-01-01

The existence of life in the deep terrestrial subsurface is established, yet few studies have investigated the origin of nitrogen that supports deep life. Previously, 16S rRNA gene surveys cataloged a diverse microbial community in subsurface fluids draining from boreholes 3000 feet deep at Henderson Mine, CO, USA (Sahl et al., 2008). The prior characterization of the fluid chemistry and microbial community forms the basis for the further investigation here of the source of NH4+. The reported fluid chemistry included N2, NH4+ (5–112 μM), NO2− (27–48 μM), and NO3− (17–72 μM). In this study, the correlation between low NH4+ concentrations in dominantly meteoric fluids and higher NH4+ in rock-reacted fluids is used to hypothesize that NH4+ is sourced from NH4+-bearing biotite. However, biotite samples from the host rocks and ore-body minerals were analyzed by Fourier transform infrared (FTIR) microscopy and none-contained NH4+. However, the nitrogenase-encoding gene nifH was successfully amplified from DNA of the fluid sample with high NH4+, suggesting that subsurface microbes have the capability to fix N2. If so, unregulated nitrogen fixation may account for the relatively high NH4+ concentrations in the fluids. Additionally, the amoA and nxrB genes for archaeal ammonium monooxygenase and nitrite oxidoreductase, respectively, were amplified from the high NH4+ fluid DNA, while bacterial amoA genes were not. Putative nitrifying organisms are closely related to ammonium-oxidizing Crenarchaeota and nitrite-oxidizing Nitrospira detected in other subsurface sites based upon 16S rRNA sequence analysis. Thermodynamic calculations underscore the importance of NH4+ as an energy source in a subsurface nitrification pathway. These results suggest that the subsurface microbial community at Henderson is adapted to the low nutrient and energy environment by their capability of fixing nitrogen, and that fixed nitrogen may support subsurface biomass via nitrification. PMID:22190904

Results from Field Testing the RIMFAX GPR on Svalbard.

NASA Astrophysics Data System (ADS)

Hamran, S. E.; Amundsen, H. E. F.; Berger, T.; Carter, L. M.; Dypvik, H.; Ghent, R. R.; Kohler, J.; Mellon, M. T.; Nunes, D. C.; Paige, D. A.; Plettemeier, D.; Russell, P.

2017-12-01

The Radar Imager for Mars' Subsurface Experiment - RIMFAX is a Ground Penetrating Radar being developed for NASÁs MARS 2020 rover mission. The principal goals of the RIMFAX investigation are to image subsurface structures, provide context for sample sites, derive information regarding subsurface composition, and search for ice or brines. In meeting these goals, RIMFAX will provide a view of the stratigraphic section and a window into the geological and environmental history of Mars. To verify the design an Engineering Model (EM) of the radar was tested in the field in the spring 2017. Different sounding modes on the EM were tested in different types of subsurface geology on Svalbard. Deep soundings were performed on polythermal glaciers down to a couple of hundred meters. Shallow soundings were used to map a ground water table in the firn area of a glacier. A combination of deep and shallow soundings was used to image buried ice under a sedimentary layer of a couple of meters. Subsurface sedimentary layers were imaged down to more than 20 meters in sand stone permafrost. This presentation will give an overview of the RIMFAX investigation, describe the development of the radar system, and show results from field tests of the radar.

From Offshore to Onshore: Multiple Origins of Shallow-Water Corals from Deep-Sea Ancestors

PubMed Central

Lindner, Alberto; Cairns, Stephen D.; Cunningham, Clifford W.

2008-01-01

Shallow-water tropical reefs and the deep sea represent the two most diverse marine environments. Understanding the origin and diversification of this biodiversity is a major quest in ecology and evolution. The most prominent and well-supported explanation, articulated since the first explorations of the deep sea, holds that benthic marine fauna originated in shallow, onshore environments, and diversified into deeper waters. In contrast, evidence that groups of marine organisms originated in the deep sea is limited, and the possibility that deep-water taxa have contributed to the formation of shallow-water communities remains untested with phylogenetic methods. Here we show that stylasterid corals (Cnidaria: Hydrozoa: Stylasteridae)—the second most diverse group of hard corals—originated and diversified extensively in the deep sea, and subsequently invaded shallow waters. Our phylogenetic results show that deep-water stylasterid corals have invaded the shallow-water tropics three times, with one additional invasion of the shallow-water temperate zone. Our results also show that anti-predatory innovations arose in the deep sea, but were not involved in the shallow-water invasions. These findings are the first robust evidence that an important group of tropical shallow-water marine animals evolved from deep-water ancestors. PMID:18560569

Drip irrigation research update at NPRL

USDA-ARS?s Scientific Manuscript database

Drip irrigation research has been conducted since 1998 at NPRL. Systems include deep subsurface drip irrigation (SSDI), surface drip irrigation (SDI), and shallow subsurface drip irrigation (S3DI). Results have shown that SDI and S3DI are more economical to install than SSDI. SDI systems have more r...

SUBSURFACE PROPERTY RIGHTS: IMPLICATIONS FOR GEOLOGIC CO2 SEQUESTRATION (PRESENTATION)

EPA Science Inventory

The paper discusses subsurface property rights as they apply to geologic sequestration (GS) of carbon dioxide (CO2). GS projects inject captured CO2 into deep (greater than ~1 km) geologic formations for the explicit purpose of avoiding atmospheric emission of CO2. Because of the...

Long-Duration Orbit Exposure Experiment with Sub-Surface Microorganism from a Mars Terrestrial Analog

NASA Astrophysics Data System (ADS)

Davila, A. F.; Lim, D.; Fairen, A. G.; Uceda, E. R.; Zavaleta, J.; McKay, C.

2007-07-01

Orbit Exposure Experiments (OEE) allow us to test the possibility of life transfer between planets and moons. Deep sub-surface microorganisms may be the best candidates to survive long-term exposure to space conditions. A long duration OEE is proposed to test our hypothesis.

Sedimentary architecture and depositional environment of Kudat Formation, Sabah, Malaysia

NASA Astrophysics Data System (ADS)

Ghaheri, Samira; Suhaili, Mohd; Sapari, Nasiman; Momeni, Mohammadsadegh

2017-12-01

Kudat Formation originated from deep marine environment. Three lithofacies association of deep marine turbidity channel was discovered in three Members of the Kudat Formation in Kudat Peninsula, Sabah, Malaysia. Turbidite and deep marine architecture elements was described based on detailed sedimentological studies. Four architecture elements were identified based on each facies association and their lithology properties and character: inner external levee that was formed by turbidity flows spill out from their confinement of channel belt; Lobes sheet that was formed during downslope debris flows associated with levee; Channel fill which sediments deposited from high to low density currents with different value of sediment concentration; and overbank terrace which was formed by rapid suspension sedimentation. The depositional environment of Kudat Formation is shelf to deep marine fan.

A passive low frequency instrument for radio wave sounding the subsurface oceans of the Jovian icy moons: An instrument concept

NASA Astrophysics Data System (ADS)

Hartogh, P.; Ilyushin, Ya. A.

2016-10-01

Exploration of subsurface oceans on Jovian icy moons is a key issue of the icy moons' geology. Electromagnetic wave propagation is the only way to probe their icy mantles from the orbit. In the present paper, a principal concept of a passive interferometric instrument for deep sounding of the icy moons' crust is proposed. Its working principle is measuring and correlating Jupiter's radio wave emissions with reflections from the deep sub-surface of the icy moons. A number of the functional aspects of the proposed experiment are studied, in particular, impact of the wave scattering on the surface terrain on the instrument performance and digital sampling of the noisy signal. Results of the test of the laboratory prototype of the instrument are also presented in the paper.

The deep space network, volume 13

NASA Technical Reports Server (NTRS)

1973-01-01

The objectives, functions, and organization of the Deep Space Network are summarized. The deep space instrumentation facility, the ground communications facility, and the network control system are described. Other areas reported include: Helios Mission support, DSN support of the Mariner Mars 1971 extended mission, Mariner Venus/Mercury 1973 mission support, Viking mission support, radio science, tracking and ground-based navigation, network control and data processing, and deep space stations.

Deep-sea genetic resources: New frontiers for science and stewardship in areas beyond national jurisdiction

NASA Astrophysics Data System (ADS)

Harden-Davies, Harriet

2017-03-01

The deep-sea is a large source of marine genetic resources (MGR), which have many potential uses and are a growing area of research. Much of the deep-sea lies in areas beyond national jurisdiction (ABNJ), including 65% of the global ocean. MGR in ABNJ occupy a significant gap in the international legal framework. Access and benefit sharing of MGR is a key issue in the development of a new international legally-binding instrument under the United Nations Convention on the Law of the Sea (UNCLOS) for the conservation and sustainable use of marine biological diversity in ABNJ. This paper examines how this is relevant to deep-sea scientific research and identifies emerging challenges and opportunities. There is no internationally agreed definition of MGR, however, deep-sea genetic resources could incorporate any biological material including genes, proteins and natural products. Deep-sea scientific research is the key actor accessing MGR in ABNJ and sharing benefits such as data, samples and knowledge. UNCLOS provides the international legal framework for marine scientific research, international science cooperation, capacity building and marine technology transfer. Enhanced implementation could support access and benefit sharing of MGR in ABNJ. Deep-sea scientific researchers could play an important role in informing practical new governance solutions for access and benefit sharing of MGR that promote scientific research in ABNJ and support deep-sea stewardship. Advancing knowledge of deep-sea biodiversity in ABNJ, enhancing open-access to data and samples, standardisation and international marine science cooperation are significant potential opportunity areas.

Molecular Phylogenetic Analysis of Archaeal Intron-Containing Genes Coding for rRNA Obtained from a Deep-Subsurface Geothermal Water Pool

PubMed Central

Takai, Ken; Horikoshi, Koki

1999-01-01

Molecular phylogenetic analysis of a naturally occurring microbial community in a deep-subsurface geothermal environment indicated that the phylogenetic diversity of the microbial population in the environment was extremely limited and that only hyperthermophilic archaeal members closely related to Pyrobaculum were present. All archaeal ribosomal DNA sequences contained intron-like sequences, some of which had open reading frames with repeated homing-endonuclease motifs. The sequence similarity analysis and the phylogenetic analysis of these homing endonucleases suggested the possible phylogenetic relationship among archaeal rRNA-encoded homing endonucleases. PMID:10584021

The Integration of GPR, GIS, and GPS for 3D Soil Morphologic Models

NASA Astrophysics Data System (ADS)

Tischler, M.; Collins, M. E.

2005-05-01

Ground-Penetrating Radar (GPR) has become a useful and efficient instrument for gathering information about subsurface diagnostic horizons in Florida soils. Geographic Information Systems (GIS) are a popular and valuable tool for spatial data analysis of real world features in a digital environment. Ground-Penetrating Radar can be linked to GIS by using Global Positioning Systems (GPS). By combining GPR, GPS, and GIS technologies, a more detailed geophysical survey can be completed for an area of interest by integratinghydrologic, pedologic, and geologic data. Thus, the objectives of this research were to identify subsurface soil layers using GPR and their geographic position with a highly accurate GPS; to develop a procedure to import GPR data into a popular software package, such as ArcGIS, and; to create 3D subsurface models based on the imported GPR data. The site for this study was the Plant Science Research and Education Center in Marion County, Florida. The soils are characterized by Recent-Pleistocene-age sand over the clayey, marine deposited Plio-Miocene-age Hawthorn Formation which drapes the Eocene-age Ocala Limestone. Consequently, soils in the research area vary from deep quartz sands (Typic Quartzipsamments) to shallow outcrops of the Hawthorn Formation (Arenic Hapludalfs). A GPR survey was performed on a 160 m x 320 m grid to gather data for processing. Four subsurface models estimating the depth to argillic horizon were created using a variety of specialized GPR data filters and geostatistical data analyses. The models were compared with ground-truth points that measured the depth to argillic horizon to validate each model and calculate error metrics. These models may assist research station personnel to determine best management practices (including experimental plot placement, irrigation management, fertilizer treatment, and pesticide applications). In addition, the developed methodology exploits the potential of combining GPR and GIS.

The microbiology of deep-sea hydrothermal vent plumes: ecological and biogeographic linkages to seafloor and water column habitats.

PubMed

Dick, Gregory J; Anantharaman, Karthik; Baker, Brett J; Li, Meng; Reed, Daniel C; Sheik, Cody S

2013-01-01

Hydrothermal plumes are an important yet understudied component of deep-sea vent microbial ecosystems. The significance of plume microbial processes can be appreciated from three perspectives: (1) mediation of plume biogeochemistry, (2) dispersal of seafloor hydrothermal vent microbes between vents sites, (3) as natural laboratories for understanding the ecology, physiology, and function of microbial groups that are distributed throughout the pelagic deep sea. Plume microbiology has been largely neglected in recent years, especially relative to the extensive research conducted on seafloor and subseafloor systems. Rapidly advancing technologies for investigating microbial communities provide new motivation and opportunities to characterize this important microbial habitat. Here we briefly highlight microbial contributions to plume and broader ocean (bio)geochemistry and review recent work to illustrate the ecological and biogeographic linkages between plumes, seafloor vent habitats, and other marine habitats such as oxygen minimum zones (OMZs), cold seeps, and oil spills. 16S rRNA gene surveys and metagenomic/-transcriptomic data from plumes point to dominant microbial populations, genes, and functions that are also operative in OMZs (SUP05, ammonia-oxidizing Archaea, and SAR324 Deltaproteobacteria) and hydrocarbon-rich environments (methanotrophs). Plume microbial communities are distinct from those on the seafloor or in the subsurface but contain some signatures of these habitats, consistent with the notion that plumes are potential vectors for dispersal of microorganisms between seafloor vent sites. Finally, we put forward three pressing questions for the future of deep-sea hydrothermal plume research and consider interactions between vents and oceans on global scales.

The microbiology of deep-sea hydrothermal vent plumes: ecological and biogeographic linkages to seafloor and water column habitats

PubMed Central

Dick, Gregory J.; Anantharaman, Karthik; Baker, Brett J.; Li, Meng; Reed, Daniel C.; Sheik, Cody S.

2013-01-01

Hydrothermal plumes are an important yet understudied component of deep-sea vent microbial ecosystems. The significance of plume microbial processes can be appreciated from three perspectives: (1) mediation of plume biogeochemistry, (2) dispersal of seafloor hydrothermal vent microbes between vents sites, (3) as natural laboratories for understanding the ecology, physiology, and function of microbial groups that are distributed throughout the pelagic deep sea. Plume microbiology has been largely neglected in recent years, especially relative to the extensive research conducted on seafloor and subseafloor systems. Rapidly advancing technologies for investigating microbial communities provide new motivation and opportunities to characterize this important microbial habitat. Here we briefly highlight microbial contributions to plume and broader ocean (bio)geochemistry and review recent work to illustrate the ecological and biogeographic linkages between plumes, seafloor vent habitats, and other marine habitats such as oxygen minimum zones (OMZs), cold seeps, and oil spills. 16S rRNA gene surveys and metagenomic/-transcriptomic data from plumes point to dominant microbial populations, genes, and functions that are also operative in OMZs (SUP05, ammonia-oxidizing Archaea, and SAR324 Deltaproteobacteria) and hydrocarbon-rich environments (methanotrophs). Plume microbial communities are distinct from those on the seafloor or in the subsurface but contain some signatures of these habitats, consistent with the notion that plumes are potential vectors for dispersal of microorganisms between seafloor vent sites. Finally, we put forward three pressing questions for the future of deep-sea hydrothermal plume research and consider interactions between vents and oceans on global scales. PMID:23720658

Deep-water longline fishing has reduced impact on Vulnerable Marine Ecosystems

PubMed Central

Pham, Christopher K.; Diogo, Hugo; Menezes, Gui; Porteiro, Filipe; Braga-Henriques, Andreia; Vandeperre, Frederic; Morato, Telmo

2014-01-01

Bottom trawl fishing threatens deep-sea ecosystems, modifying the seafloor morphology and its physical properties, with dramatic consequences on benthic communities. Therefore, the future of deep-sea fishing relies on alternative techniques that maintain the health of deep-sea ecosystems and tolerate appropriate human uses of the marine environment. In this study, we demonstrate that deep-sea bottom longline fishing has little impact on vulnerable marine ecosystems, reducing bycatch of cold-water corals and limiting additional damage to benthic communities. We found that slow-growing vulnerable species are still common in areas subject to more than 20 years of longlining activity and estimate that one deep-sea bottom trawl will have a similar impact to 296–1,719 longlines, depending on the morphological complexity of the impacted species. Given the pronounced differences in the magnitude of disturbances coupled with its selectivity and low fuel consumption, we suggest that regulated deep-sea longlining can be an alternative to deep-sea bottom trawling. PMID:24776718

Research Performed at NETL on the Subsurface

DOE Office of Scientific and Technical Information (OSTI.GOV)

None

Deep below our feet, lies the unique and complex world of the subsurface. A world that is improving the lives of Americans and brimming with the potential to generate even greater benefits through NETL research. NETL research supports industry by improving resource extraction while also helping to make carbon storage safe and more effective.

Subsurface warming in the subpolar North Atlantic during rapid climate events in the Early and Mid-Pleistocene

NASA Astrophysics Data System (ADS)

Hernández-Almeida, Iván; Sierro, Francisco; Cacho, Isabel; Abel Flores, José

2014-05-01

A new high-resolution reconstruction of the temperature and salinity of the subsurface waters using paired Mg/Ca-δ18O measurements on the planktonic foraminifera Neogloboquadrina pachyderma sinistrorsa (sin.) was conducted on a deep-sea sediment core in the subpolar North Atlantic (Site U1314). This study aims to reconstruct millennial-scale subsurface hydrography variations during the Early and Mid-Pleistocene (MIS 31-19). These rapid climate events are characterized by abrupt shifts between warm/cold conditions, and ice-sheet oscillations, as evidenced by major ice rafting events recorded in the North Atlantic sediments (Hernández-Almeida et al., 2012), similar to those found during the Last Glacial period (Marcott et al, 2011). The Mg/Ca derived paleotemperature and salinity oscillations prior and during IRD discharges at Site U1314 are related to changes in intermediate circulation. The increases in Mg/Ca paleotemperatures and salinities during the IRD event are preceded by short episodes of cooling and freshening of subsurface waters. The response of the AMOC to this perturbation is an increased of warm and salty water coming from the south, transported to high latitudes in the North Atlantic beneath the thermocline. This process is accompanied by a southward shift in the convection cell from the Nordic Seas to the subpolar North Atlantic and better ventilation of the North Atlantic at mid-depths. Poleward transport of warm and salty subsurface subtropical waters causes intense basal melting and thinning of marine ice-shelves, that culminates in large-scale instability of the ice sheets, retreat of the grounding line and iceberg discharge. The mechanism proposed involves the coupling of the AMOC with ice-sheet dynamics, and would explain the presence of these fluctuations before the establishment of high-amplitude 100-kyr glacial cycles. Hernández-Almeida, I., Sierro, F.J., Cacho, I., Flores, J.A., 2012. Impact of suborbital climate changes in the North Atlantic on ice sheet dynamics at the Mid-Pleistocene Transition. Paleoceanography 27, PA3214. Marcott, S.A., Clark, P.U., Padman, L., Klinkhammer, G.P., Springer, S.R., Liu, Z., Otto-Bliesner, B.L., Carlson, A.E., Ungerer, A., Padman, J., He, F., Cheng, J., Schmittner, A., 2011. Ice-shelf collapse from subsurface warming as a trigger for Heinrich events. Proceedings of the National Academy of Sciences 108, 13415-13419

Microbiome composition and geochemical characteristics of deep subsurface high-pressure environment, Pyhäsalmi mine Finland

PubMed Central

Miettinen, Hanna; Kietäväinen, Riikka; Sohlberg, Elina; Numminen, Mikko; Ahonen, Lasse; Itävaara, Merja

2015-01-01

Pyhäsalmi mine in central Finland provides an excellent opportunity to study microbial and geochemical processes in a deep subsurface crystalline rock environment through near-vertical drill holes that reach to a depth of more than two kilometers below the surface. However, microbial sampling was challenging in this high-pressure environment. Nucleic acid yields obtained were extremely low when compared to the cell counts detected (1.4 × 104 cells mL−1) in water. The water for nucleic acid analysis went through high decompression (60–130 bar) during sampling, whereas water samples for detection of cell counts by microscopy could be collected with slow decompression. No clear cells could be identified in water that went through high decompression. The high-pressure decompression may have damaged part of the cells and the nucleic acids escaped through the filter. The microbial diversity was analyzed from two drill holes by pyrosequencing amplicons of the bacterial and archaeal 16S rRNA genes and from the fungal ITS regions from both DNA and RNA fractions. The identified prokaryotic diversity was low, dominated by Firmicute, Beta- and Gammaproteobacteria species that are common in deep subsurface environments. The archaeal diversity consisted mainly of Methanobacteriales. Ascomycota dominated the fungal diversity and fungi were discovered to be active and to produce ribosomes in the deep oligotrophic biosphere. The deep fluids from the Pyhäsalmi mine shared several features with other deep Precambrian continental subsurface environments including saline, Ca-dominated water and stable isotope compositions positioning left from the meteoric water line. The dissolved gas phase was dominated by nitrogen but the gas composition clearly differed from that of atmospheric air. Despite carbon-poor conditions indicated by the lack of carbon-rich fracture fillings and only minor amounts of dissolved carbon detected in formation waters, some methane was found in the drill holes. No dramatic differences in gas compositions were observed between different gas sampling methods tested. For simple characterization of gas composition the most convenient way to collect samples is from free flowing fluid. However, compared to a pressurized method a relative decrease in the least soluble gases may appear. PMID:26579109

Sulfur and iron cycling in deep-subsurface, coal bed-containing sediments off Shimokita (Japan)

NASA Astrophysics Data System (ADS)

Riedinger, N.; Smirnoff, M. N.; Gilhooly, W.; Phillips, S. C.; Lyons, T. W.; 337 Scientific Party, I.

2013-12-01

The main goal of IODP Expedition 337 was the identification and characterization of the deep coal bed biosphere and hydrocarbon system off the Shimokita Peninsula (Japan) in the northwestern Pacific using the D/V Chikyu. To accomplish this scientific objective, it was also necessary to investigate the inorganic biogeochemistry in order to identify possible electron acceptors and bio-essential nutrients. These biogeochemical parameters greatly influence both, the composition and abundance of microbial communities as well as the organic carbon cycle. In turn, the microbially mediated carbon cycle influences the diagenetic reactions in the subsurface, thus, altering geochemical and physical characteristics of the material. Here we present results from metal and sulfur geochemical analyses from the deep-subsurface sediments (about 1250 to 2466 mbsf) at Site C0020 off Shimokita. The measured concentrations of acid volatile sulfur (AVS) as well as chromium reducible sulfur (CRS) reflect the alteration of iron oxides to iron sulfides and indicate that the main sulfur-bearing phase in the investigated sediments is pyrite. Concentrations of intermediate sulfur species are minor and occur mainly in the coal-bearing interval. Our data show that the uppermost sediments contain higher amounts of pyrite (up to 1.2 wt.%) with an average of 0.5 wt.% compared to the deeper deposits (below about 1800 mbsf), which show an average of 0.16 wt.%. In contrast, iron oxide concentrations are highest in the deeper sediment sections (up to 0.4%), where pyrite concentrations are low. The alteration of iron oxides to sulfides in theses lower section was probably governed by the amount of available sulfide in the pore water. The occurrence of (bio-)reactive iron phases in these deeply buried sediments has implications for the deep biosphere as those minerals have the potential to serve as electron acceptors during burial, including reactions involving deep sourced electron donors, such as hydrogen and methane - related to the coal bed as the potential source. Thus, the deep subsurface coal beds off Shimokita provide an ideal environment to investigate microbial and metal interactions under extreme conditions.

Microbial Ecosystems from the Deepest Regions of the Terrestrial Deep Biosphere

NASA Astrophysics Data System (ADS)

Moser, D. P.

2011-12-01

Although recent discoveries from four continents support the existence of microbial ecosystems across vast regions of our planet's inner space, very little is known about the abundance, distribution, diversity, or ultimate depth limit of subsurface microbial life. These deep lithospheric inhabitants must contend with a variety of potential challenges including high temperature, pressure and salinity, extreme isolation, and low energy flux. Interestingly, although deep microbial ecosystems are assumed to be energy and nutrient limited, it is often difficult to identify any one limiting substrate and the energy for deep life is often present in relative abundance (e.g. as geologically-produced hydrogen or other reduced gases). Recently, the concept of radiation-supported deep microbial ecosystems has gained traction in the literature. In particular, one bacterium, a Firmicute denoted Candidatus Desulforudis audaxviator, has been shown to be prominent, and in cases dominate, in deep fracture fluids from across the Witwatersrand basin of South Africa, where it appears to persist by utilizing H2 and SO42- derived from radiochemical reactions in U-rich host rock. Until recently, these mines were thought to define the geographic limit of this genus and species; however, our recent North American detection of D. audaxviator in radioactive subsurface water resulting from underground nuclear tests both supports earlier assertions concerning the radiochemical lifestyle of D. audaxviator and greatly expands its range. Results such as these suggest that novel modes of life operating without inputs from the photosphere are possible, and thus may have implications for the likelihood of detecting life off the Earth (e.g. in the Martian subsurface). In addition to underground nuclear detonation cavities, this talk will consider insights gained from ongoing microbial ecology assessments from several to date unexplored deep ecosystems accessed via deep mines in the Black Hills (USA) and Canadian Shield (Canada) and exploratory boreholes in the Southern Great Basin (USA). The tantalizing possibility that several of these new potential habitats have exceeded some limit for life will be also be explored.

Microbial redox processes in deep subsurface environments and the potential application of (per)chlorate in oil reservoirs

PubMed Central

Liebensteiner, Martin G.; Tsesmetzis, Nicolas; Stams, Alfons J. M.; Lomans, Bartholomeus P.

2014-01-01

The ability of microorganisms to thrive under oxygen-free conditions in subsurface environments relies on the enzymatic reduction of oxidized elements, such as sulfate, ferric iron, or CO2, coupled to the oxidation of inorganic or organic compounds. A broad phylogenetic and functional diversity of microorganisms from subsurface environments has been described using isolation-based and advanced molecular ecological techniques. The physiological groups reviewed here comprise iron-, manganese-, and nitrate-reducing microorganisms. In the context of recent findings also the potential of chlorate and perchlorate [jointly termed (per)chlorate] reduction in oil reservoirs will be discussed. Special attention is given to elevated temperatures that are predominant in the deep subsurface. Microbial reduction of (per)chlorate is a thermodynamically favorable redox process, also at high temperature. However, knowledge about (per)chlorate reduction at elevated temperatures is still scarce and restricted to members of the Firmicutes and the archaeon Archaeoglobus fulgidus. By analyzing the diversity and phylogenetic distribution of functional genes in (meta)genome databases and combining this knowledge with extrapolations to earlier-made physiological observations we speculate on the potential of (per)chlorate reduction in the subsurface and more precisely oil fields. In addition, the application of (per)chlorate for bioremediation, souring control, and microbial enhanced oil recovery are addressed. PMID:25225493

Microbial potential for carbon and nutrient cycling in a geogenic supercritical carbon dioxide reservoir: Microbial life in the deep carbonated biosphere

DOE Office of Scientific and Technical Information (OSTI.GOV)

Freedman, Adam J. E.; Tan, BoonFei; Thompson, Janelle R.

Microorganisms catalyze carbon cycling and biogeochemical reactions in the deep subsurface and thus may be expected to influence the fate of injected super-critical (sc) CO 2 following geological carbon sequestration (GCS). We hypothesized that natural subsurface scCO 2 reservoirs, which serve as analogs for the long-term fate of sequestered scCO 2 harbor a ‘deep carbonated biosphere’ with carbon cycling potential. We sampled subsurface fluids from scCO 2- water separators at a natural scCO 2 reservoir at McElmo Dome, Colorado for analysis of 16S rRNA gene diversity and metagenome content. Sequence annotations indicated dominance of Sulfurospirillum, Rhizobium, Desulfovibrio and four membersmore » of the Clostridiales family. Genomes extracted from metagenomes using homology and compositional approaches revealed diverse mechanisms for growth and nutrient cycling, including pathways for CO 2 and N 2 fixation, anaerobic respiration, sulfur oxidation, fermentation and potential for metabolic syntrophy. Differences in biogeochemical potential between two production well communities were consistent with differences in fluid chemical profiles, suggesting a potential link between microbial activity and geochemistry. In conclusion, the existence of a microbial ecosystem associated with the McElmo Dome scCO 2 reservoir indicates that potential impacts of the deep biosphere on CO 2 fate and transport should be taken into consideration as a component of GCS planning and modelling.« less

Microbial potential for carbon and nutrient cycling in a geogenic supercritical carbon dioxide reservoir: Microbial life in the deep carbonated biosphere

DOE PAGES

Freedman, Adam J. E.; Tan, BoonFei; Thompson, Janelle R.

2017-05-02

Microorganisms catalyze carbon cycling and biogeochemical reactions in the deep subsurface and thus may be expected to influence the fate of injected super-critical (sc) CO 2 following geological carbon sequestration (GCS). We hypothesized that natural subsurface scCO 2 reservoirs, which serve as analogs for the long-term fate of sequestered scCO 2 harbor a ‘deep carbonated biosphere’ with carbon cycling potential. We sampled subsurface fluids from scCO 2- water separators at a natural scCO 2 reservoir at McElmo Dome, Colorado for analysis of 16S rRNA gene diversity and metagenome content. Sequence annotations indicated dominance of Sulfurospirillum, Rhizobium, Desulfovibrio and four membersmore » of the Clostridiales family. Genomes extracted from metagenomes using homology and compositional approaches revealed diverse mechanisms for growth and nutrient cycling, including pathways for CO 2 and N 2 fixation, anaerobic respiration, sulfur oxidation, fermentation and potential for metabolic syntrophy. Differences in biogeochemical potential between two production well communities were consistent with differences in fluid chemical profiles, suggesting a potential link between microbial activity and geochemistry. In conclusion, the existence of a microbial ecosystem associated with the McElmo Dome scCO 2 reservoir indicates that potential impacts of the deep biosphere on CO 2 fate and transport should be taken into consideration as a component of GCS planning and modelling.« less

Microbial metabolisms in a 2.5-km-deep ecosystem created by hydraulic fracturing in shales.

PubMed

Daly, Rebecca A; Borton, Mikayla A; Wilkins, Michael J; Hoyt, David W; Kountz, Duncan J; Wolfe, Richard A; Welch, Susan A; Marcus, Daniel N; Trexler, Ryan V; MacRae, Jean D; Krzycki, Joseph A; Cole, David R; Mouser, Paula J; Wrighton, Kelly C

2016-09-05

Hydraulic fracturing is the industry standard for extracting hydrocarbons from shale formations. Attention has been paid to the economic benefits and environmental impacts of this process, yet the biogeochemical changes induced in the deep subsurface are poorly understood. Recent single-gene investigations revealed that halotolerant microbial communities were enriched after hydraulic fracturing. Here, the reconstruction of 31 unique genomes coupled to metabolite data from the Marcellus and Utica shales revealed that many of the persisting organisms play roles in methylamine cycling, ultimately supporting methanogenesis in the deep biosphere. Fermentation of injected chemical additives also sustains long-term microbial persistence, while thiosulfate reduction could produce sulfide, contributing to reservoir souring and infrastructure corrosion. Extensive links between viruses and microbial hosts demonstrate active viral predation, which may contribute to the release of labile cellular constituents into the extracellular environment. Our analyses show that hydraulic fracturing provides the organismal and chemical inputs for colonization and persistence in the deep terrestrial subsurface.

Microbial metabolisms in a 2.5-km-deep ecosystem created by hydraulic fracturing in shales

DOE Office of Scientific and Technical Information (OSTI.GOV)

Daly, Rebecca A.; Borton, Mikayla A.; Wilkins, Michael J.

Hydraulic fracturing is the industry standard for extracting hydrocarbons from shale formations. Attention has been paid to the economic benefits and environmental impacts of this process, yet the biogeochemical changes induced in the deep subsurface are poorly understood. Recent single-gene investigations revealed that halotolerant microbial communities were enriched after hydraulic fracturing. Here the reconstruction of 31 unique genomes coupled to metabolite data from the Marcellus and Utica shales revealed that methylamine cycling supports methanogenesis in the deep biosphere. Fermentation of injected chemical additives also sustains long-term microbial persistence, while sulfide generation from thiosulfate represents a poorly recognized corrosion mechanism inmore » shales. Extensive links between viruses and microbial hosts demonstrate active viral predation, which may contribute to the release of labile cellular constituents into the extracellular environment. Our analyses show that hydraulic fracturing provides the organismal and chemical inputs for colonization and persistence in the deep terrestrial subsurface.« less

Effect of subalpine canopy removal on snowpack, soil solution, and nutrient export, Fraser Experimental Forest, CO

USGS Publications Warehouse

Stottlemyer, R.; Troendle, C.A.

1999-01-01

Research on the effects of vegetation manipulation on snowpack, soil water, and streamwater chemistry and flux has been underway at the Fraser Experimental Forest (FEF), CO, since 1982. Greater than 95% of FEF snowmelt passes through watersheds as subsurface flow where soil processes significantly alter meltwater chemistry. To better understand the mechanisms accounting for annual variation in watershed streamwater ion concentration and flux with snowmelt, we studied subsurface water flow, its ion concentration, and flux in conterminous forested and clear cut plots. Repetitive patterns in subsurface flow and chemistry were apparent. Control plot subsurface flow chemistry had the highest ion concentrations in late winter and fall. When shallow subsurface flow occurred, its Ca2+, SO42-, and HCO3- concentrations were lower and K+ higher than deep flow. The percentage of Ca2+, NO3-, SO42-, and HCO3- flux in shallow depths was less and K+ slightly greater than the percentage of total flow. Canopy removal increased precipitation reaching the forest floor by about 40%, increased peak snowpack water equivalent (SWE) > 35%, increased the average snowpack Ca2+, NO3-, and NH4+ content, reduced the snowpack K+ content, and increased the runoff four-fold. Clear cutting doubled the percentage of subsurface flow at shallow depths, and increased K+ concentration in shallow subsurface flow and NO3- concentrations in both shallow and deep flow. The percentage change in total Ca2+, SO42-, and HCO3- flux in shallow depths was less than the change in water flux, while that of K+ and NO3- flux was greater. Relative to the control, in the clear cut the percentage of total Ca2+ flux at shallow depths increased from 5 to 12%, SO42- 5.4 to 12%, HCO3- from 5.6 to 8.7%, K+ from 6 to 35%, and NO3- from 2.7 to 17%. The increases in Ca2+ and SO42- flux were proportional to the increase in water flux, the flux of HCO3- increased proportionally less than water flux, and NO3- and K+ were proportionally greater than water flux. Increased subsurface flow accounted for most of the increase in non-limiting nutrient loss. For limiting nutrients, loss of plant uptake and increased shallow subsurface flow accounted for the greater loss. Seasonal ion concentration patterns in streamwater and subsurface flow were similar.Research on the effects of vegetation manipulation on snowpack, soil water, and streamwater chemistry and flux has been underway at the Fraser Experimental Forest (FEF), CO, since 1982. Greater than 95% of FEF snowmelt passes through watersheds as subsurface flow where soil processes significantly alter meltwater chemistry. To better understand the mechanisms accounting for annual variation in watershed streamwater ion concentration and flux with snowmelt, we studied subsurface water flow, its ion concentration, and flux in conterminous forested and clear cut plots. Repetitive patterns in subsurface flow and chemistry were apparent. Control plot subsurface flow chemistry had the highest ion concentrations in late winter and fall. When shallow subsurface flow occurred, its Ca2+, SO42-, and HCO3- concentrations were lower and K+ higher than deep flow. The percentage of Ca2+, NO3-, SO42-, and HCO3- flux in shallow depths was less and K+ slightly greater than the percentage of total flow. Canopy removal increased precipitation reaching the forest floor by about 40%, increased peak snowpack water equivalent (SWE) > 35%, increased the average snowpack Ca2+, NO3-, and NH4+ content, reduced the snowpack K+ content, and increased the runoff four-fold. Clear cutting doubled the percentage of subsurface flow at shallow depths, and increased K+ concentration in shallow subsurface flow and NO3- concentrations in both shallow and deep flow. The percentage change in total Ca2+, SO42-, and HCO3- flux in shallow depths was less than the change in water flux, while that of K+ and NO3- flux was greater. Relative to the control, in the clear cut the percentage of total Ca

Thermal Impact of Medium Deep Borehole Thermal Energy Storage on the Shallow Subsurface

NASA Astrophysics Data System (ADS)

Welsch, Bastian; Schulte, Daniel O.; Rühaak, Wolfram; Bär, Kristian; Sass, Ingo

2017-04-01

Borehole heat exchanger arrays are a well-suited and already widely applied method for exploiting the shallow subsurface as seasonal heat storage. However, in most of the populated regions the shallow subsurface also comprises an important aquifer system used for drinking water production. Thus, the operation of shallow geothermal heat storage systems leads to a significant increase in groundwater temperatures in the proximity of the borehole heat exchanger array. The magnitude of the impact on groundwater quality and microbiology associated with this temperature rise is controversially discussed. Nevertheless, the protection of shallow groundwater resources has priority. Accordingly, water authorities often follow restrictive permission policies for building such storage systems. An alternative approach to avoid this issue is the application of medium deep borehole heat exchanger arrays instead of shallow ones. The thermal impact on shallow aquifers can be significantly reduced as heat is stored at larger depth. Moreover, it can be further diminished by the installation of a thermally insulating materials in the upper section of the borehole heat exchangers. Based on a numerical simulation study, the advantageous effects of medium deep borehole thermal energy storage are demonstrated and quantified. A finite element software is used to model the heat transport in the subsurface in 3D, while the heat transport in the borehole heat exchangers is solved analytically in 1D. For this purpose, an extended analytical solution is implemented, which also allows for the consideration of a thermally insulating borehole section.

Survival in the hot subsurface: Hydrogen stress on hyperthermophilic heterotrophs and methanogens

NASA Astrophysics Data System (ADS)

Topcuoglu, B. D.; Holden, J. F.

2017-12-01

Marine hyperthermophilic heterotrophs and methanogens belonging to the Thermococcales and Methanococcales are often found in hot subsurface environments such as hydrothermal vents, marine sediments, and oil reservoirs. This project aims to make fundamental advances in our understanding of interspecies microbe-microbe interactions in hot subsurface environments by integrating metabolic network modeling, transcriptomic analyses and continuous cultivation of hyperthermophiles and describe how heterotrophs and methanogens eliminate H2 stress. Some subsurface environments may lack alternative electron acceptors (e.g., S°) for the heterotroph and sufficient environmental flux rates to draw in fresh energy sources or remove excess metabolic products. We observed a decrease in growth rates for the H2-producer Thermococcus paralvinellae when grown with an aqueous H2 background of 65 µM relative to no added H2. Metabolite analysis showed increased formate production during H2 inhibition. Differential gene expression analyses coupled with metabolic network modeling showed that T. paralvinellae oxidized H2 and made formate by a formate hydrogenlyase to survive H2 inhibition. Low H2 concentrations (20 µM) also caused a decrease in growth and CH4 production rates for the H2-consuming methanogen Methanocaldococcus jannaschii. H2 stress in both organisms was ameliorated when the organisms were grown together syntrophically. CH4 was produced without any added H2 during syntrophic growth, and there was no formate produced by T. paralvinellae. These organisms may impact the biogeochemistry, especially natural gas production, in saline, organic-rich subsurface environments when both are present.

Predominance of Viable Spore-Forming Piezophilic Bacteria in High-Pressure Enrichment Cultures from ~1.5 to 2.4 km-Deep Coal-Bearing Sediments below the Ocean Floor

PubMed Central

Fang, Jiasong; Kato, Chiaki; Runko, Gabriella M.; Nogi, Yuichi; Hori, Tomoyuki; Li, Jiangtao; Morono, Yuki; Inagaki, Fumio

2017-01-01

Phylogenetically diverse microorganisms have been observed in marine subsurface sediments down to ~2.5 km below the seafloor (kmbsf). However, very little is known about the pressure-adapted and/or pressure-loving microorganisms, the so called piezophiles, in the deep subseafloor biosphere, despite that pressure directly affects microbial physiology, metabolism, and biogeochemical processes of carbon and other elements in situ. In this study, we studied taxonomic compositions of microbial communities in high-pressure incubated sediment, obtained during the Integrated Ocean Drilling Program (IODP) Expedition 337 off the Shimokita Peninsula, Japan. Analysis of 16S rRNA gene-tagged sequences showed that members of spore-forming bacteria within Firmicutes and Actinobacteria were predominantly detected in all enrichment cultures from ~1.5 to 2.4 km-deep sediment samples, followed by members of Proteobacteria, Acidobacteria, and Bacteroidetes according to the sequence frequency. To further study the physiology of the deep subseafloor sedimentary piezophilic bacteria, we isolated and characterized two bacterial strains, 19R1-5 and 29R7-12, from 1.9 and 2.4 km-deep sediment samples, respectively. The isolates were both low G+C content, gram-positive, endospore-forming and facultative anaerobic piezophilic bacteria, closely related to Virgibacillus pantothenticus and Bacillus subtilis within the phylum Firmicutes, respectively. The optimal pressure and temperature conditions for growth were 20 MPa and 42°C for strain 19R1-5, and 10 MPa and 43°C for strain 29R7-12. Bacterial (endo)spores were observed in both the enrichment and pure cultures examined, suggesting that these piezophilic members were derived from microbial communities buried in the ~20 million-year-old coal-bearing sediments after the long-term survival as spores and that the deep biosphere may host more abundant gram-positive spore-forming bacteria and their spores than hitherto recognized. PMID:28220112

Predominance of Viable Spore-Forming Piezophilic Bacteria in High-Pressure Enrichment Cultures from ~1.5 to 2.4 km-Deep Coal-Bearing Sediments below the Ocean Floor.

PubMed

Fang, Jiasong; Kato, Chiaki; Runko, Gabriella M; Nogi, Yuichi; Hori, Tomoyuki; Li, Jiangtao; Morono, Yuki; Inagaki, Fumio

2017-01-01

Phylogenetically diverse microorganisms have been observed in marine subsurface sediments down to ~2.5 km below the seafloor (kmbsf). However, very little is known about the pressure-adapted and/or pressure-loving microorganisms, the so called piezophiles, in the deep subseafloor biosphere, despite that pressure directly affects microbial physiology, metabolism, and biogeochemical processes of carbon and other elements in situ . In this study, we studied taxonomic compositions of microbial communities in high-pressure incubated sediment, obtained during the Integrated Ocean Drilling Program (IODP) Expedition 337 off the Shimokita Peninsula, Japan. Analysis of 16S rRNA gene-tagged sequences showed that members of spore-forming bacteria within Firmicutes and Actinobacteria were predominantly detected in all enrichment cultures from ~1.5 to 2.4 km-deep sediment samples, followed by members of Proteobacteria, Acidobacteria, and Bacteroidetes according to the sequence frequency. To further study the physiology of the deep subseafloor sedimentary piezophilic bacteria, we isolated and characterized two bacterial strains, 19R1-5 and 29R7-12, from 1.9 and 2.4 km-deep sediment samples, respectively. The isolates were both low G+C content, gram-positive, endospore-forming and facultative anaerobic piezophilic bacteria, closely related to Virgibacillus pantothenticus and Bacillus subtilis within the phylum Firmicutes, respectively. The optimal pressure and temperature conditions for growth were 20 MPa and 42°C for strain 19R1-5, and 10 MPa and 43°C for strain 29R7-12. Bacterial (endo)spores were observed in both the enrichment and pure cultures examined, suggesting that these piezophilic members were derived from microbial communities buried in the ~20 million-year-old coal-bearing sediments after the long-term survival as spores and that the deep biosphere may host more abundant gram-positive spore-forming bacteria and their spores than hitherto recognized.

On the edge of a deep biosphere: Real animals in extreme environments

NASA Astrophysics Data System (ADS)

Childress, James J.; Fisher, Charles F.; Felbeck, Horst; Girguis, Peter

This paper considers the possibility of animals living in a subsurface environment on the global mid-ocean ridge system. It considers the possible environments and looks at the possibilities of animal inhabitants of the subsurface biosphere based on adaptations of animals to other extreme habitats. We conclude that there are known bridging inhabitants of the subsurface biosphere, that part-time inhabitants are extremely likely, and that there could be full-time inhabitants if conditions are stable within the tolerance limits of metazoans for time periods of months.

Make it fun for everyone: visualization techniques in geoscience

NASA Astrophysics Data System (ADS)

Portnov, A.; Sojtaric, M.

2017-12-01

We live on a planet that mostly consists of oceans, but most people cannot picture what the surface and the subsurface of the ocean floor looks like. Marine geophysics has traditionally been difficult to explain to general public as most of what we do happens beyond the visual realm of an average audience. However, recent advances in 3D visualization of scientific data is one of the tools we can employ to better explain complex systems through gripping visual content. Coupled with a narrative approach, this type of visualization can open up a whole new and relatively little known world of science to general public. Up-to-date remote-sensing methods provide unique data of surface of seabed and subsurface all over the planet. Modern software can present this data in a spectacular way and with great scientific accuracy, making it attractive both for specialists and non-specialists in geoscience. As an example, we present several visualizations, which in simple way tell stories of various research in the remote parts of the World, such as Arctic regions and deep ocean in the Gulf of Mexico. Diverse datasets: multibeam echosounding; hydrographic survey; seismic and borehole data are put together to build up perfectly geo-referenced environment, showing the complexity of geological processes on our planet. Some of the data was collected 10-15 years ago, but acquired its new life with the help of new data visualization techniques. Every digital object with assigned coordinates, including 2D pictures and 3D models may become a part of this virtual geologic environment, limiting the potential of geo-visualization only by the imagination of a scientist. Presented videos have an apparent scientific focus on marine geology and geophysics, since the data was collected by several research and petroleum organizations, specialized in this field. The stories which we tell in this way may, for example, provide the public with further insight in complexities surrounding natural subsea gas storage and release.

Mars - VLA observations of the northern hemisphere and the north polar region at wavelengths of 2 and 6 cm

NASA Technical Reports Server (NTRS)

Rudy, Donald J.; Muhleman, Duane O.; Berge, Glenn L.; Jakosky, Bruce M.; Christensen, Philip R.

1987-01-01

Calculations based on 2- and 6-cm observations of Mars with the A configuration of the VLA have yielded a whole-disk effective dielectric constant of 2.34 + or - 0.05, implying a subsurface density of 1.24 + or - 0.11 g/cu cm at 2 cm, as well as 1.45 + or - 0.10 g/cu cm effective density and 2.70 + or - 0.10 dielectric constant at 6 cm. These parameters have also been estimated as a function of latitude over the 15 deg S - 60 deg N range; subsurface radio absorption length was estimated to be about 15 wavelengths at most of these latitudes. Most of the subsurface density calculations yielded results in the 1-2-g/cu cm range, implying that the subsurface is not very different from the surface observed by Viking and Mariner spacecraft; the decrease in correlation with depth is in keeping with slow variation of the subsurface in the near-subsurface region.

MOCHA - Multi-Study Ocean Acoustics Human Effects Analysis

DTIC Science & Technology

2015-09-30

understanding of the response of marine mammals to navy sonar and other acoustic stimuli, by maximizing the information gain from Behavioral Response Studies...focussed on a functional/taxonomic group of marine mammals (deep divers, other odontocetes, pilot whales and baleen whales). We began with deep divers...Controlled Exposure Experiments component of the Marine Mammals and Biology Program, and it will also address broader commitments of the Navy for

Species distribution models of two critically endangered deep-sea octocorals reveal fishing impacts on vulnerable marine ecosystems in central Mediterranean Sea.

PubMed

Lauria, V; Garofalo, G; Fiorentino, F; Massi, D; Milisenda, G; Piraino, S; Russo, T; Gristina, M

2017-08-14

Deep-sea coral assemblages are key components of marine ecosystems that generate habitats for fish and invertebrate communities and act as marine biodiversity hot spots. Because of their life history traits, deep-sea corals are highly vulnerable to human impacts such as fishing. They are an indicator of vulnerable marine ecosystems (VMEs), therefore their conservation is essential to preserve marine biodiversity. In the Mediterranean Sea deep-sea coral habitats are associated with commercially important crustaceans, consequently their abundance has dramatically declined due to the effects of trawling. Marine spatial planning is required to ensure that the conservation of these habitats is achieved. Species distribution models were used to investigate the distribution of two critically endangered octocorals (Funiculina quadrangularis and Isidella elongata) in the central Mediterranean as a function of environmental and fisheries variables. Results show that both species exhibit species-specific habitat preferences and spatial patterns in response to environmental variables, but the impact of trawling on their distribution differed. In particular F. quadrangularis can overlap with fishing activities, whereas I. elongata occurs exclusively where fishing is low or absent. This study represents the first attempt to identify key areas for the protection of soft and compact mud VMEs in the central Mediterranean Sea.

Dehalogenation Activities and Distribution of Reductive Dehalogenase Homologous Genes in Marine Subsurface Sediments▿ †

PubMed Central

Futagami, Taiki; Morono, Yuki; Terada, Takeshi; Kaksonen, Anna H.; Inagaki, Fumio

2009-01-01

Halogenated organic compounds serve as terminal electron acceptors for anaerobic respiration in a diverse range of microorganisms. Here, we report on the widespread distribution and diversity of reductive dehalogenase homologous (rdhA) genes in marine subsurface sediments. A total of 32 putative rdhA phylotypes were detected in sediments from the southeast Pacific off Peru, the eastern equatorial Pacific, the Juan de Fuca Ridge flank off Oregon, and the northwest Pacific off Japan, collected at a maximum depth of 358 m below the seafloor. In addition, significant dehalogenation activity involving 2,4,6-tribromophenol and trichloroethene was observed in sediment slurry from the Nankai Trough Forearc Basin. These results suggest that dehalorespiration is an important energy-yielding pathway in the subseafloor microbial ecosystem. PMID:19749069

Dehalogenation activities and distribution of reductive dehalogenase homologous genes in marine subsurface sediments.

PubMed

Futagami, Taiki; Morono, Yuki; Terada, Takeshi; Kaksonen, Anna H; Inagaki, Fumio

2009-11-01

Halogenated organic compounds serve as terminal electron acceptors for anaerobic respiration in a diverse range of microorganisms. Here, we report on the widespread distribution and diversity of reductive dehalogenase homologous (rdhA) genes in marine subsurface sediments. A total of 32 putative rdhA phylotypes were detected in sediments from the southeast Pacific off Peru, the eastern equatorial Pacific, the Juan de Fuca Ridge flank off Oregon, and the northwest Pacific off Japan, collected at a maximum depth of 358 m below the seafloor. In addition, significant dehalogenation activity involving 2,4,6-tribromophenol and trichloroethene was observed in sediment slurry from the Nankai Trough Forearc Basin. These results suggest that dehalorespiration is an important energy-yielding pathway in the subseafloor microbial ecosystem.

Impact disruption and recovery of the deep subsurface biosphere

USGS Publications Warehouse

Cockell, Charles S.; Voytek, Mary A.; Gronstal, Aaron L.; Finster, Kai; Kirshtein, Julie D.; Howard, Kieren; Reitner, Joachim; Gohn, Gregory S.; Sanford, Ward E.; Horton, J. Wright; Kallmeyer, Jens; Kelly, Laura; Powars, David S.

2012-01-01

Although a large fraction of the world's biomass resides in the subsurface, there has been no study of the effects of catastrophic disturbance on the deep biosphere and the rate of its subsequent recovery. We carried out an investigation of the microbiology of a 1.76 km drill core obtained from the ~35 million-year-old Chesapeake Bay impact structure, USA, with robust contamination control. Microbial enumerations displayed a logarithmic downward decline, but the different gradient, when compared to previously studied sites, and the scatter of the data are consistent with a microbiota influenced by the geological disturbances caused by the impact. Microbial abundance is low in buried crater-fill, ocean-resurge, and avalanche deposits despite the presence of redox couples for growth. Coupled with the low hydraulic conductivity, the data suggest the microbial community has not yet recovered from the impact ~35 million years ago. Microbial enumerations, molecular analysis of microbial enrichment cultures, and geochemical analysis showed recolonization of a deep region of impact-fractured rock that was heated to above the upper temperature limit for life at the time of impact. These results show how, by fracturing subsurface rocks, impacts can extend the depth of the biosphere. This phenomenon would have provided deep refugia for life on the more heavily bombarded early Earth, and it shows that the deeply fractured regions of impact craters are promising targets to study the past and present habitability of Mars.

Impact disruption and recovery of the deep subsurface biosphere.

PubMed

Cockell, Charles S; Voytek, Mary A; Gronstal, Aaron L; Finster, Kai; Kirshtein, Julie D; Howard, Kieren; Reitner, Joachim; Gohn, Gregory S; Sanford, Ward E; Horton, J Wright; Kallmeyer, Jens; Kelly, Laura; Powars, David S

2012-03-01

Although a large fraction of the world's biomass resides in the subsurface, there has been no study of the effects of catastrophic disturbance on the deep biosphere and the rate of its subsequent recovery. We carried out an investigation of the microbiology of a 1.76 km drill core obtained from the ∼35 million-year-old Chesapeake Bay impact structure, USA, with robust contamination control. Microbial enumerations displayed a logarithmic downward decline, but the different gradient, when compared to previously studied sites, and the scatter of the data are consistent with a microbiota influenced by the geological disturbances caused by the impact. Microbial abundance is low in buried crater-fill, ocean-resurge, and avalanche deposits despite the presence of redox couples for growth. Coupled with the low hydraulic conductivity, the data suggest the microbial community has not yet recovered from the impact ∼35 million years ago. Microbial enumerations, molecular analysis of microbial enrichment cultures, and geochemical analysis showed recolonization of a deep region of impact-fractured rock that was heated to above the upper temperature limit for life at the time of impact. These results show how, by fracturing subsurface rocks, impacts can extend the depth of the biosphere. This phenomenon would have provided deep refugia for life on the more heavily bombarded early Earth, and it shows that the deeply fractured regions of impact craters are promising targets to study the past and present habitability of Mars.

The influence of low latitude forcing on European Ice sheet dynamics

NASA Astrophysics Data System (ADS)

Kaboth, Stefanie; Bahr, André; Lourens, Lucas J.

2017-04-01

Distinct mid-glacial δ18O enrichment events found at Site U1386 in the Gulf of Cadiz during Marine Isotope Stages 6 and 8 represent a striking feature absent in most deep-sea benthic δ18O records studied worldwide. These δ18O enrichment events are closely related to periods of maximum precession and aligned with previous findings from the Mediterranean and Red Seas. Here we present paired planktic and benthic stable isotope (δ18O and δ13C) and Mg/Ca-based temperature records of Site U1386 of the last 300.000 years. Our results show that these δ18O enrichment events are recorded in both subsurface and bottom water masses and pre-date the largest cooling events along the Iberian Margin and associated European sourced meltwater pulses of the Drenthe and Fuhne major ice-sheet advances, suggesting that they instead correspond to periods of maximum ice volume extend in Europe.

Genomes of planktonic Acidimicrobiales: widening horizons for marine Actinobacteria by metagenomics.

PubMed

Mizuno, Carolina Megumi; Rodriguez-Valera, Francisco; Ghai, Rohit

2015-02-10

The genomes of four novel marine Actinobacteria have been assembled from large metagenomic data sets derived from the Mediterranean deep chlorophyll maximum (DCM). These are the first marine representatives belonging to the order Acidimicrobiales and only the second group of planktonic marine Actinobacteria to be described. Their streamlined genomes and photoheterotrophic lifestyle suggest that they are planktonic, free-living microbes. A novel rhodopsin clade, acidirhodopsins, related to freshwater actinorhodopsins, was found in these organisms. Their genomes suggest a capacity to assimilate C2 compounds, some using the glyoxylate bypass and others with the ethylmalonyl-coenzyme A (CoA) pathway. They are also able to derive energy from dimethylsulfopropionate (DMSP), sulfonate, and carbon monoxide oxidation, all commonly available in the marine habitat. These organisms appear to be prevalent in the deep photic zone at or around the DCM. The presence of sister clades to the marine Acidimicrobiales in freshwater aquatic habitats provides a new example of marine-freshwater transitions with potential evolutionary insights. Despite several studies showing the importance and abundance of planktonic Actinobacteria in the marine habitat, a representative genome was only recently described. In order to expand the genomic repertoire of marine Actinobacteria, we describe here the first Acidimicrobidae genomes of marine origin and provide insights about their ecology. They display metabolic versatility in the acquisition of carbon and appear capable of utilizing diverse sources of energy. One of the genomes harbors a new kind of rhodopsin related to the actinorhodopsin clade of freshwater origin that is widespread in the oceans. Our data also support their preference to inhabit the deep chlorophyll maximum and the deep photic zone. This work contributes to the perception of marine actinobacterial groups as important players in the marine environment with distinct and important contributions to nutrient cycling in the oceans. Copyright © 2015 Mizuno et al.

Survivability and growth kinetics of methanogenic archaea at various pHs and pressures: Implications for deep subsurface life on Mars

NASA Astrophysics Data System (ADS)

Sinha, Navita; Nepal, Sudip; Kral, Timothy; Kumar, Pradeep

2017-02-01

Life as we know it requires liquid water and sufficient liquid water is highly unlikely on the surface of present-day Mars. However, according to thermal models there is a possibility of liquid water in the deep subsurface of Mars. Thus, the martian subsurface, where the pressure and temperature is higher, could potentially provide a hospitable environment for a biosphere. Also, methane has been detected in the Mars' atmosphere. Analogous to Earth's atmospheric methane, martian methane could also be biological in origin. The carbon and energy sources for methanogenesis in the subsurface of Mars could be available by downwelling of atmospheric CO2 into the regolith and water-rock reactions such as serpentinization, respectively. Corresponding analogs of the martian subsurface on Earth might be the active sites of serpentinization at depths where methanogenic thermophilic archaea are the dominant species. Methanogens residing in Earth's hydrothermal environments are usually exposed to a variety of physiological stresses including a wide range of pressures, temperatures, and pHs. Martian geochemical models imply that the pH of probable groundwater varies from 4.96 to 9.13. In this work, we used the thermophilic methanogen, Methanothermobacter wolfeii, which grows optimally at 55oC. Therefore, a temperature of 55oC was chosen for these experiments, possibly simulating Mars' subsurface temperature. A martian geophysical model suggests depth and pressure corresponding to a temperature of 55 °C would be between 1-30 km and 100-3,000 atm respectively. Here, we have simulated Mars deep subsurface pH, pressure, and temperature conditions and have investigated the survivability, growth rate, and morphology of M. wolfeii after exposure to a wide range of pH 5-9) and pressure (1-1200 atm) at a temperature of 55 °C. Interestingly, in this study we have found that M. wolfeii was able to survive at all the pressures and pHs tested at 55 °C. In order to understand the effect of different pHs and pressures on the metabolic activities of M. wolfeii, we also calculated their growth rate by measuring methane concentration in the headspace gas samples at regular intervals. In acidic conditions, the growth rate (γ) of M. wolfeii increased with the increase in pressure. In neutral and alkaline conditions, the growth rate (γ) of M. wolfeii initially increased with pressure, but decreased upon further increase of pressure. To investigate the effect of combined pH, pressure, and temperature on the morphology of M. wolfeii, we took phase contrast images of the cells. We did not find any obvious significant alteration in the morphology of M. wolfeii cells. Methanogens, chemolithoautotrophic anaerobic microorganisms, are considered as ideal model microorganisms for Mars. In light of research presented here, we suggest that at least one methanogen, M. wolfeii, could survive in the deep subsurface environment of Mars.

Workshop Report on Deep Mars: Accessing the Subsurface of Mars on Near Term Missions

NASA Technical Reports Server (NTRS)

Langhoff, Stephanie R. (Editor)

2008-01-01

The workshop encompassed three major themes. The first theme was the scientific objectives of drilling, which center on the search for clues to the existence of past life and to the geological and climate history of Mars. Key questions are where and how deep to drill? Planetary protection issues were stressed as an important consideration in the design of any drilling mission. Secondly, architectures for drilling missions were discussed, including an overview of most of the current drills in operation that would be applicable to drilling on Mars. Considerable emphasis was placed on remote operation and drilling automation technologies. Finally, alternatives to conventional drilling were discussed. These included underground moles, penetrometers, horizontal drilling, impactors, and access to the subsurface from subsurface cavities. Considerable discussion centered on the possible Mars drilling missions that could be performed in both the near and longer term. The workshop participants concluded that useful science could be obtained today using low-cost impactors, with or without a sheperding spacecraft.

Similarities and Differences in the Distributions of Hydrothermal Venting and the Formation of Seafloor Massive Sulfide Deposits at the Tui Malila and Mariner Vent Fields, Valu Fa Ridge

NASA Astrophysics Data System (ADS)

Tivey, M. K.; Evans, G. N.; Ferrini, V. L.; Spierer, H.

2016-12-01

High-resolution bathymetric mapping and recovery and study of samples from precisely known locations relative to local tectonic and volcanic features provide insight into the formation of seafloor massive sulfide deposits. Additional insight comes from repeat mapping efforts in 2005 and 2016 that provide details of relations and changes that may have occurred over time. Located 21 km apart on the Valu Fa Ridge, the Tui Malila and Mariner vent fields exhibit contrasting vent fluid chemistry, mineral deposit composition, deposit morphology, and seafloor morphology. At the Tui Malila vent field, near-neutral pH fluids with low metal contents vent from Zn- and Ba-rich, but Cu-poor deposits. The highest temperature fluids are found near the intersection of two faults and between volcanic domes. In contrast, acidic, metal-rich hydrothermal fluids at the Mariner vent field vent from Cu-rich, Zn-poor deposits. No discernable faults are present. At both the Tui Malila and Mariner vent fields, intermediate temperature fluids were sampled emanating from barite-rich deposits. At the Tui Malila vent field, intermediate fluids vent from flange-dominated edifices that are located on brecciated lava flow that overlays one of the two faults. Intermediate fluids at the Mariner vent field vent from squat terrace-like edifices located peripheral (10-15 m) to high-temperature chimney edifices, and seafloor morphology is dominated by brecciated lava flows. Thermodynamic models of mixing between high-temperature hydrothermal fluids and seawater that consider subsurface deposition of sulfide minerals and iron oxyhydroxide were used to reproduce the chemistry of intermediate fluids. This study suggests that the porous, brecciated lavas characteristic of these two vent fields provide sites for subsurface mixing and contribute to mineral deposition, with the faults at the Tui Malila vent field providing a pathway for subsurface fluid flow.

Structural control on the deep hydrogeological and geothermal aquifers related to the fractured Campanian-Miocene reservoirs of north-eastern Tunisia foreland constrained by subsurface data

NASA Astrophysics Data System (ADS)

Khomsi, Sami; Echihi, Oussema; Slimani, Naji

2012-03-01

A set of different data including high resolution seismic sections, petroleum wire-logging well data, borehole piezometry, structural cross-sections and outcrop analysis allowed us to characterise the tectonic framework, and its relationships with the deep aquifers seated in Cretaceous-Miocene deep reservoirs. The structural framework, based on major structures, controls the occurrence of deep aquifers and sub-basin aquifer distributions. Five structural domains can be defined, having different morphostructural characteristics. The northernmost domain lying on the north-south axis and Zaghouan thrust system is a domain of recharge by underflow of the different subsurface reservoirs and aquifers from outcrops of highly fractured reservoirs. On the other hand, the morphostructural configuration controls the piezometry of underground flows in the Plio-Quaternary unconfined aquifer. In the subsurface the Late Cretaceous-Miocene reservoirs are widespread with high thicknesses in many places and high porosities and connectivities especially along major fault corridors and on the crestal parts of major anticlines. Among all reservoirs, the Oligo-Miocene, detritic series are widespread and present high cumulative thicknesses. Subsurface and fieldwork outline the occurrence of 10 fractured sandy reservoirs for these series with packages having high hydrodynamic and petrophysical characteristics. These series show low salinities (maximum 5 g/l) in the northern part of the study area and will constitute an important source of drinkable water for the next generations. A regional structural cross-section is presented, compiled from all the different data sets, allowing us to define the major characteristics of the hydrogeological-hydrogeothermal sub-basins. Eight hydrogeological provinces are defined from north-west to south-east. A major thermal anomaly is clearly identified in the south-eastern part of the study area in Sfax-Sidi Il Itayem. This anomaly is possibly related to major faults pertaining to the Sirt basin and controlled by a deep thermal anomaly. Many exploration targets are identified especially along the Cherichira-Kondar thrust where the Oligocene subcropping reservoirs are well developed. They are highly fractured and show good hydrodynamic characteristics.

Biodiversity's big wet secret: the global distribution of marine biological records reveals chronic under-exploration of the deep pelagic ocean.

PubMed

Webb, Thomas J; Vanden Berghe, Edward; O'Dor, Ron

2010-08-02

Understanding the distribution of marine biodiversity is a crucial first step towards the effective and sustainable management of marine ecosystems. Recent efforts to collate location records from marine surveys enable us to assemble a global picture of recorded marine biodiversity. They also effectively highlight gaps in our knowledge of particular marine regions. In particular, the deep pelagic ocean--the largest biome on Earth--is chronically under-represented in global databases of marine biodiversity. We use data from the Ocean Biogeographic Information System to plot the position in the water column of ca 7 million records of marine species occurrences. Records from relatively shallow waters dominate this global picture of recorded marine biodiversity. In addition, standardising the number of records from regions of the ocean differing in depth reveals that regardless of ocean depth, most records come either from surface waters or the sea bed. Midwater biodiversity is drastically under-represented. The deep pelagic ocean is the largest habitat by volume on Earth, yet it remains biodiversity's big wet secret, as it is hugely under-represented in global databases of marine biological records. Given both its value in the provision of a range of ecosystem services, and its vulnerability to threats including overfishing and climate change, there is a pressing need to increase our knowledge of Earth's largest ecosystem.

Ubiquitous Gammaproteobacteria dominate dark carbon fixation in coastal sediments.

PubMed

Dyksma, Stefan; Bischof, Kerstin; Fuchs, Bernhard M; Hoffmann, Katy; Meier, Dimitri; Meyerdierks, Anke; Pjevac, Petra; Probandt, David; Richter, Michael; Stepanauskas, Ramunas; Mußmann, Marc

2016-08-01

Marine sediments are the largest carbon sink on earth. Nearly half of dark carbon fixation in the oceans occurs in coastal sediments, but the microorganisms responsible are largely unknown. By integrating the 16S rRNA approach, single-cell genomics, metagenomics and transcriptomics with (14)C-carbon assimilation experiments, we show that uncultured Gammaproteobacteria account for 70-86% of dark carbon fixation in coastal sediments. First, we surveyed the bacterial 16S rRNA gene diversity of 13 tidal and sublittoral sediments across Europe and Australia to identify ubiquitous core groups of Gammaproteobacteria mainly affiliating with sulfur-oxidizing bacteria. These also accounted for a substantial fraction of the microbial community in anoxic, 490-cm-deep subsurface sediments. We then quantified dark carbon fixation by scintillography of specific microbial populations extracted and flow-sorted from sediments that were short-term incubated with (14)C-bicarbonate. We identified three distinct gammaproteobacterial clades covering diversity ranges on family to order level (the Acidiferrobacter, JTB255 and SSr clades) that made up >50% of dark carbon fixation in a tidal sediment. Consistent with these activity measurements, environmental transcripts of sulfur oxidation and carbon fixation genes mainly affiliated with those of sulfur-oxidizing Gammaproteobacteria. The co-localization of key genes of sulfur and hydrogen oxidation pathways and their expression in genomes of uncultured Gammaproteobacteria illustrates an unknown metabolic plasticity for sulfur oxidizers in marine sediments. Given their global distribution and high abundance, we propose that a stable assemblage of metabolically flexible Gammaproteobacteria drives important parts of marine carbon and sulfur cycles.

Sequence stratigraphic re-interpretation of [open quotes]stray[close quotes] sandstones in the Cretaceous Mancos Shale, Book Cliffs, Utah: Implications for exploration models

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hampson, G.J.; Howell, J.A.; Flint, S.S.

1996-01-01

The Mancos Shale, Book Cliffs, eastern Utah, represents the open marine mudstones of the Cretaceous Western Interior Seaway and contains a number of detached sandstone bodies ([open quotes]Mancos B[close quotes]) which are located 30-150 km down depositional dip from contemporaneous highstand shoreline deposits in the Blackhawk Formation. Examination of these [open quotes]stray[close quotes] sandstones reveals that they do not represent deep water deposition, as previously supposed, but instead comprise three shallow marine facies associations; (1) tidally-influenced fluvial channel fills, (2) fluvially-dominated delta front successions and (3) low-energy shorelines. Tidally-influenced fluvial channel fills are commonly stacked into multistorey bodies at discretemore » stratigraphic levels, thereby defining incised valley fill (IVF) networks. Fluvially-dominated deltas are eroded into by, and lie at the down-dip terminations of, IVFs and are therefore interpreted as falling stage and lowstand shorelines. Low-energy shorelines are inferred to lie along strike from these deltas. The above shallow marine deposits have been mapped at five discrete stratigraphic horizons, which can be either traced or projected up-dip to previously-documented IVFs in the Blackhawk Formation. Their paleocurrents imply that falling stage and lowstand shoreline trends were sub-parallel to mapped highstand shorelines, although there is evidence for a perpendicular lowstand shoreline trend in the east of the study area. This facies and sequence stratigraphic re-interpretation enables predictive exploration modelling of subsurface [open quotes]Mancos B[close quotes] gas reservoir sandstones.« less

Sequence stratigraphic re-interpretation of {open_quotes}stray{close_quotes} sandstones in the Cretaceous Mancos Shale, Book Cliffs, Utah: Implications for exploration models

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hampson, G.J.; Howell, J.A.; Flint, S.S.

1996-12-31

The Mancos Shale, Book Cliffs, eastern Utah, represents the open marine mudstones of the Cretaceous Western Interior Seaway and contains a number of detached sandstone bodies ({open_quotes}Mancos B{close_quotes}) which are located 30-150 km down depositional dip from contemporaneous highstand shoreline deposits in the Blackhawk Formation. Examination of these {open_quotes}stray{close_quotes} sandstones reveals that they do not represent deep water deposition, as previously supposed, but instead comprise three shallow marine facies associations; (1) tidally-influenced fluvial channel fills, (2) fluvially-dominated delta front successions and (3) low-energy shorelines. Tidally-influenced fluvial channel fills are commonly stacked into multistorey bodies at discrete stratigraphic levels, thereby definingmore » incised valley fill (IVF) networks. Fluvially-dominated deltas are eroded into by, and lie at the down-dip terminations of, IVFs and are therefore interpreted as falling stage and lowstand shorelines. Low-energy shorelines are inferred to lie along strike from these deltas. The above shallow marine deposits have been mapped at five discrete stratigraphic horizons, which can be either traced or projected up-dip to previously-documented IVFs in the Blackhawk Formation. Their paleocurrents imply that falling stage and lowstand shoreline trends were sub-parallel to mapped highstand shorelines, although there is evidence for a perpendicular lowstand shoreline trend in the east of the study area. This facies and sequence stratigraphic re-interpretation enables predictive exploration modelling of subsurface {open_quotes}Mancos B{close_quotes} gas reservoir sandstones.« less

Hidden Markov models reveal complexity in the diving behaviour of short-finned pilot whales

PubMed Central

Quick, Nicola J.; Isojunno, Saana; Sadykova, Dina; Bowers, Matthew; Nowacek, Douglas P.; Read, Andrew J.

2017-01-01

Diving behaviour of short-finned pilot whales is often described by two states; deep foraging and shallow, non-foraging dives. However, this simple classification system ignores much of the variation that occurs during subsurface periods. We used multi-state hidden Markov models (HMM) to characterize states of diving behaviour and the transitions between states in short-finned pilot whales. We used three parameters (number of buzzes, maximum dive depth and duration) measured in 259 dives by digital acoustic recording tags (DTAGs) deployed on 20 individual whales off Cape Hatteras, North Carolina, USA. The HMM identified a four-state model as the best descriptor of diving behaviour. The state-dependent distributions for the diving parameters showed variation between states, indicative of different diving behaviours. Transition probabilities were considerably higher for state persistence than state switching, indicating that dive types occurred in bouts. Our results indicate that subsurface behaviour in short-finned pilot whales is more complex than a simple dichotomy of deep and shallow diving states, and labelling all subsurface behaviour as deep dives or shallow dives discounts a significant amount of important variation. We discuss potential drivers of these patterns, including variation in foraging success, prey availability and selection, bathymetry, physiological constraints and socially mediated behaviour. PMID:28361954

Development of anomaly detection models for deep subsurface monitoring

NASA Astrophysics Data System (ADS)

Sun, A. Y.

2017-12-01

Deep subsurface repositories are used for waste disposal and carbon sequestration. Monitoring deep subsurface repositories for potential anomalies is challenging, not only because the number of sensor networks and the quality of data are often limited, but also because of the lack of labeled data needed to train and validate machine learning (ML) algorithms. Although physical simulation models may be applied to predict anomalies (or the system's nominal state for that sake), the accuracy of such predictions may be limited by inherent conceptual and parameter uncertainties. The main objective of this study was to demonstrate the potential of data-driven models for leakage detection in carbon sequestration repositories. Monitoring data collected during an artificial CO2 release test at a carbon sequestration repository were used, which include both scalar time series (pressure) and vector time series (distributed temperature sensing). For each type of data, separate online anomaly detection algorithms were developed using the baseline experiment data (no leak) and then tested on the leak experiment data. Performance of a number of different online algorithms was compared. Results show the importance of including contextual information in the dataset to mitigate the impact of reservoir noise and reduce false positive rate. The developed algorithms were integrated into a generic Web-based platform for real-time anomaly detection.

Deep and Ultra-deep Underground Observatory for In Situ Stress, Fluids, and Life

NASA Astrophysics Data System (ADS)

Boutt, D. F.; Wang, H.; Kieft, T. L.

2008-12-01

The question 'How deeply does life extend into the Earth?' forms a single, compelling vision for multidisciplinary science opportunities associated with physical and biological processes occurring naturally or in response to construction in the deep and ultra-deep subsurface environment of the Deep Underground Science and Engineering Laboratory (DUSEL) in the former Homestake mine. The scientific opportunity is to understand the interaction between the physical environment and microbial life, specifically, the coupling among (1) stress state and deformation; (2) flow and transport and origin of fluids; and (3) energy and nutrient sources for microbial life; and (4) microbial identity, diversity and activities. DUSEL-Homestake offers the environment in which these questions can be addressed unencumbered by competing human activities. Associated with the interaction among these variables are a number of questions that will be addressed at variety of depths and scales in the facility: What factors control the distribution of life as a function of depth and temperature? What patterns in microbial diversity, microbial activity and nutrients are found along this gradient? How do state variables (stress, strain, temperature, and pore pressure) and constitutive properties (permeability, porosity, modulus, etc.) vary with scale (space, depth, time) in a large 4D heterogeneous system: core - borehole - drift - whole mine - regional? How are fluid flow and stress coupled in a low-permeability, crystalline environment dominated by preferential flow paths? How does this interaction influence the distribution of fluids, solutes, gases, colloids, and biological resources (e.g. energy and nutritive substrates) in the deep continental subsurface? What is the interaction between geomechanics/geohydrology and microbiology (microbial abundance, diversity, distribution, and activities)? Can relationships elucidated within the mechanically and hydrologically altered subsurface habitat of the Homestake DUSEL be extrapolated to the pristine subsurface biosphere? In the absence of extensive intrusive investigations (drifts, mines, etc), can we characterize hydrogeologic and geomechanical processes in the subsurface? To what depth can we effectively characterize such processes, and what is the confidence in our interpretations? In addition to addressing these question in the 10-km3 of mine volume, the Homestake facility offers the deepest drilling platform in North America. The extant depth of 8000 feet can be doubled by drilling. An array of three or more 8,200 ft. boreholes, wire-line drilled from the 8,000 ft. level at Homestake will probe to at least 16,200 ft. below land surface, a depth at this location approaching the expected lower biosphere limit (e.g. the 120°C isotherm). Cores will be collected aseptically and then fracture patterns (e.g., orientation, aperture, etc.) will be determined and fracture fluids will be intensively sampled over time. Cores and fracture fluids will be analyzed for indigenous microbial communities, including their genetic elements, metabolic processes, and biosignatures.

Culturable prokaryotic diversity of deep, gas hydrate sediments: first use of a continuous high-pressure, anaerobic, enrichment and isolation system for subseafloor sediments (DeepIsoBUG)

PubMed Central

Parkes, R John; Sellek, Gerard; Webster, Gordon; Martin, Derek; Anders, Erik; Weightman, Andrew J; Sass, Henrik

2009-01-01

Deep subseafloor sediments may contain depressurization-sensitive, anaerobic, piezophilic prokaryotes. To test this we developed the DeepIsoBUG system, which when coupled with the HYACINTH pressure-retaining drilling and core storage system and the PRESS core cutting and processing system, enables deep sediments to be handled without depressurization (up to 25 MPa) and anaerobic prokaryotic enrichments and isolation to be conducted up to 100 MPa. Here, we describe the system and its first use with subsurface gas hydrate sediments from the Indian Continental Shelf, Cascadia Margin and Gulf of Mexico. Generally, highest cell concentrations in enrichments occurred close to in situ pressures (14 MPa) in a variety of media, although growth continued up to at least 80 MPa. Predominant sequences in enrichments were Carnobacterium, Clostridium, Marinilactibacillus and Pseudomonas, plus Acetobacterium and Bacteroidetes in Indian samples, largely independent of media and pressures. Related 16S rRNA gene sequences for all of these Bacteria have been detected in deep, subsurface environments, although isolated strains were piezotolerant, being able to grow at atmospheric pressure. Only the Clostridium and Acetobacterium were obligate anaerobes. No Archaea were enriched. It may be that these sediment samples were not deep enough (total depth 1126–1527 m) to obtain obligate piezophiles. PMID:19694787

Scenario simulation based assessment of subsurface energy storage

NASA Astrophysics Data System (ADS)

Beyer, C.; Bauer, S.; Dahmke, A.

2014-12-01

Energy production from renewable sources such as solar or wind power is characterized by temporally varying power supply. The politically intended transition towards renewable energies in Germany („Energiewende") hence requires the installation of energy storage technologies to compensate for the fluctuating production. In this context, subsurface energy storage represents a viable option due to large potential storage capacities and the wide prevalence of suited geological formations. Technologies for subsurface energy storage comprise cavern or deep porous media storage of synthetic hydrogen or methane from electrolysis and methanization, or compressed air, as well as heat storage in shallow or moderately deep porous formations. Pressure build-up, fluid displacement or temperature changes induced by such operations may affect local and regional groundwater flow, geomechanical behavior, groundwater geochemistry and microbiology. Moreover, subsurface energy storage may interact and possibly be in conflict with other "uses" like drinking water abstraction or ecological goods and functions. An utilization of the subsurface for energy storage therefore requires an adequate system and process understanding for the evaluation and assessment of possible impacts of specific storage operations on other types of subsurface use, the affected environment and protected entities. This contribution presents the framework of the ANGUS+ project, in which tools and methods are developed for these types of assessments. Synthetic but still realistic scenarios of geological energy storage are derived and parameterized for representative North German storage sites by data acquisition and evaluation, and experimental work. Coupled numerical hydraulic, thermal, mechanical and reactive transport (THMC) simulation tools are developed and applied to simulate the energy storage and subsurface usage scenarios, which are analyzed for an assessment and generalization of the imposed THMC-processes, mutual effects and influences on protected entities. The scenario analyses allow the deduction of monitoring concepts as well as a first methodology for large scale spatial planning of the geological subsurface. This concept is illustrated for different storage options and their impacts in space and time.

DWH MC 252: Subsurface Oil Transport

NASA Astrophysics Data System (ADS)

Beegle-Krause, C. J.; Boyer, T.; Murray, D.

2010-12-01

Before reaching the ocean surface, the oil and gas released from the DWH MC 252 blowout at 1500 m moves as a buoyant plume until the trapping depth and plume transition point are reached (Zheng et al 2002). At the transition point, the oil droplets and bubbles move independently of each other, and rise at a rate related to their diameter. The oil density, droplet size distribution and currents primarily determine the distribution of the oil between: Large droplets that rise quickly and create a surface expression of the oil. Moderate size droplets that rise over the course of days, and so spread out quite differently than the surface oil, and commonly do not reach the surface in large enough quantities to create a surface sheen. These droplets separate in the currents, particularly in the strong current shear in upper 500 m currents. Very tiny droplets that rise very slowly, over the course or weeks to months, and may be removed by dissolution, biodegradation or marine snow before ever reaching the surface. Modeling and observations (Joint Analysis Group, 2010) confirm the presence of a deep layer of oil and gas between approximately 1100 and 1300 m over the release location and spreading out along the isopycnal surfaces. Later in the event, a small oxygen depression was a proxy for where oil and gas had been. The DWH MC252 well is located at intermediate depth in the Gulf of Mexico (GoM). The water mass is Antarctic Intermediate Water, which enters and exits the GoM through the Yucatan Straits. Surface influences, such as Loop Current Frontal Eddies (e.g. Berger et al 2000) can reach down to these depths, and alter the flow within De Soto Canyon. The water mass containing the deep layer of oil droplets changes depth within the GoM, but does not reach above a depth of about 900 m. There are no physical processes that could cause this deep layer of oil to reach the continental shelf or the Florida Straits. Observed and historical hydrographic data, observations, previous research and modeling were combined to tell the story of the DWH MC 252 from the subsurface perspective. The Comprehensive Deepwater Oil and Gas model (CDOG, Yapa and Xie, 2005), and the General NOAA Operational Modeling Environment (GNOME, Beegle-Krause, 1999) were used with the NOAA Gulf of Mexico Model nowcast/forecast model to understand the 3D evolution of the subsurface spill. Model/observational comparisons are favorable, though limitations of the available models are apparent. Historical perspective on Thunder Horse (a deepwater well incident that was a dress-rehearsal for the DWH MC 252, Beegle-Krause and Walton, 2004), transitioning models from research to operations, and research needs will also be discussed.

Pilot-Scale Demonstration of In-Situ Chemical Oxidation Involving Chlorinated Volatile Organic Compounds - Design and Deployment Guidelines (Parris Island, SC, U.S. Marine Corp Recruit Depot, Site 45 Pilot Study)

EPA Science Inventory

A pilot-scale in situ chemical oxidation (ISCO) demonstration, involving subsurface injections of sodium permanganate (NaMnO4), was performed at the US Marine Corp Recruit Depot (MCRD), site 45 (Parris Island (PI), SC). The ground water was originally contaminated with perchloroe...

Bi-Static Deep Electromagnetic Soundings for Martian Subsurface Characterization: Experimental Validation in the Egyptian Western Desert

NASA Astrophysics Data System (ADS)

Ciarletti, V.; Le Gall, A.; Berthelier, J. J.; Corbel, Ch.; Dolon, F.; Ney, R.; Reineix, A.; Guiffaud, Ch.; Clifford, S.; Heggy, E.

2007-03-01

A bi-static version of the HF GPR TAPIR developed for martian deep soundings has been operated in the Egyptian Western Desert. The study presented focuses on the retrieval of the direction of arrival of the observed echoes on both simulated and measured d

Marine Biodiversity, Biogeography, Deep-Sea Gradients, and Conservation.

PubMed

Costello, Mark J; Chaudhary, Chhaya

2017-06-05

The oceans appear ideal for biodiversity - they have unlimited water, a large area, are well connected, have less extreme temperatures than on land, and contain more phyla and classes than land and fresh waters. Yet only 16% of all named species on Earth are marine. Species richness decreases with depth in the ocean, reflecting wider geographic ranges of deep sea than coastal species. Here, we assess how many marine species are named and estimated to exist, paying particular regard to whether discoveries of deep-sea organisms, microbes and parasites will change the proportion of terrestrial to marine species. We then review what factors have led to species diversification, and how this knowledge informs conservation priorities. The implications of this understanding for marine conservation are that the species most vulnerable to extinction will be large and endemic. Unfortunately, these species are also the most threatened by human impacts. Such threats now extend globally, and thus the only refuges for these species will be large, permanent, fully protected marine reserves. Copyright © 2017 Elsevier Ltd. All rights reserved.

Fine-grained visual marine vessel classification for coastal surveillance and defense applications

NASA Astrophysics Data System (ADS)

Solmaz, Berkan; Gundogdu, Erhan; Karaman, Kaan; Yücesoy, Veysel; Koç, Aykut

2017-10-01

The need for capabilities of automated visual content analysis has substantially increased due to presence of large number of images captured by surveillance cameras. With a focus on development of practical methods for extracting effective visual data representations, deep neural network based representations have received great attention due to their success in visual categorization of generic images. For fine-grained image categorization, a closely related yet a more challenging research problem compared to generic image categorization due to high visual similarities within subgroups, diverse applications were developed such as classifying images of vehicles, birds, food and plants. Here, we propose the use of deep neural network based representations for categorizing and identifying marine vessels for defense and security applications. First, we gather a large number of marine vessel images via online sources grouping them into four coarse categories; naval, civil, commercial and service vessels. Next, we subgroup naval vessels into fine categories such as corvettes, frigates and submarines. For distinguishing images, we extract state-of-the-art deep visual representations and train support-vector-machines. Furthermore, we fine tune deep representations for marine vessel images. Experiments address two scenarios, classification and verification of naval marine vessels. Classification experiment aims coarse categorization, as well as learning models of fine categories. Verification experiment embroils identification of specific naval vessels by revealing if a pair of images belongs to identical marine vessels by the help of learnt deep representations. Obtaining promising performance, we believe these presented capabilities would be essential components of future coastal and on-board surveillance systems.

Stress management skills in the subsurface: H2 stress on thermophilic heterotrophs and methanogens

NASA Astrophysics Data System (ADS)

Topcuoglu, B. D.; Holden, J. F.

2017-12-01

Marine hyperthermophilic heterotrophs and methanogens belonging to the Thermococcales and Methanococcales are often found in subsurface environments such as coal and shale beds, marine sediments, and oil reservoirs where they encounter H2 stress conditions. It is important to study the H2 stress survival strategies of these organisms and their cooperation with one another for survival to better understand their biogeochemical impact in hot subsurface environments. In this study, we have shown that H2 inhibition changed the growth kinetics and the transcriptome of Thermococcus paralvinellae. We observed a significant decrease in batch phase growth rates and cell concentrations with high H2 background. Produced metabolite production measurements, RNA-seq analyses of differentially expressed genes and in silico experiments we performed with the T. paralvinellae metabolic model showed that T. paralvinellae produces formate by a formate hydrogenlyase to survive H2 inhibition. We have also shown that H2 limitation caused a significant decrease in batch phase growth rates and methane production rates of the methanogen, Methanocaldococcus jannaschii. H2 stress of both organisms can be ameliorated by syntrophic growth. H2 syntrophy was demonstrated in microcosm incubations for a natural assemblage of Thermococcus and hyperthermophilic methanogens present in hydrothermal fluid samples. This project aims to describe how a hyperthermophilic heterotroph and a hyperthermophilic methanogen eliminate H2 stress and explore cooperation among thermophiles in the hot subsurface.

Marine biogeographic realms and species endemicity.

PubMed

Costello, Mark J; Tsai, Peter; Wong, Pui Shan; Cheung, Alan Kwok Lun; Basher, Zeenatul; Chaudhary, Chhaya

2017-10-20

Marine biogeographic realms have been inferred from small groups of species in particular environments (e.g., coastal, pelagic), without a global map of realms based on statistical analysis of species across all higher taxa. Here we analyze the distribution of 65,000 species of marine animals and plants, and distinguish 30 distinct marine realms, a similar proportion per area as found for land. On average, 42% of species are unique to the realms. We reveal 18 continental-shelf and 12 offshore deep-sea realms, reflecting the wider ranges of species in the pelagic and deep-sea compared to coastal areas. The most widespread species are pelagic microscopic plankton and megafauna. Analysis of pelagic species recognizes five realms within which other realms are nested. These maps integrate the biogeography of coastal and deep-sea, pelagic and benthic environments, and show how land-barriers, salinity, depth, and environmental heterogeneity relate to the evolution of biota. The realms have applications for marine reserves, biodiversity assessments, and as an evolution relevant context for climate change studies.

Tracking and data system support for the Mariner Mars 1971 mission. Volume 3: Orbit insertion through end of primary mission

NASA Technical Reports Server (NTRS)

Barnum, P. W.; Renzetti, N. A.; Textor, G. P.; Kelly, L. B.

1973-01-01

The Tracking and Data System (TDS) Support for the Mariner Mars 1971 Mission final report contains the deep space tracking and data acquisition activities in support of orbital operations. During this period a major NASA objective was accomplished: completion of the 180th revolution and 90th day of data gathering with the spacecraft about the planet Mars. Included are presentations of the TDS flight support pass chronology data for each of the Deep Space Stations used, and performance evaluation for the Deep Space Network Telemetry, Tracking, Command, and Monitor Systems. With the loss of Mariner 8 at launch, Mariner 9 assumed the mission plan of Mariner 8, which included the TV mapping cycles and a 12-hr orbital period. The mission plan was modified as a result of a severe dust storm on the surface of Mars, which delayed the start of the TV mapping cycles. Thus, the end of primary mission date was extended to complete the TV mapping cycles.

Mineral-Association and Activity of Bacteria and Archaea in the Deep Subsurface South Pacific Gyre Sediment

NASA Astrophysics Data System (ADS)

Steele, J. A.; Dekas, A. E.; Harrison, B. K.; Morono, Y.; Inagaki, F.; Ziebis, W.; Orphan, V. J.

2012-12-01

Although the subsurface biosphere is now recognized as an important reservoir of life on our planet, until recently the microbial community beneath open-ocean oligotrophic gyres (making up the majority of the seafloor) has just begun to be studied in detail. IODP Expedition 329 and the KNOX-022RR site survey cruise have taken some of the first steps at characterizing the microbial community beneath the South Pacific Gyre, a region with low organic carbon burial rates (10-8 and 10-10 moles C cm-1 yr-1), deep oxygen penetration (sediments are oxidized to the basement), and low prokaryotic cell counts (106 cells cm-3 to <103 cells cm-3). In these sediments, the dominant fraction of organic carbon may be aggregated or adsorbed to minerals, suggesting that microbes that are able to grow on the minerals may create potential "hotspots" of activity. In this study, we performed magnetic separation on oligotrophic sediment samples and examined the bacterial and archaeal communities using 16S rRNA tag sequencing. To determine if the mineral-associated cells were autotrophic and/or utilizing nitrate, we performed long-term (20 month) incubations with 13CO2 and 15NO3- from sediment taken at depths ~2-70 mbsf beneath the oligotrophic gyre and outside of the oligotrophic gyre (IODP Exp. 329 stations U1368-U1371). Subsequently we used the DNA stain SYBR Green I, and CARD-FISH-NanoSIMS to identify cells which were actively taking up the isotopic label. We then used SEM-EDS to identify the mineral particle composition. Preliminary results found the magnetic fraction in oligotrophic sediment (KNOX-022RR station SPG-5) from 1.2-2.6 mbsf showed a greater diversity of both bacteria and archaea. OTUs from Chloroflexi groups SO85 and SAR202 were dominant in the magnetic fraction. Firmicutes, Bacteroidetes, δ-Proteobacteria, Verrucomicrobia, Deferribacteres, WS3, OP10, and OP1 OTUs were found only in the magnetic fraction. Crenarchaeal OTUs from Marine Benthic Group B and Marine Group I (Thaumarchaea) and Euryarchaeal OTUs from Methanomicrobia and Thermococcus groups were found in the magnetic fraction with Marine Group I Crenarchaea showing the highest archaeal abundance. The higher diversity in the magnetic fraction suggests that bacteria and archaea associated with Fe-rich or Mn-rich minerals may be able to exploit a wider array of niches. Comparing sediment from within and outside the gyre, the more productive sediments had greater total cell numbers; however, we observed an increase in attached cells in the relatively Fe and P-rich samples (the heavy fraction) in the oligotrophic sediments (IODP Exp. 329 station U1368 and KNOX-022RR station SPG-6), suggesting a possible preference for attachment to Fe and P-rich particles.

Ecohydrology of Deep Fractured Rocks at Homestake DUSEL

NASA Astrophysics Data System (ADS)

Kieft, T. L.; Boutt, D. F.; Murdoch, L. C.; Wang, H. F.

2009-12-01

The Deep Underground Science and Engineering Laboratory (DUSEL) at Homestake in SD will provide an unprecedented opportunity to study the terrestrial subsurface. Such a study could fundamentally change the way we view the origin and early evolution of life on Earth, the search for novel materials, and the generation of energy. Knowledge of subsurface life has come from only a few boreholes and deep mines. DUSEL will enable the first detailed study of a deep ecosystem in the context of the hydrology, geochemistry, and rock system state that sustain it. We are guided by the over-arching question: What controls the distribution and evolution of subsurface life? Our hypothesis is that these controls are dominated by processes related to geology, geochemistry, geomechanics, and hydrology. Themes of scaling and the development of facies, or zones of similar characteristics cut across all the processes. The ecohydrologic setting of DUSEL Homestake is characterized by a vast expanse of fractured metamorphic rock cut by 100s of km of tunnels and boreholes. Many km3 of the region have been highly affected by mining activities; adjacent regions are partially desaturated; and more distal regions are pristine and presumed to harbor indigenous microbial ecosystems. Simulations along with descriptions of the mine suggest division into zones, or ecohydrologic facies, where essential characteristics related to the requirements for life are expected to be similar. These ecohydrologic facies are a primary organizing principle for our investigation. The Deep EcoHydrology Experiment will consist of field studies supported by numerical simulations. The experimental activities include a particularly exciting opportunity to probe the lower limits of the biosphere using deep drilling technology deployed from the lowest reaches of the facility (2440 m below the surface). The use of the flooding/dewatering event as a tracer combined with hydrologic and mechanical stressors form a theme that cuts across many of the experimental activities. Five key experimental activities have been identified that will enable motivating hypotheses to be tested: 1) Initial Characterization, 2) Flow System, 3) Stress and Deformation, 4) Exploration, and 5) Cross-cutting activities. The International Continental Drilling Program has approved a preproposal for an ICDP ecohydrology project at DUSEL. The development of a long-term deep geosciences observatory at the Homestake DUSEL will revolutionize the field of deep sub-surface ecohydrology. The opportunities for young scientists and international participation in such a facility will be tremendous. Results from the work will have wide ranging implications as 20% of the current earth’s surface consists of a similar geologic setting. DUSEL will also facilitate experiential learning for K-12 through graduate school students working alongside world-class geoscientists.

Combining Methods to Describe Important Marine Habitats for Top Predators: Application to Identify Biological Hotspots in Tropical Waters.

PubMed

Thiers, Laurie; Louzao, Maite; Ridoux, Vincent; Le Corre, Matthieu; Jaquemet, Sébastien; Weimerskirch, Henri

2014-01-01

In tropical waters resources are usually scarce and patchy, and predatory species generally show specific adaptations for foraging. Tropical seabirds often forage in association with sub-surface predators that create feeding opportunities by bringing prey close to the surface, and the birds often aggregate in large multispecific flocks. Here we hypothesize that frigatebirds, a tropical seabird adapted to foraging with low energetic costs, could be a good predictor of the distribution of their associated predatory species, including other seabirds (e.g. boobies, terns) and subsurface predators (e.g., dolphins, tunas). To test this hypothesis, we compared distribution patterns of marine predators in the Mozambique Channel based on a long-term dataset of both vessel- and aerial surveys, as well as tracking data of frigatebirds. By developing species distribution models (SDMs), we identified key marine areas for tropical predators in relation to contemporaneous oceanographic features to investigate multi-species spatial overlap areas and identify predator hotspots in the Mozambique Channel. SDMs reasonably matched observed patterns and both static (e.g. bathymetry) and dynamic (e.g. Chlorophyll a concentration and sea surface temperature) factors were important explaining predator distribution patterns. We found that the distribution of frigatebirds included the distributions of the associated species. The central part of the channel appeared to be the best habitat for the four groups of species considered in this study (frigatebirds, brown terns, boobies and sub-surface predators).

New Frontiers for Deep Fluids and Geobiology Research in the World's Oldest Rocks

NASA Astrophysics Data System (ADS)

Sherwood Lollar, B.; Li, L.; Wing, B. A.; Warr, O.; Sica, C. S.; Lollar, G. S.; Sutcliffe, N. C.; Telling, J.; Ballentine, C. J.; Giunta, T.; McDermott, J. M.

2016-12-01

Discovery of new environmental systems that facilitate investigation of biodiversity, microbial metabolism, life's adaptation to extreme conditions, and limits to life, have expanded our conception of Earth's habitability and informed search strategies for life elsewhere in the solar system. While chemolithotrophic microbial ecosystems in the marine biosphere have been investigated for decades, the geobiology of terrestrial systems is undergoing a recent expansion, in particular to include the > 70% of the continental lithosphere comprised of Precambrian rocks - the oldest rocks on Earth. Underground research laboratories and mines worldwide provide access to the deep subsurface in Precambrian settings, and targets for investigation of extant microbial ecosystems. Kidd Creek Mine located in Tmmins Ontario on the Canadian Shield is an iconic site. Investigation of fracture fluids here to 3 km revealed H2 production via radiolysis and serpentinization [1]; production of methane and higher hydrocarbons via abiotic organic synthesis [2]; and fracture fluids with mean residence times on the order of a billion years [3]. Recently, investigation of the sulfur cycle in these fluids has revealed a mass independent sulfur isotope signature in the dissolved sulfate, whereby oxidants from radiolysis oxidize Archean sulfide minerals, providing a mechanism to supply both electron donors (H2) and electron acceptors (sulfate) that could fuel a deep microbial biosphere [4]. Recent MPNs results demonstrate the presence of sulfate-reducing bacteria in these waters in the present day. Beginning in 2016 the deep levels at this site are providing access to international teams of researchers to collaborate with the University of Toronto in a multi-year program to characterize the deep CHONS cycles, as terrestrial geobiology continues to expand our understanding of the habitability of the Earth. [1] Sherwood Lollar et al. (2014) Nature 516,379-382. [2] Sherwood Lollar et al. (2002) Nature 416,522-524. [3] Holland et al. (2013) Nature 497,357-360. [4] Li et al. (2016) Nature Communications in press.

Aseptically Sampled Organics in Subsurface Rocks From the Mars Analog Rio Tinto Experiment: An Analog For The Search for Deep Subsurface Life on Mars.}

NASA Astrophysics Data System (ADS)

Bonaccorsi, R.; Stoker, C. R.

2005-12-01

The subsurface is the key environment for searching for life on planets lacking surface life. Subsurface ecosystems are of great relevance to astrobiology including the search for past/present life on Mars. The surface of Mars has conditions preventing current life but the subsurface might preserve organics and even host some life [1]. The Mars-Analog-Rio-Tinto-Experiment (MARTE) is performing a simulation of a Mars drilling experiment. This comprises conventional and robotic drilling of cores in a volcanically-hosted-massive-pyrite deposit [2] from the Iberian Pyritic Belt (IBP) and life detection experiments applying anti-contamination protocols (e.g., ATP Luminometry assay). The RT is considered an important analog of the Sinus Meridiani site on Mars and an ideal model analog for a deep subsurface Martian environment. Former results from MARTE suggest the existence of a relatively complex subsurface life including aerobic and anaerobic chemoautotrophs and strict anaerobic methanogens sustained by Fe and S minerals in anoxic conditions. A key requirement for the analysis of a subsurface sample on Mars is a set of simple tests that can help determine if the sample contains organic material of biological origin, and its potential for retaining definitive biosignatures. We report here on the presence of bulk organic matter Corg (0.03-0.05 Wt%), and Ntot (0.01-0.04 Wt%) and amount of measured ATP (Lightning MVP, Biocontrol) in weathered rocks (tuffs, gossan, pyrite stockwork from Borehole #8; >166m). This provides key insight on the type of trophic system sustaining the subsurface biosphere (i.e., heterotrophs vs. autotrophs) at RT. ATP data (Relative-Luminosity-Units, RLU) provide information on possible contamination and distribution of viable biomass with core depth (BH#8, and BH#7, ~3m). Avg. 153 RLU, i.e., surface vs. center of core, suggest that cleaness/sterility can be maintained when using a simple sterile protocol under field conditions. Results from this research will support future drilling mission planned on Mars. [1] Boston, P.J., et al., 1992. Icarus 95,300-308; [2] Leistel et al., 1998.

Supercritical sedimentary structures and bedforms and criteria for recognition in the field: insights from the Middle Eocene deep-marine Morillo and Guaso systems, Ainsa Basin, Spanish Pyrenees

NASA Astrophysics Data System (ADS)

Torley, John; Pickering, Kevin

2017-04-01

It has long been acknowledged that for most submarine slopes with gradients > 0.5, common to many deep-water environments, they should contain abundant evidence of supercritical flows and their deposits. However, it is common for deep-marine sands/sandstones to be routinely modelled using the Bouma (1962) sequence for turbidites. Recently, the importance of supercritical flows has been highlighted from seafloor observations, with numerical and physical experiments. Such experiments have produced previously unrecognised bedforms which fail to be interpreted adequately by Bouma's model, including antidunes, chutes-and-pools, and cyclic steps. Fieldwork in the Middle Eocene Ainsa Basin, Spanish Pyrenees, has been undertaken in the Morillo and Guaso systems of the Upper Hecho Group. Approximately 5,000 beds were measured and documented in detail, e.g., grain size, sedimentary structures, bedforms and facies. Collectively, this data can be used to understand supercritical versus subcritical flow. The relative importance of supercritical flow can then be compared and contrasted within individual ancient deep-marine systems. The Morillo System is relatively coarse-grained, compared with the Guaso System. The results of this research contribute to an improved understanding of the processes in deep-marine systems, and directly benefit the hydrocarbon industry by providing better constraints to predict deep-water reservoir composition and architecture.

Biodiversity's Big Wet Secret: The Global Distribution of Marine Biological Records Reveals Chronic Under-Exploration of the Deep Pelagic Ocean

PubMed Central

Webb, Thomas J.; Vanden Berghe, Edward; O'Dor, Ron

2010-01-01

Background Understanding the distribution of marine biodiversity is a crucial first step towards the effective and sustainable management of marine ecosystems. Recent efforts to collate location records from marine surveys enable us to assemble a global picture of recorded marine biodiversity. They also effectively highlight gaps in our knowledge of particular marine regions. In particular, the deep pelagic ocean – the largest biome on Earth – is chronically under-represented in global databases of marine biodiversity. Methodology/Principal Findings We use data from the Ocean Biogeographic Information System to plot the position in the water column of ca 7 million records of marine species occurrences. Records from relatively shallow waters dominate this global picture of recorded marine biodiversity. In addition, standardising the number of records from regions of the ocean differing in depth reveals that regardless of ocean depth, most records come either from surface waters or the sea bed. Midwater biodiversity is drastically under-represented. Conclusions/Significance The deep pelagic ocean is the largest habitat by volume on Earth, yet it remains biodiversity's big wet secret, as it is hugely under-represented in global databases of marine biological records. Given both its value in the provision of a range of ecosystem services, and its vulnerability to threats including overfishing and climate change, there is a pressing need to increase our knowledge of Earth's largest ecosystem. PMID:20689845

Characterization of microbial communities in subsurface nuclear blast cavities of the Nevada Test Site

DOE Office of Scientific and Technical Information (OSTI.GOV)

Moser, Duane P; Czerwinski, Ken; Russell, Charles E

2010-07-13

This US Department of Energy (DOE) Environmental Remediation Sciences Project (ERSP) was designed to test fundamental hypotheses concerning the existence and nature of indigenous microbial populations of Nevada Test Site subsurface nuclear test/detonation cavities. Now called Subsurface Biogeochemical Research (SBR), this program's Exploratory Research (ER) element, which funded this research, is designed to support high risk, high potential reward projects. Here, five cavities (GASCON, CHANCELLOR, NASH, ALEMAN, and ALMENDRO) and one tunnel (U12N) were sampled using bailers or pumps. Molecular and cultivation-based techniques revealed bacterial signatures at five sites (CHANCELLOR may be lifeless). SSU rRNA gene libraries contained diverse andmore » divergent microbial sequences affiliated with known metal- and sulfur-cycling microorganisms, organic compound degraders, microorganisms from deep mines, and bacteria involved in selenate reduction and arsenite oxidation. Close relatives of Desulforudis audaxviator, a microorganism thought to subsist in the terrestrial deep subsurface on H2 and SO42- produced by radiochemical reactions, was detected in the tunnel waters. NTS-specific media formulations were used to culture and quantify nitrate-, sulfate-, iron-reducing, fermentative, and methanogenic microorganisms. Given that redox manipulations mediated by microorganisms can impact the mobility of DOE contaminants, our results should have implications for management strategies at this and other DOE sites.« less

Characterization of Microbial Communities in Subsurface Nuclear Blast Cavities of the Nevada Test Site

DOE Office of Scientific and Technical Information (OSTI.GOV)

Moser, Duane P.; Bruckner, Jim; Fisher, Jen

2010-09-01

This U.S. Department of Energy (DOE) Environmental Remediation Sciences Project (ERSP) was designed to test fundamental hypotheses concerning the existence and nature of indigenous microbial populations of Nevada Test Site subsurface nuclear test/detonation cavities. Now called Subsurface Biogeochemical Research (SBR), this program’s Exploratory Research (ER) element, which funded this research, is designed to support high risk, high potential reward projects. Here, five cavities (GASCON, CHANCELLOR, NASH, ALEMAN, and ALMENDRO) and one tunnel (U12N) were sampled using bailers or pumps. Molecular and cultivation-based techniques revealed bacterial signatures at five sites (CHANCELLOR may be lifeless). SSU rRNA gene libraries contained diverse andmore » divergent microbial sequences affiliated with known metal- and sulfur-cycling microorganisms, organic compound degraders, microorganisms from deep mines, and bacteria involved in selenate reduction and arsenite oxidation. Close relatives of Desulforudis audaxviator, a microorganism thought to subsist in the terrestrial deep subsurface on H2 and SO42- produced by radiochemical reactions, was detected in the tunnel waters. NTS-specific media formulations were used to culture and quantify nitrate-, sulfate-, iron-reducing, fermentative, and methanogenic microorganisms. Given that redox manipulations mediated by microorganisms can impact the mobility of DOE contaminants, our results should have implications for management strategies at this and other DOE sites.« less

Differential depth distribution of microbial function and putative symbionts through sediment-hosted aquifers in the deep terrestrial subsurface

DOE Office of Scientific and Technical Information (OSTI.GOV)

Probst, Alexander J.; Ladd, Bethany; Jarett, Jessica K.

An enormous diversity of previously unknown bacteria and archaea has been discovered recently, yet their functional capacities and distributions in the terrestrial subsurface remain uncertain. Here, we continually sampled a CO 2-driven geyser (Colorado Plateau, Utah, USA) over its 5-day eruption cycle to test the hypothesis that stratified, sandstone-hosted aquifers sampled over three phases of the eruption cycle have microbial communities that differ both in membership and function. Genome-resolved metagenomics, single-cell genomics and geochemical analyses confirmed this hypothesis and linked microorganisms to groundwater compositions from different depths. Autotrophic Candidatus “Altiarchaeum sp.” and phylogenetically deep-branching nanoarchaea dominate the deepest groundwater. Amore » nanoarchaeon with limited metabolic capacity is inferred to be a potential symbiont of the Ca. “Altiarchaeum”. Candidate Phyla Radiation bacteria are also present in the deepest groundwater and they are relatively abundant in water from intermediate depths. During the recovery phase of the geyser, microaerophilic Fe- and S-oxidizers have high in situ genome replication rates. Autotrophic Sulfurimonas sustained by aerobic sulfide oxidation and with the capacity for N 2 fixation dominate the shallow aquifer. Overall, 104 different phylum-level lineages are present in water from these subsurface environments, with uncultivated archaea and bacteria partitioned to the deeper subsurface.« less

Differential depth distribution of microbial function and putative symbionts through sediment-hosted aquifers in the deep terrestrial subsurface

DOE PAGES

Probst, Alexander J.; Ladd, Bethany; Jarett, Jessica K.; ...

2018-01-29

An enormous diversity of previously unknown bacteria and archaea has been discovered recently, yet their functional capacities and distributions in the terrestrial subsurface remain uncertain. Here, we continually sampled a CO 2-driven geyser (Colorado Plateau, Utah, USA) over its 5-day eruption cycle to test the hypothesis that stratified, sandstone-hosted aquifers sampled over three phases of the eruption cycle have microbial communities that differ both in membership and function. Genome-resolved metagenomics, single-cell genomics and geochemical analyses confirmed this hypothesis and linked microorganisms to groundwater compositions from different depths. Autotrophic Candidatus “Altiarchaeum sp.” and phylogenetically deep-branching nanoarchaea dominate the deepest groundwater. Amore » nanoarchaeon with limited metabolic capacity is inferred to be a potential symbiont of the Ca. “Altiarchaeum”. Candidate Phyla Radiation bacteria are also present in the deepest groundwater and they are relatively abundant in water from intermediate depths. During the recovery phase of the geyser, microaerophilic Fe- and S-oxidizers have high in situ genome replication rates. Autotrophic Sulfurimonas sustained by aerobic sulfide oxidation and with the capacity for N 2 fixation dominate the shallow aquifer. Overall, 104 different phylum-level lineages are present in water from these subsurface environments, with uncultivated archaea and bacteria partitioned to the deeper subsurface.« less

Subsurface Biodegradation in a Fractured Basement Reservoir, Shropshire, UK

NASA Astrophysics Data System (ADS)

Parnell, John; Baba, Mas'ud; Bowden, Stephen; Muirhead, David

2017-04-01

Subsurface Biodegradation in a Fractured Basement Reservoir, Shropshire, UK. John Parnell, Mas'ud Baba, Stephen Bowden, David Muirhead Subsurface biodegradation in current oil reservoirs is well established, but there are few examples of fossil subsurface degradation. Biomarker compositions of viscous and solid oil residues ('bitumen') in fractured Precambrian and other basement rocks below the Carboniferous cover in Shropshire, UK, show that they are variably biodegraded. High levels of 25-norhopanes imply that degradation occurred in the subsurface. Lower levels of 25-norhopanes occur in active seepages. Liquid oil trapped in fluid inclusions in mineral veins in the fractured basement confirm that the oil was emplaced fresh before subsurface degradation. A Triassic age for the veins implies a 200 million year history of hydrocarbon migration in the basement rocks. The data record microbial colonization of a fractured basement reservoir, and add to evidence in modern basement aquifers for microbial activity in deep fracture systems. Buried basement highs may be especially favourable to colonization, through channelling fluid flow to shallow depths and relatively low temperatures

Selective Phylogenetic Analysis Targeted at 16S rRNA Genes of Thermophiles and Hyperthermophiles in Deep-Subsurface Geothermal Environments

PubMed Central

Kimura, Hiroyuki; Sugihara, Maki; Kato, Kenji; Hanada, Satoshi

2006-01-01

Deep-subsurface samples obtained by deep drilling are likely to be contaminated with mesophilic microorganisms in the drilling fluid, and this could affect determination of the community structure of the geothermal microflora using 16S rRNA gene clone library analysis. To eliminate possible contamination by PCR-amplified 16S rRNA genes from mesophiles, a combined thermal denaturation and enzyme digestion method, based on a strong correlation between the G+C content of the 16S rRNA gene and the optimum growth temperatures of most known prokaryotic cultures, was used prior to clone library construction. To validate this technique, hot spring fluid (76°C) and river water (14°C) were used to mimic a deep-subsurface sample contaminated with drilling fluid. After DNA extraction and PCR amplification of the 16S rRNA genes from individual samples separately, the amplified products from river water were observed to be denatured at 82°C and completely digested by exonuclease I (Exo I), while the amplified products from hot spring fluid remained intact after denaturation at 84°C and enzyme digestion with Exo I. DNAs extracted from the two samples were mixed and used as a template for amplification of the 16S rRNA genes. The amplified rRNA genes were denatured at 84°C and digested with Exo I before clone library construction. The results indicated that the 16S rRNA gene sequences from the river water were almost completely eliminated, whereas those from the hot spring fluid remained. PMID:16391020

Management Plan Report. Unconfined Open-Water Disposal of Dredged Material. Phase 2. (North and South Puget Sound)

DTIC Science & Technology

1989-09-01

depth of 442’ at the center of the disposal zone. The area is subject to weak currents. In general, commercially important marine invertebrate ...Fish and Wildlife Service " Charles Dunn U.S. Fish and Wildlife Service * Rob Jones National Marine Fisheries Service * Dr. Herb Curl National Oceanic...environmental impacts. In the future, for many projects, disposal in deep and relatively deep marine waters is expected to be a preferred option for envirc

Application of the Deep Space Network (DSN) to the testing of general relativity

NASA Technical Reports Server (NTRS)

Anderson, J. D.; Levy, G. S.; Renzetti, N. A.

1986-01-01

The NASA Deep Space Network, a precision telecommunications and radio navigation facility, is described in detail. The first spacecraft relativity test with Mariner 6 and Mariner 7 at solar conjunction is discussed as well as more accurate tests using the Mariner 9 anchored to Mars. Consideration is also given to solar system tests of relativistic celestial mechanics and future prospects. It is noted that the NASA Mars Observer orbital mission is under development and is expected to reach Mars in 1991.

Coupling Genetic and Chemical Microbiome Profiling Reveals Heterogeneity of Archaeome and Bacteriome in Subsurface Biofilms That Are Dominated by the Same Archaeal Species

PubMed Central

Holman, Hoi-Ying N.; DeSantis, Todd Z.; Wanner, Gerhard; Andersen, Gary L.; Perras, Alexandra K.; Meck, Sandra; Völkel, Jörg; Bechtel, Hans A.; Wirth, Reinhard; Moissl-Eichinger, Christine

2014-01-01

Earth harbors an enormous portion of subsurface microbial life, whose microbiome flux across geographical locations remains mainly unexplored due to difficult access to samples. Here, we investigated the microbiome relatedness of subsurface biofilms of two sulfidic springs in southeast Germany that have similar physical and chemical parameters and are fed by one deep groundwater current. Due to their unique hydrogeological setting these springs provide accessible windows to subsurface biofilms dominated by the same uncultivated archaeal species, called SM1 Euryarchaeon. Comparative analysis of infrared imaging spectra demonstrated great variations in archaeal membrane composition between biofilms of the two springs, suggesting different SM1 euryarchaeal strains of the same species at both aquifer outlets. This strain variation was supported by ultrastructural and metagenomic analyses of the archaeal biofilms, which included intergenic spacer region sequencing of the rRNA gene operon. At 16S rRNA gene level, PhyloChip G3 DNA microarray detected similar biofilm communities for archaea, but site-specific communities for bacteria. Both biofilms showed an enrichment of different deltaproteobacterial operational taxonomic units, whose families were, however, congruent as were their lipid spectra. Consequently, the function of the major proportion of the bacteriome appeared to be conserved across the geographic locations studied, which was confirmed by dsrB-directed quantitative PCR. Consequently, microbiome differences of these subsurface biofilms exist at subtle nuances for archaea (strain level variation) and at higher taxonomic levels for predominant bacteria without a substantial perturbation in bacteriome function. The results of this communication provide deep insight into the dynamics of subsurface microbial life and warrant its future investigation with regard to metabolic and genomic analyses. PMID:24971452

Pacing of deep marine sedimentation in the middle Eocene synorogenic Ainsa Basin, Spanish Pyrenees: deconvolving a 6myr record of tectonic and climate controls

NASA Astrophysics Data System (ADS)

Mac Niocaill, C.; Cantalejo, B.; Pickering, K. T.; Grant, M.; Johansen, K.

2016-12-01

The Middle Eocene thrust-top Ainsa Basin of Northern Spain preserves world-class exposures of deep-marine submarine fan and related deposits. Detailed paleomagnetic, micropaleontologic, and time-series analysis enable us to deconvolve, for the first time in any ancient deep-marine basin worldwide, both the pacing on deposition of the fine-grained interfan sediments and the main sandbodies (submarine fans) through the history of the deep-marine basin. Our magnetostratigraphy and faunal constraints provide a chronological framework for sedimentation in the basin. We use time-series analysis of a range of geochemical and sedimentologic data to identify likely climatic signals in the sedimentary archive. This has enabled us to test the likely importance of climate versus tectonics in controlling deposition. We show that the fine-grained interfan sedimentation preserves a dominant Milankovitch-like cyclicity, whereas the sandbodies (fans) reflect a complex interplay of controls such as tectonics and climate in the sediment source area, including shallow-marine staging areas for sediment redeposition into deeper water. These results not only provide critical information about the timing of substantial coarse clastic delivery into the Ainsa Basin but also give constraints on sediment flux over a 6 Myr window.

Use of groundwater lifetime expectancy for the performance assessment of a deep geologic radioactive waste repository: 2. Application to a Canadian Shield environment

NASA Astrophysics Data System (ADS)

Park, Y.-J.; Cornaton, F. J.; Normani, S. D.; Sykes, J. F.; Sudicky, E. A.

2008-04-01

F. J. Cornaton et al. (2008) introduced the concept of lifetime expectancy as a performance measure of the safety of subsurface repositories, on the basis of the travel time for contaminants released at a certain point in the subsurface to reach the biosphere or compliance area. The methodologies are applied to a hypothetical but realistic Canadian Shield crystalline rock environment, which is considered to be one of the most geologically stable areas on Earth. In an approximately 10 × 10 × 1.5 km3 hypothetical study area, up to 1000 major and intermediate fracture zones are generated from surface lineament analyses and subsurface surveys. In the study area, mean and probability density of lifetime expectancy are analyzed with realistic geologic and hydrologic shield settings in order to demonstrate the applicability of the theory and the numerical model for optimally locating a deep subsurface repository for the safe storage of spent nuclear fuel. The results demonstrate that, in general, groundwater lifetime expectancy increases with depth and it is greatest inside major matrix blocks. Various sources and aspects of uncertainty are considered, specifically geometric and hydraulic parameters of permeable fracture zones. Sensitivity analyses indicate that the existence and location of permeable fracture zones and the relationship between fracture zone permeability and depth from ground surface are the most significant factors for lifetime expectancy distribution in such a crystalline rock environment. As a consequence, it is successfully demonstrated that the concept of lifetime expectancy can be applied to siting and performance assessment studies for deep geologic repositories in crystalline fractured rock settings.

New Bio-Indicators for Long Term Natural Attenuation of Monoaromatic Compounds in Deep Terrestrial Aquifers.

PubMed

Aüllo, Thomas; Berlendis, Sabrina; Lascourrèges, Jean-François; Dessort, Daniel; Duclerc, Dominique; Saint-Laurent, Stéphanie; Schraauwers, Blandine; Mas, Johan; Patriarche, Delphine; Boesinger, Cécile; Magot, Michel; Ranchou-Peyruse, Anthony

2016-01-01

Deep subsurface aquifers despite difficult access, represent important water resources and, at the same time, are key locations for subsurface engineering activities for the oil and gas industries, geothermal energy, and CO2 or energy storage. Formation water originating from a 760 m-deep geological gas storage aquifer was sampled and microcosms were set up to test the biodegradation potential of BTEX by indigenous microorganisms. The microbial community diversity was studied using molecular approaches based on 16S rRNA genes. After a long incubation period, with several subcultures, a sulfate-reducing consortium composed of only two Desulfotomaculum populations was observed able to degrade benzene, toluene, and ethylbenzene, extending the number of hydrocarbonoclastic-related species among the Desulfotomaculum genus. Furthermore, we were able to couple specific carbon and hydrogen isotopic fractionation during benzene removal and the results obtained by dual compound specific isotope analysis (C = -2.4‰ ± 0.3‰; H = -57‰ ± 0.98‰; AKIEC: 1.0146 ± 0.0009, and AKIEH: 1.5184 ± 0.0283) were close to those obtained previously in sulfate-reducing conditions: this finding could confirm the existence of a common enzymatic reaction involving sulfate-reducers to activate benzene anaerobically. Although we cannot assign the role of each population of Desulfotomaculum in the mono-aromatic hydrocarbon degradation, this study suggests an important role of the genus Desulfotomaculum as potential biodegrader among indigenous populations in subsurface habitats. This community represents the simplest model of benzene-degrading anaerobes originating from the deepest subterranean settings ever described. As Desulfotomaculum species are often encountered in subsurface environments, this study provides some interesting results for assessing the natural response of these specific hydrologic systems in response to BTEX contamination during remediation projects.

The deep-subsurface sulfate reducer Desulfotomaculum kuznetsovii employs two methanol-degrading pathways.

PubMed

Sousa, Diana Z; Visser, Michael; van Gelder, Antonie H; Boeren, Sjef; Pieterse, Mervin M; Pinkse, Martijn W H; Verhaert, Peter D E M; Vogt, Carsten; Franke, Steffi; Kümmel, Steffen; Stams, Alfons J M

2018-01-16

Methanol is generally metabolized through a pathway initiated by a cobalamine-containing methanol methyltransferase by anaerobic methylotrophs (such as methanogens and acetogens), or through oxidation to formaldehyde using a methanol dehydrogenase by aerobes. Methanol is an important substrate in deep-subsurface environments, where thermophilic sulfate-reducing bacteria of the genus Desulfotomaculum have key roles. Here, we study the methanol metabolism of Desulfotomaculum kuznetsovii strain 17 T , isolated from a 3000-m deep geothermal water reservoir. We use proteomics to analyze cells grown with methanol and sulfate in the presence and absence of cobalt and vitamin B12. The results indicate the presence of two methanol-degrading pathways in D. kuznetsovii, a cobalt-dependent methanol methyltransferase and a cobalt-independent methanol dehydrogenase, which is further confirmed by stable isotope fractionation. This is the first report of a microorganism utilizing two distinct methanol conversion pathways. We hypothesize that this gives D. kuznetsovii a competitive advantage in its natural environment.

Microbial potential for carbon and nutrient cycling in a geogenic supercritical carbon dioxide reservoir

PubMed Central

Freedman, Adam J.E.; Tan, BoonFei

2017-01-01

Summary Microorganisms catalyze carbon cycling and biogeochemical reactions in the deep subsurface and thus may be expected to influence the fate of injected supercritical (sc) CO2 following geological carbon sequestration (GCS). We hypothesized that natural subsurface scCO2 reservoirs, which serve as analogs for the long‐term fate of sequestered scCO2, harbor a ‘deep carbonated biosphere’ with carbon cycling potential. We sampled subsurface fluids from scCO2‐water separators at a natural scCO2 reservoir at McElmo Dome, Colorado for analysis of 16S rRNA gene diversity and metagenome content. Sequence annotations indicated dominance of Sulfurospirillum, Rhizobium, Desulfovibrio and four members of the Clostridiales family. Genomes extracted from metagenomes using homology and compositional approaches revealed diverse mechanisms for growth and nutrient cycling, including pathways for CO2 and N2 fixation, anaerobic respiration, sulfur oxidation, fermentation and potential for metabolic syntrophy. Differences in biogeochemical potential between two production well communities were consistent with differences in fluid chemical profiles, suggesting a potential link between microbial activity and geochemistry. The existence of a microbial ecosystem associated with the McElmo Dome scCO2 reservoir indicates that potential impacts of the deep biosphere on CO2 fate and transport should be taken into consideration as a component of GCS planning and modelling. PMID:28229521

Stratigraphic framework and regional subsurface geology of upper Cretaceous through lower Eocene rocks in Wind River basin, Wyoming

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hogle, D.G.; Jones, R.W.

1989-03-01

A detailed stratigraphic study of over 6000 m of Upper Cretaceous through lower Eocene sedimentary rocks in the Wind River basin. Wyoming, has refined and expanded previous work and conclusions. A much larger data base than previously available was assembled to include a correlation net of 325 geophysical well logs, 36 drill holes with palynological age dates, lithology logs of drill hoes, and limited surface exposures. The most significant results and conclusions from this study are summarized below. (1) The lower part of the Mesaverde Formation intertongues with marine sandstones and shales of the upper Cody Shale to the eastmore » and with marine sandstones of the lower Mesaverde Formation in the Big Horn basin to the north. (2) An unconformity between the Mesaverde and Fort Union Formations in the southwestern part of the basin can be traced into the subsurface. (3) During the latest Cretaceous and Paleocene, over 2100 m of Lance Formation and over 2700 m of Fort Union Formation were deposited in the northeastern part of the basin. Ponding during the Paleocene is demonstrated by correlation and subsurface mapping of over 900 m of shale and siltstone in the Waltman Shale Member of the Fort Union Formation. (4) The Lance and Fort Union Formations can be mapped in the subsurface throughout much of the basin. The Lance Formation pinches out in the western part of the basin. (5) Coal beds can be traced for short distances in the subsurface; coal bed occurrence is documented for the Mesaverde, lower Fort Union, and Meeteetse Formations in the southwestern, northern and central, and northwestern parts of the basin, respectively.« less

How to Access and Sample the Deep Subsurface of Mars

NASA Technical Reports Server (NTRS)

Briggs, G.; Blacic, J.; Dreesen, D.; Mockler, T.

2000-01-01

We are developing a technology roadmap to support a series of Mars lander missions aimed at successively deeper and more comprehensive explorations of the Martian subsurface. The proposed mission sequence is outlined. Key to this approach is development of a drilling and sampling technology robust and flexible enough to successfully penetrate the presently unknown subsurface geology and structure. Martian environmental conditions, mission constraints of power and mass and a requirement for a high degree of automation all limit applicability of many proven terrestrial drilling technologies. Planetary protection and bioscience objectives further complicate selection of candidate systems. Nevertheless, recent advances in drilling technologies for the oil & gas, mining, underground utility and other specialty drilling industries convinces us that it will be possible to meet science and operational objectives of Mars subsurface exploration.

Hamacanthins A and B, new antifungal bis indole alkaloids from the deep-water marine sponge, Hamacantha sp.

PubMed

Gunasekera, S P; McCarthy, P J; Kelly-Borges, M

1994-10-01

Hamacanthin A [1] and hamacanthin B [2] are two bioactive dihydropyrazinonediylbis(indole) alkaloids isolated from a new species of deep-water marine sponge, Hamacantha sp. The hamacanthins are growth inhibitors of Candida albicans and Cryptococcus neoformans. Isolation and structure elucidation of 1 and 2 by nmr spectroscopy are described.

Discobahamins A and B, new peptides from the Bahamian deep water marine sponge Discodermia sp.

PubMed

Gunasekera, S P; Pomponi, S A; McCarthy, P J

1994-01-01

Discobahamin A [1] and discobahamin B [2] are two bioactive peptides isolated from a new species of the Bahamian deep water marine sponge Discodermia. The discobahamins are inhibitors of the growth of Candida albicans, and the isolation and structure elucidation of 1 and 2 by nmr and chemical methods is described.

Ophirapstanol trisulfate, a new biologically active steroid sulfate from the deep water marine sponge Topsentia ophiraphidites.

PubMed

Gunasekera, S P; Sennett, S H; Kelly-Borges, M; Bryant, R W

1994-12-01

Ophirapstanol trisulfate [1], a new steroid trisulfate related to sokotrasterol trisulfate was isolated from a deep water marine sponge Topsentia ophiraphidites. Compound 1 exhibited significant inhibition in the guanosine diphosphate/G-protein RAS exchange assay. The structure elucidation of 1 and ophirapstanol [2] by nmr spectroscopy is described.

Revealing the unexplored fungal communities in deep groundwater of crystalline bedrock fracture zones in Olkiluoto, Finland.

PubMed

Sohlberg, Elina; Bomberg, Malin; Miettinen, Hanna; Nyyssönen, Mari; Salavirta, Heikki; Vikman, Minna; Itävaara, Merja

2015-01-01

The diversity and functional role of fungi, one of the ecologically most important groups of eukaryotic microorganisms, remains largely unknown in deep biosphere environments. In this study we investigated fungal communities in packer-isolated bedrock fractures in Olkiluoto, Finland at depths ranging from 296 to 798 m below surface level. DNA- and cDNA-based high-throughput amplicon sequencing analysis of the fungal internal transcribed spacer (ITS) gene markers was used to examine the total fungal diversity and to identify the active members in deep fracture zones at different depths. Results showed that fungi were present in fracture zones at all depths and fungal diversity was higher than expected. Most of the observed fungal sequences belonged to the phylum Ascomycota. Phyla Basidiomycota and Chytridiomycota were only represented as a minor part of the fungal community. Dominating fungal classes in the deep bedrock aquifers were Sordariomycetes, Eurotiomycetes, and Dothideomycetes from the Ascomycota phylum and classes Microbotryomycetes and Tremellomycetes from the Basidiomycota phylum, which are the most frequently detected fungal taxa reported also from deep sea environments. In addition some fungal sequences represented potentially novel fungal species. Active fungi were detected in most of the fracture zones, which proves that fungi are able to maintain cellular activity in these oligotrophic conditions. Possible roles of fungi and their origin in deep bedrock groundwater can only be speculated in the light of current knowledge but some species may be specifically adapted to deep subsurface environment and may play important roles in the utilization and recycling of nutrients and thus sustaining the deep subsurface microbial community.

Viral infections as controlling factors for the deep biosphere? (Invited)

NASA Astrophysics Data System (ADS)

Engelen, B.; Engelhardt, T.; Sahlberg, M.; Cypionka, H.

2009-12-01

The marine deep biosphere represents the largest biotope on Earth. Throughout the last years, we have obtained interesting insights into its microbial community composition. However, one component that was completely overlooked so far is the viral inventory of deep-subsurface sediments. While viral infections were identified to have a major impact on the benthic microflora of deep-sea surface sediments (Danavaro et al. 2008), no studies were performed on deep-biosphere samples, so far. As grazers probably play only a minor role in anoxic and highly compressed deep sediments, viruses might be the main “predators” for indigenous microorganisms. Furthermore, the release of cell components, called “the viral shunt”, could have a major impact on the deep biosphere in providing labile organic compounds to non-infected microorganisms in these generally nutrient depleted sediments. However, direct counting of viruses in sediments is highly challenging due to the small size of viruses and the high background of small particles. Even molecular surveys using “universal” PCR primers that target phage-specific genes fail due to the vast phage diversity. One solution for this problem is the lysogenic viral life cycle as many bacteriophages integrate their DNA into the host genome. It is estimated that up to 70% of cultivated bacteria contain prophages within their genome. Therefore, culture collections (Batzke et al. 2007) represent an archive of the viral composition within the respective habitat. These prophages can be induced to become free phage particles in stimulation experiments in which the host cells are set under certain stress situations such as a treatment with UV exposure or DNA-damaging antibiotics. The study of the viral component within the deep biosphere offers to answer the following questions: To which extent are deep-biosphere populations controlled by viral infections? What is the inter- and intra-specific diversity and the host-specific viral biogeography? Can viral infections tell us something about the physiological state of indigenous microorganisms? Finally, we will obtain estimates for the viral shunt as an important factor for sustaining the deep biosphere. References: Batzke A, Engelen B, Sass H, Cypionka H (2007) Phylogenetic and physiological diversity of cultured deep-biosphere bacteria from Equatorial Pacific Ocean and Peru Margin sediments. Geomicrobiology J 24:261-273 Danovaro R, Dell'Anno A, Corinaldesi C, Magagnini M, Noble R, Tamburini C, Weinbauer M (2008) Major viral impact on the functioning of benthic deep-sea ecosystems. Nature 454: 1084-U1027.

Reconstructing a hydrogen-driven microbial metabolic network in Opalinus Clay rock

DOE PAGES

Bagnoud, Alexandre; Chourey, Karuna; Hettich, Robert L.; ...

2016-10-14

A significant fraction (~ 20%) of microbial life is found in the terrestrial deep subsurface, yet the metabolic processes extant in those environments are poorly understood. Here we show that H 2, injected into the Opalinus Clay formation in a borehole located 300 meters below the surface, fuels a community of microorganisms with interconnected metabolisms. Metagenomic binning and metaproteomic analysis reveal a complete carbon cycle, driven by autotrophic hydrogen oxidizers. Dead biomass from these organisms is a substrate for a fermenting bacterium that produces acetate as a product. In turn, complete oxidizer heterotrophic sulfate- reducing bacteria utilize acetate and oxidizemore » it to CO 2, closing the cycle. This metabolic reconstruction sheds light onto a hydrogen-driven carbon cycle, and a sunlight-independent ecosystem in the deep subsurface.« less

Controls on radium transport by adsorption to iron minerals

NASA Astrophysics Data System (ADS)

Chen, M.; Wang, T.; Kocar, B. D.

2015-12-01

Radium is a naturally occurring radioactive metal found in many subsurface environments. Radium isotopes are generated by uranium and thorium decay, and are particularly abundant within groundwaters where minimal porewater flux leads to accumulation. These isotopes are used as natural tracers for estimating submarine groundwater discharge (SGD) [1], allowing for large scale estimation of GW fluxes into and out of the ocean [2]. They also represent a substantial hazard in wastewater produced after hydraulic fracturing for natural gas extraction [3], resulting in a significant risk of environmental release to surface and near-surface waters, and increased cost for water treatment or disposal. Adsorption to mineral surfaces represents a dominant pathway of radium retention in subsurface environments. For SGD studies, adsorption processes impact estimates of GW fluxes, while in hydraulic fracturing, radium adsorption to aquifer solids mediates wastewater radium activities. Analysis of past sorption studies revealed large variability in partition coefficients [4], while examination of radium adsorption kinetics and surface complexation have only recently started [5]. Accordingly, we present the results of sorption and column experiments of radium with a suite of iron minerals representative of those found within deep saline and near-surface (freshwater) aquifers, and evaluate impacts of varying salinity solutions through artificial waters. Further, we explore the impacts of pyrite oxidation and ferrihydrite transformation to other iron-bearing secondary minerals on the transport and retention of radium. These results will provide critical information on the mineralogical controls on radium retention in subsurface environments, and will therefore improve predictions of radium groundwater transport in natural and contaminated systems. [1] Charette, M.A., Buesseler, K.O. & Andrews, J.E., Limnol. Oceanogr. (2001). [2] Moore, W.S., Ann. Rev. Mar. Sci. (2010). [3] Vengosh, A. et al. Environ. Sci. Technol., (2014). [4] Beck, A., Cochran, M., Marine Chem., (2013). [5] Sajih, M. et al. Geochim. Cosmochim. AC. (2014).

Parametrization and evaluation of marine environmental impacts produced by deep-sea manganese nodule mining

NASA Astrophysics Data System (ADS)

Oebius, Horst U.; Becker, Hermann J.; Rolinski, Susanne; Jankowski, Jacek A.

The evaluation of marine environmental impacts resulting from the exploitation of marine resources requires the numerical description, parametrization, and modelling of such processes in order to be able to transfer, compare, and forecast the effects of anthropogenic activities in the deep sea. One of the controversial effects is the formation and behaviour of sediment clouds as a consequence of anthropogenic activities on the seafloor. Since there is a need for reliable data, two subprojects of the "Interdisciplinary Deep-sea Environmental Protection Group (TUSCH)"-project "Impacts from Technical Activities on the Deep-Sea Ecosystem of the South East Pacific Offshore Peru (ATESEPP)" were devoted to the assembly of such data. Based on the German technical approach for deep-sea mining, the possible environmental impacts by a miner were estimated, the impacts on the seafloor were simulated and investigated by tests with large volume undisturbed sediment samples on board the research vessel and in the laboratory, and the results were evaluated and extrapolated. This report gives a comprehensive presentation of the physical problems, the technical approach, and the results of these investigations.

Trace Element and Cu Isotopic Tracers of Subsurface Flow and Transport in Wastewater Irrigated Soils

NASA Astrophysics Data System (ADS)

Carte, J.; Fantle, M. S.

2017-12-01

An understanding of subsurface flow paths is critical for quantifying the fate of contaminants in wastewater irrigation systems. This study investigates the subsurface flow of wastewater by quantifying the distribution of trace contaminants in wastewater irrigated soils. Soil samples were collected from the upper 1m of two wetlands at Penn State University's wastewater irrigation site, at which all effluent from the University's wastewater treatment plant has been sprayed since 1983. Major and trace element and Cu isotopic composition were determined for these samples, in addition to wastewater effluent and bedrock samples. The upper 20 cm of each wetland shows an enrichment of Bi, Cd, Cr, Cu, Mo, Ni, Pb, and Zn concentrations relative to deep (>1m) soils at the site by a factor of 1.7-3.5. Each wetland also has a subsurface clay rich horizon with Bi, Cu, Li, Ni, Pb, and Zn concentrations enriched by a factor of 1.4 to 5 relative to deep soils. These subsurface horizons directly underlie intervals that could facilitate preferential effluent flow: a gravel layer in one wetland, and a silty loam with visible mottling, an indication of dynamic water saturation, in the other. Trace metal concentrations in other horizons from both wetlands fall in the range of the deep soils. Significant variability in Cu isotopic composition is present in soils from both wetlands, with δ65Cu values ranging from 0.74‰ to 5.09‰. Soil δ65Cu correlates well with Cu concentrations, with lighter δ65Cu associated with higher concentrations. The Cu isotopic composition of the zones of metal enrichment are comparable to the ostensible average wastewater effluent δ65Cu value (0.61‰), while other horizons have considerably heavier δ65Cu values. We hypothesize that wastewater is the source of the metal enrichments, as each of the enriched elements are present as contaminants in wastewater, and the enrichments are located in clay-rich horizons conducive to trace metal immobilization due to adsorption. This hypothesis will be further tested by modeling with the reactive transport code CrunchTope. This study provides evidence that trace element and isotopic composition of soils can be useful tracers of subsurface hydrologic pathways and elemental fate and transport.

Arabian Sea

Atmospheric Science Data Center

2013-04-16

... sometimes results in copious phytoplankton production and oxygen depletion of the subsurface waters. Although red phytoplankton fluorescences have been associated with the low oxygen concentrations in the intermediate and deep waters of the Arabian Sea, ...

A late eocene-early Oligocene transgressive event in the Golfo San Jorge basin: Palynological results and stratigraphic implications

NASA Astrophysics Data System (ADS)

Paredes, José M.; Foix, Nicolás; Guerstein, G. Raquel; Guler, María V.; Irigoyen, Martín; Moscoso, Pablo; Giordano, Sergio

2015-11-01

A new Cenozoic dataset in the subsurface of the South Flank of the Golfo San Jorge Basin (Santa Cruz province) allowed to identify a non-previously recognized transgressive event of late Eocene to early Oligocene age. Below of a marine succession containing a dinoflagellate cyst assemblage that characterizes the C/G palynological zone of the Chenque Formation (early Miocene), a 80-110 m thick marine succession contains a palynological assemblage integrated by Gelatia inflata, Diphyes colligerum and Reticulatosphaera actinocoronata supporting the occurrence of a marine incursion in the basin during the Eocene-Oligocene transition (EOT). The new lithostratigraphic unit - here defined as El Huemul Formation - covers in sharp contact to the Sarmiento Formation, and become thinner from East to West; the unit has been identified in about 1800 well logs covering up to 3500 km2, and its subsurface distribution exceed the boundaries of the study area. The El Huemul Formation consists of a thin lag of glauconitic sandstones with fining-upward log motif, followed by a mudstone-dominated succession that coarsening-upward to sandstones, evidencing a full T-R cycle. Preservation of the El Huemul Formation in the subsurface of the South Flank has been favored by the reactivation of WNW-ESE late Cretaceous normal faults, and by the generation of N-S striking normal faults of Paleocene-Eocene age. Flexural loading associated to igneous intrusions of Paleocene?- middle Eocene age also promoted the increase of subsidence in the South Flank of the basin prior to the transgression.

Poroelastic Parameters of Peru Margin Sediments: Implications for Flow and Transport at Multiple Scales in the Marine Biosphere

NASA Astrophysics Data System (ADS)

Gettemy, G. L.; Cikoski, C.; Tobin, H. J.

2004-12-01

As part of a broader investigation of the deep marine subsurface environment, the first biosphere-focused drilling expedition, Leg 201, of the Ocean Drilling Program (ODP) occupied five unique sites in the Peru Margin (in a 1200 km2 region centered at 10 S, 80E). These sites represent the entire range of shallow biogeological conditions associated with this convergent margin:deep-water, mixed clay-pelagic sediments ocean-ward of the trench; slope-apron and prism toe sediments at the deformation front; and several distinct lithostratigraphic sequences on the continental shelf. Microbial enumeration and pore-water geochemistry results show that each particular site is both consistent and unique--consistent in terms of general biotic quantity and activity as predicted by energy flux and redox potential given the depositional environment and sedimentary record, but unique at key biogeological boundaries such as lithologic and/or physical property interfaces. This research addresses questions related to our understanding of how and why these boundaries form by looking at poroelastic and hydrologic parameters measured at multiple scales, from sub-millimeter to several centimeters. The issue of measurement scale, especially in regard to permeability and diffusivity characterization, is vital to interpreting observations of biologically-mediated diagenetic fronts (e.g., dolomitic lenses, depth- or time-varying barite fronts). These parameters are derived from (i) hydrologic and wave propagation experiments, (ii) SEM images, and (iii) shipboard split-core measurements, and structured in a modified Biot poroelasticity framework. This approach also allows quantification of the local heterogeneity of these parameters at the scale applicable to (and controlled by) microbial life; these results can then be used to formulate predictive models of the impact of biogeochemical processes. Ultimately, these models could then be used in interpretation of new remote-sensed data (e.g., from borehole tools, high-frequency backscatter devices), a fundamental challenge for all types of biospheric imaging everywhere.

Geophysical characterization of Range-Front Faults, Snake Valley, Nevada

USGS Publications Warehouse

Asch, Theodore H.; Sweetkind, Donald S.

2010-01-01

In September 2009, the U.S. Geological Survey, in cooperation with the National Park Service, collected audiomagnetotelluric (AMT) data along two profiles on the eastern flank of the Snake Range near Great Basin National Park to refine understanding of the subsurface geology. Line 1 was collected along Baker Creek, was approximately 6.7-km long, and recorded subsurface geologic conditions to approximately 800-m deep. Line 2, collected farther to the southeast in the vicinity of Kious Spring, was 2.8-km long, and imaged to depths of approximately 600 m. The two AMT lines are similar in their electrical response and are interpreted to show generally similar subsurface geologic conditions. The geophysical response seen on both lines may be described by three general domains of electrical response: (1) a shallow (mostly less than 100-200-m deep) domain of highly variable resistivity, (2) a deep domain characterized by generally high resistivity that gradually declines eastward to lower resistivity with a steeply dipping grain or fabric, and (3) an eastern domain in which the resistivity character changes abruptly at all depths from that in the western domain. The shallow, highly variable domain is interpreted to be the result of a heterogeneous assemblage of Miocene conglomerate and incorporated megabreccia blocks overlying a shallowly eastward-dipping southern Snake Range detachment fault. The deep domain of generally higher resistivity is interpreted as Paleozoic sedimentary rocks (Pole Canyon limestone and Prospect Mountain Quartzite) and Mesozoic and Cenozoic plutonic rocks occurring beneath the detachment surface. The range of resistivity values within this deep domain may result from fracturing adjacent to the detachment, the presence of Paleozoic rock units of variable resistivities that do not crop out in the vicinity of the lines, or both. The eastern geophysical domain is interpreted to be a section of Miocene strata at depth, overlain by Quaternary alluvial fill. These deposits lie east of a steeply east-dipping normal fault that cuts all units and has about 100 m of east-side-down offset.

Reactivation of Deep Subsurface Microbial Community in Response to Methane or Methanol Amendment

PubMed Central

Rajala, Pauliina; Bomberg, Malin

2017-01-01

Microbial communities in deep subsurface environments comprise a large portion of Earth’s biomass, but the microbial activity in these habitats is largely unknown. Here, we studied how microorganisms from two isolated groundwater fractures at 180 and 500 m depths of the Outokumpu Deep Drillhole (Finland) responded to methane or methanol amendment, in the presence or absence of sulfate as an additional electron acceptor. Methane is a plausible intermediate in the deep subsurface carbon cycle, and electron acceptors such as sulfate are critical components for oxidation processes. In fact, the majority of the available carbon in the Outokumpu deep biosphere is present as methane. Methanol is an intermediate of methane oxidation, but may also be produced through degradation of organic matter. The fracture fluid samples were incubated in vitro with methane or methanol in the presence or absence of sulfate as electron acceptor. The metabolic response of microbial communities was measured by staining the microbial cells with fluorescent redox sensitive dye combined with flow cytometry, and DNA or cDNA-derived amplicon sequencing. The microbial community of the fracture zone at the 180 m depth was originally considerably more respiratory active and 10-fold more numerous (105 cells ml-1 at 180 m depth and 104 cells ml-1 at 500 m depth) than the community of the fracture zone at the 500 m. However, the dormant microbial community at the 500 m depth rapidly reactivated their transcription and respiration systems in the presence of methane or methanol, whereas in the shallower fracture zone only a small sub-population was able to utilize the newly available carbon source. In addition, the composition of substrate activated microbial communities differed at both depths from original microbial communities. The results demonstrate that OTUs representing minor groups of the total microbial communities play an important role when microbial communities face changes in environmental conditions. PMID:28367144

Effectiveness of Hydraulic Parameterization Strategies for Simulating Moisture Dynamics in a Deep Semi-Arid Vadose Zone

NASA Astrophysics Data System (ADS)

Zhang, Y.; Schaap, M. G.

2012-12-01

Over the past fifteen years, the University of Arizona has carried out four controlled infiltration experiments in a 3600 m2, 15 meter deep vadose zone (Maricopa, Arizona) in which the evolution of moisture content (9 wells, 25 cm resolution), and matric potential (27 locations) was monitored and the subsurface stratigraphy, texture (1042 samples), and bulk density (251 samples) was characterized. In order to simulate the subsurface moisture dynamics it is necessary to define the 3D structure of the subsurface hydraulic characteristics (i.e. moisture retention and hydraulic functions). Several simple to complex strategies are possible ranging from stratigraphy based layering using hydraulic parameters derived from core samples to sophisticated numerical inversions based on 3D geostatistics and site-specific pedotransfer functions. A range of approaches will be evaluated on objective metrics that quantify how well the observed moisture dynamics are matched by simulations. We will evaluate the worth of auxiliary data such as observed matric potentials and quantity the number of texture samples needed to arrive at effective descriptions of subsurface structure. In addition, we will discuss more subjective metrics that evaluate the relative effort involved and estimate monetary cost of each method. While some of the results will only be valid for the studied site, some general conclusions will be possible about the effectiveness of particular methods for other semi-arid sites.

Aromatic-degrading Sphingomonas isolates from the deep subsurface

DOE Office of Scientific and Technical Information (OSTI.GOV)

Fredrickson, J.K.; Romine, M.F.; Balkwill, D.L.

An obligately aerobic chemoheterotrophic bacterium (strain F199) previously isolated from Southeast Coastal Plain subsurface sediments and shown to degrade toluene, naphthalene, and other aromatic compounds was characterized by analysis of its 16S rRNA nucleotide base sequence and cellular lipid composition. Strain F199 contained 2-OH14:0 and 18:1{omega}7c as the predominant cellular fatty acids and sphingolipids that are characteristic of the genus Sphingomonas. Phylogenetic analysis of its 16SrRNA sequence indicated that F199 was most closely related to Sphingomonas capsulata among the bacteria currently in the Ribosomal Database. Five additional isolates from deep Southeast Coastal Plain sediments were determined by 16S rRNA sequencemore » analysis to be closely related to F199. These strains also contained characteristic sphingolipids. Four of these five strains could also grow on a broad range of aromatic compounds and could mineralize [{sup 14C}]toluene and [{sup 14C}]naphthalene. S. capsulata (ATCC 14666), Sphingomonas paucimobiolis (ATCC 29837), and one of the subsurface isolates were unable to grow on any of the aromatic compounds or mineralize toluene or naphthalene. These results indicate that bacteria within the genus Sphingomonas are present in Southeast Coastal Plain subsurface sediments and that the capacity for degrading a broad range of substituted aromatic compounds appears to be common among Sphingomonas species from this environment. 41 refs., 2 figs., 5 tabs.« less

Low endemism, continued deep-shallow interchanges, and evidence for cosmopolitan distributions in free-living marine nematodes (order Enoplida)

PubMed Central

2010-01-01

Background Nematodes represent the most abundant benthic metazoa in one of the largest habitats on earth, the deep sea. Characterizing major patterns of biodiversity within this dominant group is a critical step towards understanding evolutionary patterns across this vast ecosystem. The present study has aimed to place deep-sea nematode species into a phylogenetic framework, investigate relationships between shallow water and deep-sea taxa, and elucidate phylogeographic patterns amongst the deep-sea fauna. Results Molecular data (18 S and 28 S rRNA) confirms a high diversity amongst deep-sea Enoplids. There is no evidence for endemic deep-sea lineages in Maximum Likelihood or Bayesian phylogenies, and Enoplids do not cluster according to depth or geographic location. Tree topologies suggest frequent interchanges between deep-sea and shallow water habitats, as well as a mixture of early radiations and more recently derived lineages amongst deep-sea taxa. This study also provides convincing evidence of cosmopolitan marine species, recovering a subset of Oncholaimid nematodes with identical gene sequences (18 S, 28 S and cox1) at trans-Atlantic sample sites. Conclusions The complex clade structures recovered within the Enoplida support a high global species richness for marine nematodes, with phylogeographic patterns suggesting the existence of closely related, globally distributed species complexes in the deep sea. True cosmopolitan species may additionally exist within this group, potentially driven by specific life history traits of Enoplids. Although this investigation aimed to intensively sample nematodes from the order Enoplida, specimens were only identified down to genus (at best) and our sampling regime focused on an infinitesimal small fraction of the deep-sea floor. Future nematode studies should incorporate an extended sample set covering a wide depth range (shelf, bathyal, and abyssal sites), utilize additional genetic loci (e.g. mtDNA) that are informative at the species level, and apply high-throughput sequencing methods to fully assay community diversity. Finally, further molecular studies are needed to determine whether phylogeographic patterns observed in Enoplids are common across other ubiquitous marine groups (e.g. Chromadorida, Monhysterida). PMID:21167065

Genomic variation of subseafloor archaeal and bacterial populations from venting fluids at the Mid-Cayman Rise

NASA Astrophysics Data System (ADS)

Anderson, R. E.; Eren, A. M.; Stepanauskas, R.; Huber, J. A.; Reveillaud, J.

2015-12-01

Deep-sea hydrothermal vent systems serve as windows to a dynamic, gradient-dominated deep biosphere that is home to a wide diversity of archaea, bacteria, and viruses. Until recently the majority of these microbial lineages were uncultivated, resulting in a poor understanding of how the physical and geochemical context shapes microbial evolution in the deep subsurface. By comparing metagenomes, metatranscriptomes and single-cell genomes between geologically distinct vent fields, we can better understand the relationship between the environment and the evolution of subsurface microbial communities. An ideal setting in which to use this approach is the Mid-Cayman Rise, located on the world's deepest and slowest-spreading mid-ocean ridge, which hosts both the mafic-influenced Piccard and ultramafic-influenced Von Damm vent fields. Previous work has shown that Von Damm has higher taxonomic and metabolic diversity than Piccard, consistent with geochemical model expectations, and the fluids from all vents are enriched in hydrogen (Reveillaud et al., submitted). Mapping of both metagenomes and metatranscriptomes to a combined assembly showed very little overlap among the Von Damm samples, indicating substantial variability that is consistent with the diversity of potential metabolites in this ultramafic vent field. In contrast, the most consistently abundant and active lineage across the Piccard samples was Sulfurovum, a sulfur-oxidizing chemolithotroph that uses nitrate or oxygen as an electron acceptor. Moreover, analysis of point mutations within individual lineages suggested that Sulfurovumat Piccard is under strong selection, whereas microbial genomes at Von Damm were more variable. These results are consistent with the hypothesis that the subsurface environment at Piccard supports the emergence of a dominant lineage that is under strong selection pressure, whereas the more geochemically diverse microbial habitat at Von Damm creates a wider variety of stable ecological niches, facilitating higher diversity both within and between microbial lineages. By examining how the environment is imprinted into microbial genomes, we hope to gain insight into how subsurface microbial communities co-evolve with their environment in both the present and the deep past.

ANME-2D Archaea Catalyze Methane Oxidation in Deep Subsurface Sediments Independent of Nitrate Reduction

NASA Astrophysics Data System (ADS)

Hernsdorf, A. W.; Amano, Y.; Suzuki, Y.; Ise, K.; Thomas, B. C.; Banfield, J. F.

2015-12-01

Terrestrial sediments are an important global reservoir for methane. Microorganisms in the deep subsurface play a critical role in the methane cycle, yet much remains to be learned about their diversity and metabolisms. To provide more comprehensive insight into the microbiology of the methane cycle in the deep subsurface, we conducted a genome-resolved study of samples collected from the Horonobe Underground Research Laboratory (HURL), Japan. Groundwater samples were obtained from three boreholes from a depth range of between 140 m and 250 m in two consecutive years. Groundwater was filtered and metagenomic DNA extracted and sequenced, and the sequence data assembled. Based on the sequences of phylogenetically informative genes on the assembled fragments, we detected a high degree of overlap in community composition across a vertical transect within one borehole at the two sampling times. However, there was comparatively little similarity observed among communities across boreholes. Spatial and temporal abundance patterns were used in combination with tetranucleotide signatures of assembled genome fragments to bin the data and reconstruct over 200 unique draft genomes, of which 137 are considered to be of high quality (>90% complete). The deepest samples from one borehole were highly dominated by an archaeon identified as ANME-2D; this organism was also present at lower abundance in all other samples from that borehole. Also abundant in these microbial communities were novel members of the Gammaproteobacteria, Saccharibacteria (TM7) and Tenericute phyla. Notably, a ~2 Mbp draft genome for the ANME-2D archaeon was reconstructed. As expected, the genome encodes all of the genes predicted to be involved in the reverse methanogenesis pathway. In contrast with the previously reported ANME2-D genome, the HURL ANME-2D genome lacks the capacity to reduce nitrate. However, we identified many multiheme cytochromes with closest similarity to those of the known Fe-reducing/oxidizing archaeon Ferroglobus placidus. Thus, we suggest that ANME2-D may couple methane oxidation to reduction of ferric iron minerals in the sediment and may be generally important as a link between the iron and methane cycles in deep subsurface environments. Such information has important implications for modeling the global carbon cycle.

Cultivating the Deep Subsurface Microbiome

NASA Astrophysics Data System (ADS)

Casar, C. P.; Osburn, M. R.; Flynn, T. M.; Masterson, A.; Kruger, B.

2017-12-01

Subterranean ecosystems are poorly understood because many microbes detected in metagenomic surveys are only distantly related to characterized isolates. Cultivating microorganisms from the deep subsurface is challenging due to its inaccessibility and potential for contamination. The Deep Mine Microbial Observatory (DeMMO) in Lead, SD however, offers access to deep microbial life via pristine fracture fluids in bedrock to a depth of 1478 m. The metabolic landscape of DeMMO was previously characterized via thermodynamic modeling coupled with genomic data, illustrating the potential for microbial inhabitants of DeMMO to utilize mineral substrates as energy sources. Here, we employ field and lab based cultivation approaches with pure minerals to link phylogeny to metabolism at DeMMO. Fracture fluids were directed through reactors filled with Fe3O4, Fe2O3, FeS2, MnO2, and FeCO3 at two sites (610 m and 1478 m) for 2 months prior to harvesting for subsequent analyses. We examined mineralogical, geochemical, and microbiological composition of the reactors via DNA sequencing, microscopy, lipid biomarker characterization, and bulk C and N isotope ratios to determine the influence of mineralogy on biofilm community development. Pre-characterized mineral chips were imaged via SEM to assay microbial growth; preliminary results suggest MnO2, Fe3O4, and Fe2O3 were most conducive to colonization. Solid materials from reactors were used as inoculum for batch cultivation experiments. Media designed to mimic fracture fluid chemistry was supplemented with mineral substrates targeting metal reducers. DNA sequences and microscopy of iron oxide-rich biofilms and fracture fluids suggest iron oxidation is a major energy source at redox transition zones where anaerobic fluids meet more oxidizing conditions. We utilized these biofilms and fluids as inoculum in gradient cultivation experiments targeting microaerophilic iron oxidizers. Cultivation of microbes endemic to DeMMO, a system locally dominated by unclassified and candidate phyla, has the potential to yield novel subsurface organisms with unique physiologies. We intend to further utilize subsurface isolates to probe the effects of geochemical perturbations on biosignatures in future studies, thus broadening our understanding of subterranean ecosystems.

Subsurface North Atlantic warming as a trigger of rapid cooling events: evidences from the Early Pleistocene (MIS 31-19)

NASA Astrophysics Data System (ADS)

Hernández-Almeida, I.; Sierro, F.-J.; Cacho, I.; Flores, J.-A.

2014-10-01

Subsurface water column dynamics in the subpolar North Atlantic were reconstructed in order to improve the understanding of the cause of abrupt IRD events during cold periods of the Early Pleistocene. We used Mg / Ca-based temperatures of deep-dwelling (Neogloboquadrina pachyderma sinistral) planktonic foraminifera and paired Mg / Ca-δ18O measurements to estimate the subsurface temperatures and δ18O of seawater at Site U1314. Carbon isotopes on benthic and planktonic foraminifera from the same site provide information about the ventilation and water column nutrient gradient. Mg / Ca-based temperatures and δ18O of seawater suggest increased temperatures and salinities during ice-rafting, likely due to enhanced northward subsurface transport of subtropical waters during periods of AMOC reduction. Planktonic carbon isotopes support this suggestion, showing coincident increased subsurface ventilation during deposition of ice-rafted detritus (IRD). Warm waters accumulated at subsurface would result in basal warming and break-up of ice-shelves, leading to massive iceberg discharges in the North Atlantic. Release of heat and salt stored at subsurface would help to restart the AMOC. This mechanism is in agreement with modelling and proxy studies that observe a subsurface warming in the North Atlantic in response to AMOC slowdown during the MIS3.

Bacterial communities associated with subsurface geochemical processes in continental serpentinite springs.

PubMed

Brazelton, William J; Morrill, Penny L; Szponar, Natalie; Schrenk, Matthew O

2013-07-01

Reactions associated with the geochemical process of serpentinization can generate copious quantities of hydrogen and low-molecular-weight organic carbon compounds, which may provide energy and nutrients to sustain subsurface microbial communities independently of the photosynthetically supported surface biosphere. Previous microbial ecology studies have tested this hypothesis in deep sea hydrothermal vents, such as the Lost City hydrothermal field. This study applied similar methods, including molecular fingerprinting and tag sequencing of the 16S rRNA gene, to ultrabasic continental springs emanating from serpentinizing ultramafic rocks. These molecular surveys were linked with geochemical measurements of the fluids in an interdisciplinary approach designed to distinguish potential subsurface organisms from those derived from surface habitats. The betaproteobacterial genus Hydrogenophaga was identified as a likely inhabitant of transition zones where hydrogen-enriched subsurface fluids mix with oxygenated surface water. The Firmicutes genus Erysipelothrix was most strongly correlated with geochemical factors indicative of subsurface fluids and was identified as the most likely inhabitant of a serpentinization-powered subsurface biosphere. Both of these taxa have been identified in multiple hydrogen-enriched subsurface habitats worldwide, and the results of this study contribute to an emerging biogeographic pattern in which Betaproteobacteria occur in near-surface mixing zones and Firmicutes are present in deeper, anoxic subsurface habitats.

Bacterial Communities Associated with Subsurface Geochemical Processes in Continental Serpentinite Springs

PubMed Central

Morrill, Penny L.; Szponar, Natalie; Schrenk, Matthew O.

2013-01-01

Reactions associated with the geochemical process of serpentinization can generate copious quantities of hydrogen and low-molecular-weight organic carbon compounds, which may provide energy and nutrients to sustain subsurface microbial communities independently of the photosynthetically supported surface biosphere. Previous microbial ecology studies have tested this hypothesis in deep sea hydrothermal vents, such as the Lost City hydrothermal field. This study applied similar methods, including molecular fingerprinting and tag sequencing of the 16S rRNA gene, to ultrabasic continental springs emanating from serpentinizing ultramafic rocks. These molecular surveys were linked with geochemical measurements of the fluids in an interdisciplinary approach designed to distinguish potential subsurface organisms from those derived from surface habitats. The betaproteobacterial genus Hydrogenophaga was identified as a likely inhabitant of transition zones where hydrogen-enriched subsurface fluids mix with oxygenated surface water. The Firmicutes genus Erysipelothrix was most strongly correlated with geochemical factors indicative of subsurface fluids and was identified as the most likely inhabitant of a serpentinization-powered subsurface biosphere. Both of these taxa have been identified in multiple hydrogen-enriched subsurface habitats worldwide, and the results of this study contribute to an emerging biogeographic pattern in which Betaproteobacteria occur in near-surface mixing zones and Firmicutes are present in deeper, anoxic subsurface habitats. PMID:23584766

Genomes of Planktonic Acidimicrobiales: Widening Horizons for Marine Actinobacteria by Metagenomics

PubMed Central

Mizuno, Carolina Megumi; Ghai, Rohit

2015-01-01

ABSTRACT The genomes of four novel marine Actinobacteria have been assembled from large metagenomic data sets derived from the Mediterranean deep chlorophyll maximum (DCM). These are the first marine representatives belonging to the order Acidimicrobiales and only the second group of planktonic marine Actinobacteria to be described. Their streamlined genomes and photoheterotrophic lifestyle suggest that they are planktonic, free-living microbes. A novel rhodopsin clade, acidirhodopsins, related to freshwater actinorhodopsins, was found in these organisms. Their genomes suggest a capacity to assimilate C2 compounds, some using the glyoxylate bypass and others with the ethylmalonyl-coenzyme A (CoA) pathway. They are also able to derive energy from dimethylsulfopropionate (DMSP), sulfonate, and carbon monoxide oxidation, all commonly available in the marine habitat. These organisms appear to be prevalent in the deep photic zone at or around the DCM. The presence of sister clades to the marine Acidimicrobiales in freshwater aquatic habitats provides a new example of marine-freshwater transitions with potential evolutionary insights. PMID:25670777

Distribution and assessment of marine debris in the deep Tyrrhenian Sea (NW Mediterranean Sea, Italy).

PubMed

Angiolillo, Michela; Lorenzo, Bianca di; Farcomeni, Alessio; Bo, Marzia; Bavestrello, Giorgio; Santangelo, Giovanni; Cau, Angelo; Mastascusa, Vincenza; Cau, Alessandro; Sacco, Flavio; Canese, Simonepietro

2015-03-15

Marine debris is a recognized global ecological concern. Little is known about the extent of the problem in the Mediterranean Sea regarding litter distribution and its influence on deep rocky habitats. A quantitative assessment of debris present in the deep seafloor (30-300 m depth) was carried out in 26 areas off the coast of three Italian regions in the Tyrrhenian Sea, using a Remotely Operated Vehicle (ROV). The dominant type of debris (89%) was represented by fishing gears, mainly lines, while plastic objects were recorded only occasionally. Abundant quantities of gears were found on rocky banks in Sicily and Campania (0.09-0.12 debris m(-2)), proving intense fishing activity. Fifty-four percent of the recorded debris directly impacted benthic organisms, primarily gorgonians, followed by black corals and sponges. This work provides a first insight on the impact of marine debris in Mediterranean deep ecosystems and a valuable baseline for future comparisons. Copyright © 2015 Elsevier Ltd. All rights reserved.

Exercise at depth alters bradycardia and incidence of cardiac anomalies in deep-diving marine mammals.

PubMed

Williams, Terrie M; Fuiman, Lee A; Kendall, Traci; Berry, Patrick; Richter, Beau; Noren, Shawn R; Thometz, Nicole; Shattock, Michael J; Farrell, Edward; Stamper, Andy M; Davis, Randall W

2015-01-16

Unlike their terrestrial ancestors, marine mammals routinely confront extreme physiological and physical challenges while breath-holding and pursuing prey at depth. To determine how cetaceans and pinnipeds accomplish deep-sea chases, we deployed animal-borne instruments that recorded high-resolution electrocardiograms, behaviour and flipper accelerations of bottlenose dolphins (Tursiops truncatus) and Weddell seals (Leptonychotes weddellii) diving from the surface to >200 m. Here we report that both exercise and depth alter the bradycardia associated with the dive response, with the greatest impacts at depths inducing lung collapse. Unexpectedly, cardiac arrhythmias occurred in >73% of deep, aerobic dives, which we attribute to the interplay between sympathetic and parasympathetic drivers for exercise and diving, respectively. Such marked cardiac variability alters the common view of a stereotypic 'dive reflex' in diving mammals. It also suggests the persistence of ancestral terrestrial traits in cardiac function that may help explain the unique sensitivity of some deep-diving marine mammals to anthropogenic disturbances.

Localized rapid warming of West Antarctic subsurface waters by remote winds

NASA Astrophysics Data System (ADS)

Spence, Paul; Holmes, Ryan M.; Hogg, Andrew Mcc.; Griffies, Stephen M.; Stewart, Kial D.; England, Matthew H.

2017-08-01

The highest rates of Antarctic glacial ice mass loss are occurring to the west of the Antarctica Peninsula in regions where warming of subsurface continental shelf waters is also largest. However, the physical mechanisms responsible for this warming remain unknown. Here we show how localized changes in coastal winds off East Antarctica can produce significant subsurface temperature anomalies (>2 °C) around much of the continent. We demonstrate how coastal-trapped barotropic Kelvin waves communicate the wind disturbance around the Antarctic coastline. The warming is focused on the western flank of the Antarctic Peninsula because the circulation induced by the coastal-trapped waves is intensified by the steep continental slope there, and because of the presence of pre-existing warm subsurface water offshore. The adjustment to the coastal-trapped waves shoals the subsurface isotherms and brings warm deep water upwards onto the continental shelf and closer to the coast. This result demonstrates the vulnerability of the West Antarctic region to a changing climate.

Evidence of local and regional freshening of Northeast Greenland coastal waters.

PubMed

Sejr, Mikael K; Stedmon, Colin A; Bendtsen, Jørgen; Abermann, Jakob; Juul-Pedersen, Thomas; Mortensen, John; Rysgaard, Søren

2017-10-13

The supply of freshwater to fjord systems in Greenland is increasing as a result of climate change-induced acceleration in ice sheet melt. However, insight into the marine implications of the melt water is impaired by lack of observations demonstrating the fate of freshwater along the Greenland coast and providing evaluation basis for ocean models. Here we present 13 years of summer measurements along a 120 km transect in Young Sound, Northeast Greenland and show that sub-surface coastal waters are decreasing in salinity with an average rate of 0.12 ± 0.05 per year. This is the first observational evidence of a significant freshening on decadal scale of the waters surrounding the ice sheet and comes from a region where ice sheet melt has been less significant. It implies that ice sheet dynamics in Northeast Greenland could be of key importance as freshwater is retained in southward flowing coastal currents thus reducing density of water masses influencing major deep water formation areas in the Subarctic Atlantic Ocean. Ultimately, the observed freshening could have implications for the Atlantic meridional overturning circulation.

Groundwater mixing at fracture intersections triggers massive iron-rich microbial mats

NASA Astrophysics Data System (ADS)

Bochet, O.; Le Borgne, T.; Bethencourt, L.; Aquilina, L.; Dufresne, A.; Pédrot, M.; Farasin, J.; Abbott, B. W.; Labasque, T.; Chatton, E.; Lavenant, N.; Petton, C.

2017-12-01

While most freshwater on Earth resides and flows in groundwater systems, these deep subsurface environments are often assumed to have little biogeochemical activity compared to surface environments. Here we report a massive microbial mat of iron-oxidizing bacteria, flourishing 60 meters below the surface, far below the mixing zone where most microbial activity is believed to occur. The abundance of microtubular structures in the mat hinted at the prevalence of of Leptothrix ochracea, but metagenomic analysis revealed a diverse consortium of iron-oxidizing bacteria dominated by unknown members of the Gallionellaceae family. This deep biogeochemical hot spot formed at the intersection of bedrock fractures, which maintain redox gradients by mixing water with different residence times and chemical compositions. Using measured fracture properties and hydrological conditions we developed a quantitative model to simulate the reactive zone where such deep hot spots could occur. While seasonal fluctuations are generally thought to decrease with depth, we found that meter-scale changes in water table level moved the depth of the reactive zone hundreds of meters because the microaerophilic threshold for ironoxidizers is highly sensitive to changes in mixing rates at fracture intersections. These results demonstrate that dynamic microbial communities can be sustained deep below the surface in bedrock fractures. Given the ubiquity of fractures at multiple scales in Earth's subsurface, such deep hot spots may strongly influence global biogeochemical cycles.

Strange bedfellows - A deep-water hermatypic coral reef superimposed on a drowned barrier island; Southern Pulley Ridge, SW Florida platform margin

USGS Publications Warehouse

Jarrett, B.D.; Hine, A.C.; Halley, R.B.; Naar, D.F.; Locker, S.D.; Neumann, A.C.; Twichell, D.; Hu, C.; Donahue, B.T.; Jaap, W.C.; Palandro, D.; Ciembronowicz, K.

2005-01-01

The southeastern component of a subtle ridge feature extending over 200 km along the western ramped margin of the south Florida platform, known as Pulley Ridge, is composed largely of a non-reefal, coastal marine deposit. Modern biostromal reef growth caps southern Pulley Ridge (SPR), making it the deepest hermatypic reef known in American waters. Subsurface ridge strata are layered, lithified, and display a barrier island geomorphology. The deep-water reef community is dominated by platy scleractinian corals, leafy green algae, and coralline algae. Up to 60% live coral cover is observed in 60-75 m of water, although only 1-2% of surface light is available to the reef community. Vertical reef accumulation is thin and did not accompany initial ridge submergence during the most recent sea-level rise. The delayed onset of reef growth likely resulted from several factors influencing Gulf waters during early stages of the last deglaciation (???14 kyr B.P.) including; cold, low-salinity waters derived from discrete meltwater pulses, high-frequency sea-level fluctuations, and the absence of modern oceanic circulation patterns. Currently, reef growth is supported by the Loop Current, the prevailing western boundary current that impinges upon the southwest Florida platform, providing warm, clear, low-nutrient waters to SPR. The rare discovery of a preserved non-reefal lowstand shoreline capped by rich hermatypic deep-reef growth on a tectonically stable continental shelf is significant for both accurate identification of late Quaternary sea-level position and in better constraining controls on the depth limits of hermatypic reefs and their capacity for adaptation to extremely low light levels. ?? 2004 Elsevier B.V. All rights reserved.

Diverse origins of Arctic and Subarctic methane point source emissions identified with multiply-substituted isotopologues

NASA Astrophysics Data System (ADS)

Douglas, P. M. J.; Stolper, D. A.; Smith, D. A.; Walter Anthony, K. M.; Paull, C. K.; Dallimore, S.; Wik, M.; Crill, P. M.; Winterdahl, M.; Eiler, J. M.; Sessions, A. L.

2016-09-01

Methane is a potent greenhouse gas, and there are concerns that its natural emissions from the Arctic could act as a substantial positive feedback to anthropogenic global warming. Determining the sources of methane emissions and the biogeochemical processes controlling them is important for understanding present and future Arctic contributions to atmospheric methane budgets. Here we apply measurements of multiply-substituted isotopologues, or clumped isotopes, of methane as a new tool to identify the origins of ebullitive fluxes in Alaska, Sweden and the Arctic Ocean. When methane forms in isotopic equilibrium, clumped isotope measurements indicate the formation temperature. In some microbial methane, however, non-equilibrium isotope effects, probably related to the kinetics of methanogenesis, lead to low clumped isotope values. We identify four categories of emissions in the studied samples: thermogenic methane, deep subsurface or marine microbial methane formed in isotopic equilibrium, freshwater microbial methane with non-equilibrium clumped isotope values, and mixtures of deep and shallow methane (i.e., combinations of the first three end members). Mixing between deep and shallow methane sources produces a non-linear variation in clumped isotope values with mixing proportion that provides new constraints for the formation environment of the mixing end-members. Analyses of microbial methane emitted from lakes, as well as a methanol-consuming methanogen pure culture, support the hypothesis that non-equilibrium clumped isotope values are controlled, in part, by kinetic isotope effects induced during enzymatic reactions involved in methanogenesis. Our results indicate that these kinetic isotope effects vary widely in microbial methane produced in Arctic lake sediments, with non-equilibrium Δ18 values spanning a range of more than 5‰.

Storm Driven Upwelling Responsible for pCO2-rich Water Intrusion in the South Atlantic Bight

NASA Astrophysics Data System (ADS)

Noakes, S.; Gledhill, D. K.

2016-02-01

Gray's Reef National Marine Sanctuary (GRNMS) is located approximately 20 miles offshore Georgia along the inner to middle shelf of the South Atlantic Bight (SAB). The University of Georgia (UGA) and the Pacific Marine Environmental Lab have maintained a high resolution pCO2 system for almost a decade on the National Data Buoy Center's buoy moored at GRNMS. To support the surface monitoring and set the stage for benthic monitoring at GRNMS, UGA and GRNMS have established a seafloor observatory that monitors pCO2, pH and water quality parameters. Traditional thought had held that given the relatively shallow water depth at GRNMS, the pCO2 measured on the surface could be extrapolated to the seafloor and utilized to monitor the benthic community. However, seafloor pCO2 data collected to date have revealed unusual episodes of subsurface pCO2-rich water moving through GRNMS that had not been previously identified by surface monitoring. Many of these events correspond with major storms that have either formed off the SAB or passed nearby GRNMS. Based on the surface data collected to date, temperature driven seasonal pCO2 changes occur naturally on an annual scale in the SAB which also affects the pH. However, the storms appear to have induced upwelling of pCO2-rich water from the deep Atlantic Ocean pushing it inward over the long continental shelf towards GRNMS. The result of the upwelling is a sharp increase of subsurface pCO2 lasting only days to weeks as compared to the seasonal cycle. It is part of the natural weather patterns for storms to form off the SAB or pass nearby, but depending on if the storm frequency increases due to global climate change, this process may become more of an impact on the benthic community. How this affects the benthic community has yet to be determined, but it is clear that they have adapted to seasonal fluctuations for survival. These upwellings are obviously adding to the SAB total carbon budget and affecting the benthic water quality, but to what extent have yet to be determined.

Microplastic pollution in deep-sea sediments.

PubMed

Van Cauwenberghe, Lisbeth; Vanreusel, Ann; Mees, Jan; Janssen, Colin R

2013-11-01

Microplastics are small plastic particles (<1 mm) originating from the degradation of larger plastic debris. These microplastics have been accumulating in the marine environment for decades and have been detected throughout the water column and in sublittoral and beach sediments worldwide. However, up to now, it has never been established whether microplastic presence in sediments is limited to accumulation hot spots such as the continental shelf, or whether they are also present in deep-sea sediments. Here we show, for the first time ever, that microplastics have indeed reached the most remote of marine environments: the deep sea. We found plastic particles sized in the micrometre range in deep-sea sediments collected at four locations representing different deep-sea habitats ranging in depth from 1100 to 5000 m. Our results demonstrate that microplastic pollution has spread throughout the world's seas and oceans, into the remote and largely unknown deep sea. Copyright © 2013. Published by Elsevier Ltd.

Comparison of four lasers (λ = 650, 808, 980, and 1075 nm) for noninvasive creation of deep subsurface lesions in tissue

NASA Astrophysics Data System (ADS)

Chang, Chun-Hung; Wilson, Christopher R.; Fried, Nathaniel M.

2015-07-01

Lasers have been used in combination with applied cooling methods to preserve superficial skin layers (100's μm's) during cosmetic surgery. Preservation of a thicker tissue surface layer (millimeters) may also allow development of other noninvasive laser procedures. We are exploring noninvasive therapeutic laser applications in urology (e.g. laser vasectomy and laser treatment of female stress urinary incontinence), which require surface tissue preservation on the millimeter scale. In this preliminary study, four lasers were compared for noninvasive creation of deep subsurface thermal lesions. Laser energy from three diode lasers (650, 808, and 980 nm) and a Ytterbium fiber laser (1075 nm) was delivered through a custom built, side-firing, laser probe with integrated cooling. An alcohol-based solution at -5 °C was circulated through a flow cell, cooling a sapphire window, which in turn cooled the tissue surface. The probe was placed in contact with porcine liver tissue, ex vivo, kept hydrated in saline and maintained at ~ 35 °C. Incident laser power was 4.2 W, spot diameter was 5.3 mm, and treatment time was 60 s. The optimal laser wavelength tested for creation of deep subsurface thermal lesions during contact cooling of tissues was 1075 nm, which preserved a surface layer of ~ 2 mm. The Ytterbium fiber laser provides a compact, low maintenance, and high power alternative laser source to the Neodymium:YAG laser for noninvasive thermal therapy.

Microbial potential for carbon and nutrient cycling in a geogenic supercritical carbon dioxide reservoir.

PubMed

Freedman, Adam J E; Tan, BoonFei; Thompson, Janelle R

2017-06-01

Microorganisms catalyze carbon cycling and biogeochemical reactions in the deep subsurface and thus may be expected to influence the fate of injected supercritical (sc) CO 2 following geological carbon sequestration (GCS). We hypothesized that natural subsurface scCO 2 reservoirs, which serve as analogs for the long-term fate of sequestered scCO 2 , harbor a 'deep carbonated biosphere' with carbon cycling potential. We sampled subsurface fluids from scCO 2 -water separators at a natural scCO 2 reservoir at McElmo Dome, Colorado for analysis of 16S rRNA gene diversity and metagenome content. Sequence annotations indicated dominance of Sulfurospirillum, Rhizobium, Desulfovibrio and four members of the Clostridiales family. Genomes extracted from metagenomes using homology and compositional approaches revealed diverse mechanisms for growth and nutrient cycling, including pathways for CO 2 and N 2 fixation, anaerobic respiration, sulfur oxidation, fermentation and potential for metabolic syntrophy. Differences in biogeochemical potential between two production well communities were consistent with differences in fluid chemical profiles, suggesting a potential link between microbial activity and geochemistry. The existence of a microbial ecosystem associated with the McElmo Dome scCO 2 reservoir indicates that potential impacts of the deep biosphere on CO 2 fate and transport should be taken into consideration as a component of GCS planning and modelling. © 2017 The Authors. Environmental Microbiology published by Society for Applied Microbiology and John Wiley & Sons Ltd.

Physical and chemical controls on habitats for life in the deep subsurface beneath continents and ice

PubMed Central

Parnell, John; McMahon, Sean

2016-01-01

The distribution of life in the continental subsurface is likely controlled by a range of physical and chemical factors. The fundamental requirements are for space to live, carbon for biomass and energy for metabolic activity. These are inter-related, such that adequate permeability is required to maintain a supply of nutrients, and facies interfaces invite colonization by juxtaposing porous habitats with nutrient-rich mudrocks. Viable communities extend to several kilometres depth, diminishing downwards with decreasing porosity. Carbon is contributed by recycling of organic matter originally fixed by photosynthesis, and chemoautotrophy using crustal carbon dioxide and methane. In the shallow crust, the recycled component predominates, as processed kerogen or hydrocarbons, but abiotic carbon sources may be significant in deeper, metamorphosed crust. Hydrogen to fuel chemosynthesis is available from radiolysis, mechanical deformation and mineral alteration. Activity in the subcontinental deep biosphere can be traced through the geological record back to the Precambrian. Before the colonization of the Earth's surface by land plants, a geologically recent event, subsurface life probably dominated the planet's biomass. In regions of thick ice sheets the base of the ice sheet, where liquid water is stable and a sediment layer is created by glacial erosion, can be regarded as a deep biosphere habitat. This environment may be rich in dissolved organic carbon and nutrients accumulated from dissolving ice, and from weathering of the bedrock and the sediment layer. PMID:26667907

Human-associated fungi in deep subseafloor sediment?

NASA Astrophysics Data System (ADS)

Fulfer, V. M.; Kirkpatrick, J. B.; D'Hondt, S.

2015-12-01

Recent studies have reported fungi in marine sediment samples from depths as great as 1740 meters below seafloor (mbsf) (Rédou et al., 2014). Such studies have utilized a variety of techniques to identify fungi, including cultivation of isolates, amplicon sequencing, and metagenomics. Six recent studies of marine sediment collectively identify nearly 100 fungal taxa at the genus and species levels (Damare et al., 2006; Lai et al., 2007; Edgcomb et al., 2010; Singh et al., 2010; Orsi et al., 2013; Rédou et al., 2014). Known marine taxa are rarely identified by these studies. For individual studies with more than two taxa, between 16% and 57% of the fungal taxa are human microflora or associated with human environments (e.g., human skin or indoor air). For example, three of the six studies identified Malassezia species that are common skin inhabitants of humans and dogs. Although human-associated taxa have been identified in both shallow and deep sediment, they pose a particularly acute problem for deep subseafloor samples, where claims of a eukaryotic deep biosphere are most striking; depending on the study, 25% to 38% of species identified in sediment taken at depths greater than 40 meters are human-associated. Only one to three species have been reported from each of the four samples taken at depths greater than one km (eight species total; Rédou et al., 2014). Of these eight species, three are human-associated. This ubiquity of human-associated microflora is very problematic for interpretations of an indigenous deep subseafloor fungal community; either human-associated taxa comprise a large fraction of marine sedimentary fungi, or sample and analytical contamination is so widespread that the extent and ubiquity of a deep subseafloor fungal community remains uncertain. This highlights the need for stringent quality control measures throughout coring, sampling, and recovery of marine sediment, and when cultivating, extracting, and/or sequencing fungi from sediment samples.

Structure, functioning, and cumulative stressors of Mediterranean deep-sea ecosystems

NASA Astrophysics Data System (ADS)

Tecchio, Samuele; Coll, Marta; Sardà, Francisco

2015-06-01

Environmental stressors, such as climate fluctuations, and anthropogenic stressors, such as fishing, are of major concern for the management of deep-sea ecosystems. Deep-water habitats are limited by primary productivity and are mainly dependent on the vertical input of organic matter from the surface. Global change over the latest decades is imparting variations in primary productivity levels across oceans, and thus it has an impact on the amount of organic matter landing on the deep seafloor. In addition, anthropogenic impacts are now reaching the deep ocean. The Mediterranean Sea, the largest enclosed basin on the planet, is not an exception. However, ecosystem-level studies of response to varying food input and anthropogenic stressors on deep-sea ecosystems are still scant. We present here a comparative ecological network analysis of three food webs of the deep Mediterranean Sea, with contrasting trophic structure. After modelling the flows of these food webs with the Ecopath with Ecosim approach, we compared indicators of network structure and functioning. We then developed temporal dynamic simulations varying the organic matter input to evaluate its potential effect. Results show that, following the west-to-east gradient in the Mediterranean Sea of marine snow input, organic matter recycling increases, net production decreases to negative values and trophic organisation is overall reduced. The levels of food-web activity followed the gradient of organic matter availability at the seafloor, confirming that deep-water ecosystems directly depend on marine snow and are therefore influenced by variations of energy input, such as climate-driven changes. In addition, simulations of varying marine snow arrival at the seafloor, combined with the hypothesis of a possible fishery expansion on the lower continental slope in the western basin, evidence that the trawling fishery may pose an impact which could be an order of magnitude stronger than a climate-driven reduction of marine snow.

An analytical model for subsurface irradiance and remote sensing reflectance in deep and shallow case-2 waters.

PubMed

Albert, A; Mobley, C

2003-11-03

Subsurface remote sensing signals, represented by the irradiance re fl ectance and the remote sensing re fl ectance, were investigated. The present study is based on simulations with the radiative transfer program Hydrolight using optical properties of Lake Constance (German: Bodensee) based on in-situ measurements of the water constituents and the bottom characteristics. Analytical equations are derived for the irradiance re fl ectance and remote sensing re fl ectance for deep and shallow water applications. The input of the parameterization are the inherent optical properties of the water - absorption a(lambda) and backscattering bb(lambda). Additionally, the solar zenith angle thetas, the viewing angle thetav , and the surface wind speed u are considered. For shallow water applications the bottom albedo RB and the bottom depth zB are included into the parameterizations. The result is a complete set of analytical equations for the remote sensing signals R and Rrs in deep and shallow waters with an accuracy better than 4%. In addition, parameterizations of apparent optical properties were derived for the upward and downward diffuse attenuation coefficients Ku and Kd.

Estimation of Deeper Structure at the Soultz Hot Dry Rock Field by Means of Reflection Method Using 3C AE as Wave Source

NASA Astrophysics Data System (ADS)

Soma, N.; Niitsuma, H.; Baria, R.

1997-12-01

We investigate the deep subsurface structure below the artificial reservoir at the Soultz Hot Dry Rock (HDR) site in France by a reflection method which uses acoustic emission (AE) as a wave source. In this method, we can detect reflected waves by examining the linearity of a three-dimensional hodogram. Additionally for imaging a deep subsurface structure, we employ a three-dimensional inversion with a restriction of wave polarization angles and with a compensation for a heterogeneous source distribution.¶We analyzed 101 AE wave forms observed at the Soultz site during the hydraulic testing in 1993. Some deep reflectors were revealed by this method. The bottom of the artificial reservoir that is presumed from all of the AE locations in 1993 was delineated at the depth of about 3900 m as a reflector. Other deeper reflectors were detected below the reservoir, which would not have been detected using conventional methods. Furthermore these reflectors agreed with the results of the tri-axial drill-bit VSP (Asanuma et al., 1996).

Tackling the Challenge of Deep Vadose Zone Remediation at the Hanford Site

NASA Astrophysics Data System (ADS)

Morse, J. G.; Wellman, D. M.; Gephart, R.

2010-12-01

The Central Plateau of the Hanford Site in Washington State contains some 800 waste disposal sites where 1.7 trillion liters of contaminated water was once discharged into the subsurface. Most of these sites received liquids from the chemical reprocessing of spent uranium fuel to recover plutonium. In addition, 67 single shell tanks have leaked or are suspected to have leaked 3.8 million liters of high alkali and aluminate rich cesium-contaminated liquids into the sediment. Today, this inventory of subsurface contamination contains an estimated 550,000 curies of radioactivity and 150 million kg (165,000 tons) of metals and hazardous chemicals. Radionuclides range from mobile 99Tc to more immobilized 137Cs, 241Am, uranium, and plutonium. A significant fraction of these contaminants likely remain within the deep vadose zone. Plumes of groundwater containing tritium, nitrate, 129I and other contaminants have migrated through the vadose zone and now extend outward from the Central Plateau to the Columbia River. During most of Hanford Site history, subsurface studies focused on groundwater monitoring and characterization to support waste management decisions. Deep vadose zone studies were not a priority because waste practices relied upon that zone to buffer contaminant releases into the underlying aquifer. Remediation of the deep vadose zone is now central to Hanford Site cleanup because these sediments can provide an ongoing source of contamination to the aquifer and therefore to the Columbia River. However, characterization and remediation of the deep vadose zone pose some unique challenges. These include sediment thickness; contaminant depth; coupled geohydrologic, geochemical, and microbial processes controlling contaminant spread; limited availability and effectiveness of traditional characterization tools and cleanup remedies; and predicting contaminant behavior and remediation performance over long time periods and across molecular to field scales. The U.S Department of Energy recognizes these challenges and is committed to a sustained, focused effort of continuing to apply existing technologies where feasible while investing and developing in new innovative, field-demonstrated capabilities supporting longer-term basic and applied research to establish the technical underpinning for solving intractable deep vadose zone problems and implementing final remedies. This approach will rely upon Multi-Project Teams focusing on coordinated projects across multiple DOE offices, programs, and site contractors plus the facilitation of basic and applied research investments through implementing a Deep Vadose Zone Applied Field Research Center and other scientific studies.

Establishing Baseline Subsurface Light Fields for the Flower Garden Banks National Marine Sancturay

DTIC Science & Technology

2011-04-12

Code 1226 Office of Counsel,Code 1008.3 ADOR/Director NCST E. R. Franchi , 7000 Public Affairs (Unclassified/ Unlimited Only). Code 7030 4...deRada et al., 2009), which receives boundary information from the operational Global NCOM system (Kara et al., 2006; http://www7320.nrlssc.navy.mil...Gulf of Mexico. OCEANS 2009, MTS/IEEE Biloxi - Marine Technology for Our Future: Global and Local Challenges, ISBN: 978-1-4244-4960-6, pp. 1-7, 26-29

Deep-water kelp refugia as potential hotspots of tropical marine diversity and productivity.

PubMed

Graham, Michael H; Kinlan, Brian P; Druehl, Louis D; Garske, Lauren E; Banks, Stuart

2007-10-16

Classic marine ecological paradigms view kelp forests as inherently temperate-boreal phenomena replaced by coral reefs in tropical waters. These paradigms hinge on the notion that tropical surface waters are too warm and nutrient-depleted to support kelp productivity and survival. We present a synthetic oceanographic and ecophysiological model that accurately identifies all known kelp populations and, by using the same criteria, predicts the existence of >23,500 km(2) unexplored submerged (30- to 200-m depth) tropical kelp habitats. Predicted tropical kelp habitats were most probable in regions where bathymetry and upwelling resulted in mixed-layer shoaling above the depth of minimum annual irradiance dose for kelp survival. Using model predictions, we discovered extensive new deep-water Eisenia galapagensis populations in the Galápagos that increased in abundance with increasing depth to >60 m, complete with cold-water flora and fauna of temperate affinities. The predictability of deep-water kelp habitat and the discovery of expansive deep-water Galápagos kelp forests validate the extent of deep-water tropical kelp refugia, with potential implications for regional productivity and biodiversity, tropical food web ecology, and understanding of the resilience of tropical marine systems to climate change.

Anaerobic decomposition of humic substances by Clostridium from the deep subsurface

PubMed Central

Ueno, Akio; Shimizu, Satoru; Tamamura, Shuji; Okuyama, Hidetoshi; Naganuma, Takeshi; Kaneko, Katsuhiko

2016-01-01

Decomposition of humic substances (HSs) is a slow and cryptic but non-negligible component of carbon cycling in sediments. Aerobic decomposition of HSs by microorganisms in the surface environment has been well documented; however, the mechanism of anaerobic microbial decomposition of HSs is not completely understood. Moreover, no microorganisms capable of anaerobic decomposition of HSs have been isolated. Here, we report the anaerobic decomposition of humic acids (HAs) by the anaerobic bacterium Clostridium sp. HSAI-1 isolated from the deep terrestrial subsurface. The use of 14C-labelled polycatechol as an HA analogue demonstrated that the bacterium decomposed this substance up to 7.4% over 14 days. The decomposition of commercial and natural HAs by the bacterium yielded lower molecular mass fractions, as determined using high-performance size-exclusion chromatography. Fourier transform infrared spectroscopy revealed the removal of carboxyl groups and polysaccharide-related substances, as well as the generation of aliphatic components, amide and aromatic groups. Therefore, our results suggest that Clostridium sp. HSAI-1 anaerobically decomposes and transforms HSs. This study improves our understanding of the anaerobic decomposition of HSs in the hidden carbon cycling in the Earth’s subsurface. PMID:26743007

On the effects of subsurface parameters on evaporite dissolution (Switzerland)

NASA Astrophysics Data System (ADS)

Zidane, Ali; Zechner, Eric; Huggenberger, Peter; Younes, Anis

2014-05-01

Uncontrolled subsurface evaporite dissolution could lead to hazards such as land subsidence. Observed subsidences in a study area of Northwestern Switzerland were mainly due to subsurface dissolution (subrosion) of evaporites such as halite and gypsum. A set of 2D density driven flow simulations were evaluated along 1000 m long and 150 m deep 2D cross sections within the study area that is characterized by tectonic horst and graben structures. The simulations were conducted to study the effect of the different subsurface parameters that could affect the dissolution process. The heterogeneity of normal faults and its impact on the dissolution of evaporites is studied by considering several permeable faults that include non-permeable areas. The mixed finite element method (MFE) is used to solve the flow equation, coupled with the multipoint flux approximation (MPFA) and the discontinuous Galerkin method (DG) to solve the diffusion and the advection parts of the transport equation.

Differential Bacterial Colonization of Volcanic Minerals in Deep Thermal Basalts

NASA Astrophysics Data System (ADS)

Smith, A. R.; Popa, R.; Fisk, M. R.; Nielsen, M.; Wheat, G.; Jannasch, H.; Fisher, A.; Sievert, S.

2010-04-01

There are reports of microbial weathering patterns in volcanic glass and minerals of both terrestrial and Martian origin. Volcanic minerals are colonized differentially in subsurface hydrothermal environments by a variety of physiological types.

Molecular hydrogen: An abundant energy source for bacterial activity in nuclear waste repositories

NASA Astrophysics Data System (ADS)

Libert, M.; Bildstein, O.; Esnault, L.; Jullien, M.; Sellier, R.

A thorough understanding of the energy sources used by microbial systems in the deep terrestrial subsurface is essential since the extreme conditions for life in deep biospheres may serve as a model for possible life in a nuclear waste repository. In this respect, H 2 is known as one of the most energetic substrates for deep terrestrial subsurface environments. This hydrogen is produced from abiotic and biotic processes but its concentration in natural systems is usually maintained at very low levels due to hydrogen-consuming bacteria. A significant amount of H 2 gas will be produced within deep nuclear waste repositories, essentially from the corrosion of metallic components. This will consequently improve the conditions for microbial activity in this specific environment. This paper discusses different study cases with experimental results to illustrate the fact that microorganisms are able to use hydrogen for redox processes (reduction of O 2, NO3-, Fe III) in several waste disposal conditions. Consequences of microbial activity include: alteration of groundwater chemistry and shift in geochemical equilibria, gas production or consumption, biocorrosion, and potential modifications of confinement properties. In order to quantify the impact of hydrogen bacteria, the next step will be to determine the kinetic rate of the reactions in realistic conditions.

Molecular diversity of bacterial communities from subseafloor rock samples in a deep-water production basin in Brazil.

PubMed

von der Weid, Irene; Korenblum, Elisa; Jurelevicius, Diogo; Rosado, Alexandre Soares; Dino, Rodolfo; Sebastian, Gina Vasquez; Seldin, Lucy

2008-01-01

The deep subseafloor rock in oil reservoirs represents a unique environment in which a high oilcontamination and very low biomass can be observed. Sampling this environment has been a challenge owing to the techniques used for drilling and coring. In this study, the facilities developed by the Brazilian oil company PETROBRAS for accessing deep subsurface oil reservoirs were used to obtain rock samples at 2,822-2,828 m below the ocean floor surface from a virgin field located in the Atlantic Ocean, Rio de Janeiro. To address the bacterial diversity of these rock samples, PCR amplicons were obtained using the DNA from four core sections and universal primers for 16S rRNA and for APS reductase (aps) genes. Clone libraries were generated from these PCR fragments and 87 clones were sequenced. The phylogenetic analyses of the 16S rDNA clone libraries showed a wide distribution of types in the domain bacteria in the four core samples, and the majority of the clones were identified as belonging to Betaproteobacteria. The sulfate-reducing bacteria community could only be amplified by PCR in one sample, and all clones were identified as belonging to Gammaproteobacteria. For the first time, the bacterial community was assessed in such deep subsurface environment.

Factors Governing the Germination of Sulfate-Reducing Desulfotomaculum Endospores Involved in Oil Reservoir Souring.

NASA Astrophysics Data System (ADS)

Sherry, A.; Bell, E.; Cueto, G.; Suarez-Suarez, A.; Pilloni, G.; Hubert, C. R.

2015-12-01

Reservoir souring is caused by the activity of sulfate-reducing microorganisms (SRM) in subsurface oil reservoirs, and is often induced by seawater injection during secondary oil recovery. Souring can potentially contribute to corrosion of infrastructure, health and safety hazards to the workforce, and reduction in value by increasing refining costs associated with producing the oil resource. Souring causes annual losses in the billions of dollars to the oil industry. Endospore-forming SRM, such as Desulfotomaculum spp., are often suspected culprits in reservoir souring. Endospores can survive unfavourable conditions for long periods, yet remain poised to germinate and become active if conditions become more favourable. Factors governing endospore germination are poorly understood, but are thought to include availability of nutrients, possibly metabolic by products of other anaerobic bioprocesses, and/or variations in temperature. Most research has focused on aerobic Bacillus spp., with very few studies dedicated to spore germination among anaerobes (order Clostridiales) including the sulfate-reducing Desulfotomaculum found in anoxic subsurface petroleum reservoirs. For Desulfotomaculum spores in deep hot oil reservoirs, cold seawater introduction during secondary oil recovery may create thermal viability zones for sulfate reduction near the injection wellbore. To evaluate these processes, sulfate-containing microcosms were prepared with different marine sediments as a source of spores, and amended with organic substrates in the presence or absence of oil. Incubation at 80°C for six days was followed by a down-shift in temperature to 60°C to mimic cold seawater injection into a hot reservoir. Souring did not occur at 80°C, but commenced within hours at 60°C. Microcosms were monitored for sulfate reduction and organic acids in combination with next generation sequencing of 16S rRNA genes (Ion Torrent, Illumina MiSeq). Through a combination of high-throughput microbial DNA sequencing and geochemical process analyses we show that altered conditions in oil reservoirs during seawater flooding activates dormant Desulfotomaculum endospores, which leads to reservoir souring, and provide insights on the factors governing the germination of endospores in the deep hot biosphere.

Marine Curators Gather

ERIC Educational Resources Information Center

McCoy, Floyd W.

1977-01-01

Reports on a recent meeting of marine curators in which data dissemination, standardization of marine curating techniques and methods, responsibilities of curators, funding problems, and sampling equipment were the main areas of discussion. A listing of the major deep sea sample collections in the United States is also provided. (CP)

Probing the deep critical zone beneath the Luquillo Experimental Forest, Puerto Rico

DOE Office of Scientific and Technical Information (OSTI.GOV)

Buss, Heather; Brantley, S. L.; Scatena, Fred

2013-01-01

Recent work has suggested that weathering processes occurring in the subsurface produce the majority of silicate weathering products discharged to the world s oceans, thereby exerting a primary control on global temperature via the well-known positive feedback between silicate weathering and CO2. In addition, chemical and physical weathering processes deep within the critical zone create aquifers and control groundwater chemistry, watershed geometry and regolith formation rates. Despite this, most weathering studies are restricted to the shallow critical zone (e.g., soils, outcrops). Here we investigate the chemical weathering, fracturing and geomorphology of the deep critical zone in the Bisley watershed inmore » the Luquillo Critical Zone Observatory, Puerto Rico, from two boreholes drilled to 37.2 and 27.0 m depth, from which continuous core samples were taken. Corestones exposed aboveground were also sampled. Weathered rinds developed on exposed corestones and along fracture surfaces on subsurface rocks slough off of exposed corestones once rinds attain a thickness up to ~1 cm, preventing the corestones from rounding due to diffusion limitation. Such corestones at the land surface are assumed to be what remains after exhumation of similar, fractured bedrock pieces that were observed in the drilled cores between thick layers of regolith. Some of these subsurface corestones are massive and others are highly fractured, whereas aboveground corestones are generally massive with little to no apparent fracturing. Subsurface corestones are larger and less fractured in the borehole drilled on a road where it crosses a ridge compared to the borehole drilled where the road crosses the stream channel. Both borehole profiles indicate that the weathering zone extends to well below the stream channel in this upland catchment; hence weathering depth is not controlled by the stream level within the catchment and not all of the water in the watershed is discharged to the stream.« less

New Bio-Indicators for Long Term Natural Attenuation of Monoaromatic Compounds in Deep Terrestrial Aquifers

PubMed Central

Aüllo, Thomas; Berlendis, Sabrina; Lascourrèges, Jean-François; Dessort, Daniel; Duclerc, Dominique; Saint-Laurent, Stéphanie; Schraauwers, Blandine; Mas, Johan; Patriarche, Delphine; Boesinger, Cécile; Magot, Michel; Ranchou-Peyruse, Anthony

2016-01-01

Deep subsurface aquifers despite difficult access, represent important water resources and, at the same time, are key locations for subsurface engineering activities for the oil and gas industries, geothermal energy, and CO2 or energy storage. Formation water originating from a 760 m-deep geological gas storage aquifer was sampled and microcosms were set up to test the biodegradation potential of BTEX by indigenous microorganisms. The microbial community diversity was studied using molecular approaches based on 16S rRNA genes. After a long incubation period, with several subcultures, a sulfate-reducing consortium composed of only two Desulfotomaculum populations was observed able to degrade benzene, toluene, and ethylbenzene, extending the number of hydrocarbonoclastic–related species among the Desulfotomaculum genus. Furthermore, we were able to couple specific carbon and hydrogen isotopic fractionation during benzene removal and the results obtained by dual compound specific isotope analysis (𝜀C = -2.4‰ ± 0.3‰; 𝜀H = -57‰ ± 0.98‰; AKIEC: 1.0146 ± 0.0009, and AKIEH: 1.5184 ± 0.0283) were close to those obtained previously in sulfate-reducing conditions: this finding could confirm the existence of a common enzymatic reaction involving sulfate-reducers to activate benzene anaerobically. Although we cannot assign the role of each population of Desulfotomaculum in the mono-aromatic hydrocarbon degradation, this study suggests an important role of the genus Desulfotomaculum as potential biodegrader among indigenous populations in subsurface habitats. This community represents the simplest model of benzene-degrading anaerobes originating from the deepest subterranean settings ever described. As Desulfotomaculum species are often encountered in subsurface environments, this study provides some interesting results for assessing the natural response of these specific hydrologic systems in response to BTEX contamination during remediation projects. PMID:26904000

Probing the deep critical zone beneath the Luquillo Experimental Forest, Puerto Rico

USGS Publications Warehouse

Buss, Heather L.; Brantley, Susan L.; Scatena, Fred; Bazilevskaya, Katya; Blum, Alex E.; Schulz, Marjorie S.; Jiménez, Rafael; White, Arthur F.; Rother, G.; Cole, D.

2013-01-01

Recent work has suggested that weathering processes occurring in the subsurface produce the majority of silicate weathering products discharged to the world's oceans, thereby exerting a primary control on global temperature via the well-known positive feedback between silicate weathering and CO2. In addition, chemical and physical weathering processes deep within the critical zone create aquifers and control groundwater chemistry, watershed geometry and regolith formation rates. Despite this, most weathering studies are restricted to the shallow critical zone (e.g. soils, outcrops). Here we investigate the chemical weathering, fracturing and geomorphology of the deep critical zone in the Bisley watershed in the Luquillo Critical Zone Observatory, Puerto Rico, from two boreholes drilled to 37.2 and 27.0 m depth, from which continuous core samples were taken. Corestones exposed aboveground were also sampled. Weathered rinds developed on exposed corestones and along fracture surfaces on subsurface rocks slough off of exposed corestones once rinds attain a thickness up to ~1 cm, preventing the corestones from rounding due to diffusion limitation. Such corestones at the land surface are assumed to be what remains after exhumation of similar, fractured bedrock pieces that were observed in the drilled cores between thick layers of regolith. Some of these subsurface corestones are massive and others are highly fractured, whereas aboveground corestones are generally massive with little to no apparent fracturing. Subsurface corestones are larger and less fractured in the borehole drilled on a road where it crosses a ridge compared with the borehole drilled where the road crosses the stream channel. Both borehole profiles indicate that the weathering zone extends to well below the stream channel in this upland catchment; hence weathering depth is not controlled by the stream level within the catchment and not all of the water in the watershed is discharged to the stream

Mediterranean salt giants beyond the evaporite model: The Sicily perspective

NASA Astrophysics Data System (ADS)

Carmelo Manuella, Fabio; Scribano, Vittorio; Carbone, Serafina; Hovland, Martin; Johnsen, Hans-Konrad; Rueslåtten, Håkon

2017-04-01

Mediterranean salt giants, occurring both in sub-seafloor and in onshore settings (the "Gessoso Solfifera Group"), are traditionally explained by repeated cycles of desiccation and replenishment of the entire basin. However, such hypotheses are strongly biased by mass balance calculations and geodynamic considerations. In addition, any hypothesis without full desiccation, still based on the evaporite model, should consider that seawater brines start to precipitate halite when 2/3 of the seawater has evaporated, and hence the level of the basin cannot be the same as the adjacent ocean. On the other hand, hydrothermal venting of hot saline brines onto the seafloor can precipitate salt in a deep marine basin if a layer of heavy brine exists along the seafloor. This process, likely related to sub-surface boiling or supercritical out-salting (Hovland et al., 2006), is consistent with geological evidence in the Red Sea "Deeps" (Hovland et al., 2015). Although supercritical out-salting and phase separation can sufficiently explain the formation of several marine salt deposits, even in deep marine settings, the Mediterranean salt giant formations can also be explained by the serpentinization model (Scribano et al., 2016). Serpentinization of abyssal peridotites does not involve seawater salts, and large quantities of saline brines accumulate in pores and fractures of the sub-seafloor serpentinites. If these rocks undergo thermal dehydration, for example, due to igneous intrusions, brines and salt slurries can migrate upwards as hydrothermal plumes, eventually venting at the seafloor, giving rise to giant salt deposits over time. These hydrothermal processes can take place in a temporal sequence, as it occurred in the "Caltanissetta Basin" (Sicily). There, salt accumulation associated with serpentinization started during Triassic times (and even earlier), and venting of heavy brines onto the seafloor eventually occurred in the Messinian via the hydrothermal plume mechanism (Scribano et al, 2016). This innovative model arises from the study of xenoliths in the Hyblean diatremes (southeastern Sicily), suggesting that a widely serpentinized Tethyan basement lies beneath the entire Sicily island and its offshore areas (Scribano et al., 2006; Manuella et al., 2015), according to geophysical, geological and petrological aspects. In conclusion, our viewpoint represents a plausible explanation for the origin of giant salt deposits in the Mediterranean area and elsewhere, albeit this hypothesis should be constrained by further studies. Hovland et al. (2006), Mar. Petrol. Geol., 23, 855-869. Hovland et al. (2015), In: Rasul, N.M.A., and Stewart, I.C.F., eds., The Red Sea. Springer, 187-203. DOI: 10.1007/978-3-662-45201-1_11 Manuella et al. (2015), Int. J. Earth Sci., 104, 1317-1336. Scribano et al. (2006), Mineral. Petrol., 86, 63-88. Scribano et al. (2016), Int. J. Earth Sci., submitted.

Hydro-environmental changes and their influence on the subsurface environment in the context of urban development.

PubMed

Yoshikoshi, Akihisa; Adachi, Itsu; Taniguchi, Tomomasa; Kagawa, Yuichi; Kato, Masahiro; Yamashita, Akio; Todokoro, Taiko; Taniguchi, Makoto

2009-04-15

The relationship between urban development and hydro-environmental change, particularly with regard to the subsurface environment is examined for three coastal cities affected by Asian monsoons (Tokyo and Osaka in Japan, and Bangkok in Thailand). Major differences in subsurface changes among these cities are closely related to city size, urban structure, and the timing, stage and extent of urbanization as well as the natural environment. The work shows that the urban development has not affected the Bangkok subsurface hydro-environment in the same way it has in Tokyo and Osaka. Three reasons for the difference account for this, (1) Bangkok's abundant annual rainfall, (2) Bangkok has the smallest ratio of impervious pavement surface area, meaning that surface water can more easily infiltrate underground., (3) the degree and extent of urbanization. Bangkok's subsurface hydro-environment has not been heavily affected because underground development has not yet reached deep subterranean areas. By researching yet more cities, at different stages of urbanization to that of Tokyo, Osaka and Bangkok, we plan to quantitatively examine urbanization and its influence on subsurface hydro-environments. This research will help limit damage to developing cities that are not yet experiencing subsurface failures but which are expected to confront these problems in the future.

Comparative Study of Effects of CO 2 Concentration and pH on Microbial Communities from a Saline Aquifer, a Depleted Oil Reservoir, and a Freshwater Aquifer

DOE PAGES

Gulliver, Djuna M.; Lowry, Gregory V.; Gregory, Kelvin B.

2016-08-09

Injected CO 2 from geologic carbon storage is expected to impact the microbial communities of proposed storage sites, such as depleted oil reservoirs and deep saline aquifers, as well as overlying freshwater aquifers at risk of receiving leaking CO 2. Microbial community change in these subsurface sites may affect injectivity of CO 2, permanence of stored CO 2, and shallow subsurface water quality. The effect of CO 2 concentration on the microbial communities in fluid collected from a depleted oil reservoir and a freshwater aquifer was examined at subsurface pressures and temperatures. The community was exposed to 0%, 1%, 10%,more » and 100% pCO 2 for 56 days. Bacterial community structure was analyzed through 16S rRNA gene clone libraries, and total bacterial abundance was estimated through quantitative polymerase chain reaction. Changes in the microbial community observed in the depleted oil reservoir samples and freshwater samples were compared to previous results from CO 2-exposed deep saline aquifer fluids. Overall, results suggest that CO 2 exposure to microbial communities will result in pH-dependent population change, and the CO 2-selected microbial communities will vary among sites. In conclusion, this is the first study to compare the response of multiple subsurface microbial communities at conditions expected during geologic carbon storage, increasing the understanding of environmental drivers for microbial community changes in CO 2-exposed environments.« less

Comparative Study of Effects of CO 2 Concentration and pH on Microbial Communities from a Saline Aquifer, a Depleted Oil Reservoir, and a Freshwater Aquifer

DOE Office of Scientific and Technical Information (OSTI.GOV)

Gulliver, Djuna M.; Lowry, Gregory V.; Gregory, Kelvin B.

Injected CO 2 from geologic carbon storage is expected to impact the microbial communities of proposed storage sites, such as depleted oil reservoirs and deep saline aquifers, as well as overlying freshwater aquifers at risk of receiving leaking CO 2. Microbial community change in these subsurface sites may affect injectivity of CO 2, permanence of stored CO 2, and shallow subsurface water quality. The effect of CO 2 concentration on the microbial communities in fluid collected from a depleted oil reservoir and a freshwater aquifer was examined at subsurface pressures and temperatures. The community was exposed to 0%, 1%, 10%,more » and 100% pCO 2 for 56 days. Bacterial community structure was analyzed through 16S rRNA gene clone libraries, and total bacterial abundance was estimated through quantitative polymerase chain reaction. Changes in the microbial community observed in the depleted oil reservoir samples and freshwater samples were compared to previous results from CO 2-exposed deep saline aquifer fluids. Overall, results suggest that CO 2 exposure to microbial communities will result in pH-dependent population change, and the CO 2-selected microbial communities will vary among sites. In conclusion, this is the first study to compare the response of multiple subsurface microbial communities at conditions expected during geologic carbon storage, increasing the understanding of environmental drivers for microbial community changes in CO 2-exposed environments.« less

The ODAS Italia 1 buoy: More than forty years of activity in the Ligurian Sea

NASA Astrophysics Data System (ADS)

Canepa, Elisa; Pensieri, Sara; Bozzano, Roberto; Faimali, Marco; Traverso, Pierluigi; Cavaleri, Luigi

2015-06-01

The Ligurian Sea plays a relevant role in driving both the circulation of the Western Mediterranean Sea and the weather and climate of the area. In order to better understand the peculiarities of this basin, the Oceanographic Data Acquisition System (ODAS) Italia 1 buoy was developed and deployed in the early '70s. Throughout the years, the buoy has been fitted with updated measuring and data acquiring systems. Since 2003 the buoy has been part of the Mediterranean Moored Multi-sensor Array network of fixed open ocean observatories with the W1-M3A identifier and presently constitutes one of the Mediterranean sites of the European FixO3 network. Recently, a deep-ocean sub-surface mooring line was, and is, deployed close to it in relation to specific projects. This multidisciplinary observing system is able to perform both long-term operational and ad-hoc monitoring from the lower atmosphere to the deep ocean. It is used for analysis of air-sea interaction processes, study of the physical proprieties of the water column, bio-geo-chemical monitoring of the sea, meteorological and oceanographic model evaluation, calibration of remotely sensed measurements, and development of innovative marine monitoring technologies. After reporting some historical notes and the description of the observing system, this paper summarises and reviews the main oceanographic and atmospheric studies performed during the last 15 years using the data acquired on board.

Marine Mammal Habitat in Ecuador: Seasonal Abundance and Environmental Distribution

DTIC Science & Technology

2010-06-01

derived macronutrients ) is enhanced by iron inputs derived from the island platform. The confluence of the Equatorial Undercurrent and Peru Current...is initiated by the subsurface derived macronutrients ) is enhanced by iron inputs derived from the island platform. The confluence of the Equatorial

Composition and structure of the shallow subsurface of Ceres revealed by crater morphology

NASA Astrophysics Data System (ADS)

Bland, Michael T.; Raymond, Carol A.; Schenk, Paul M.; Fu, Roger R.; Kneissl, Thomas; Pasckert, Jan Hendrik; Hiesinger, Harry; Preusker, Frank; Park, Ryan S.; Marchi, Simone; King, Scott D.; Castillo-Rogez, Julie C.; Russell, Christopher T.

2016-07-01

Before NASA’s Dawn mission, the dwarf planet Ceres was widely believed to contain a substantial ice-rich layer below its rocky surface. The existence of such a layer has significant implications for Ceres’s formation, evolution, and astrobiological potential. Ceres is warmer than icy worlds in the outer Solar System and, if its shallow subsurface is ice-rich, large impact craters are expected to be erased by viscous flow on short geologic timescales. Here we use digital terrain models derived from Dawn Framing Camera images to show that most of Ceres’s largest craters are several kilometres deep, and are therefore inconsistent with the existence of an ice-rich subsurface. We further show from numerical simulations that the absence of viscous relaxation over billion-year timescales implies a subsurface viscosity that is at least one thousand times greater than that of pure water ice. We conclude that Ceres’s shallow subsurface is no more than 30% to 40% ice by volume, with a mixture of rock, salts and/or clathrates accounting for the other 60% to 70%. However, several anomalously shallow craters are consistent with limited viscous relaxation and may indicate spatial variations in subsurface ice content.

Composition and structure of the shallow subsurface of Ceres revealed by crater morphology

USGS Publications Warehouse

Bland, Michael T.; Carol A. Raymond,; Schenk, Paul M.; Roger R. Fu,; Thomas Kneisl,; Hendrick Pasckert, Jan; Hiesinger, Harald; Frank Preusker,; Ryan S. Park,; Simone Marchi,; Scott King,; Castillo-Rogez, Julie C.; Christopher T. Russell,

2016-01-01

Before NASA’s Dawn mission, the dwarf planet Ceres was widely believed to contain a substantial ice-rich layer below its rocky surface. The existence of such a layer has significant implications for Ceres’s formation, evolution, and astrobiological potential. Ceres is warmer than icy worlds in the outer Solar System and, if its shallow subsurface is ice-rich, large impact craters are expected to be erased by viscous flow on short geologic timescales. Here we use digital terrain models derived from Dawn Framing Camera images to show that most of Ceres’s largest craters are several kilometres deep, and are therefore inconsistent with the existence of an ice-rich subsurface. We further show from numerical simulations that the absence of viscous relaxation over billion-year timescales implies a subsurface viscosity that is at least one thousand times greater than that of pure water ice. We conclude that Ceres’s shallow subsurface is no more than 30% to 40% ice by volume, with a mixture of rock, salts and/or clathrates accounting for the other 60% to 70%. However, several anomalously shallow craters are consistent with limited viscous relaxation and may indicate spatial variations in subsurface ice content.

A new cytotoxic sterol methoxymethyl ether from a deep water marine sponge Scleritoderma sp. cf. paccardi.

PubMed

Gunasekera, S P; Kelly-Borges, M; Longley, R E

1996-02-01

24(R)-Methyl-5 alpha-cholest-7-enyl 3 beta-methoxymethyl ether (1), a new sterol ether, has been isolated from a deep-water marine sponge Scleritoderma sp. cf. paccardi. Compound 1 exhibited in vitro cytotoxicity against the cultured murine P-388 tumor cell line with an IC50 of 2.3 micrograms/mL. The isolation and structure elucidation of 1 by NMR spectroscopy is described.

Picocyanobacteria and deep-ocean fluorescent dissolved organic matter share similar optical properties

NASA Astrophysics Data System (ADS)

Zhao, Zhao; Gonsior, Michael; Luek, Jenna; Timko, Stephen; Ianiri, Hope; Hertkorn, Norbert; Schmitt-Kopplin, Philippe; Fang, Xiaoting; Zeng, Qinglu; Jiao, Nianzhi; Chen, Feng

2017-05-01

Marine chromophoric dissolved organic matter (CDOM) and its related fluorescent components (FDOM), which are widely distributed but highly photobleached in the surface ocean, are critical in regulating light attenuation in the ocean. However, the origins of marine FDOM are still under investigation. Here we show that cultured picocyanobacteria, Synechococcus and Prochlorococcus, release FDOM that closely match the typical fluorescent signals found in oceanic environments. Picocyanobacterial FDOM also shows comparable apparent fluorescent quantum yields and undergoes similar photo-degradation behaviour when compared with deep-ocean FDOM, further strengthening the similarity between them. Ultrahigh-resolution mass spectrometry (MS) and nuclear magnetic resonance spectroscopy reveal abundant nitrogen-containing compounds in Synechococcus DOM, which may originate from degradation products of the fluorescent phycobilin pigments. Given the importance of picocyanobacteria in the global carbon cycle, our results indicate that picocyanobacteria are likely to be important sources of marine autochthonous FDOM, which may accumulate in the deep ocean.

Picocyanobacteria and deep-ocean fluorescent dissolved organic matter share similar optical properties

PubMed Central

Zhao, Zhao; Gonsior, Michael; Luek, Jenna; Timko, Stephen; Ianiri, Hope; Hertkorn, Norbert; Schmitt-Kopplin, Philippe; Fang, Xiaoting; Zeng, Qinglu; Jiao, Nianzhi; Chen, Feng

2017-01-01

Marine chromophoric dissolved organic matter (CDOM) and its related fluorescent components (FDOM), which are widely distributed but highly photobleached in the surface ocean, are critical in regulating light attenuation in the ocean. However, the origins of marine FDOM are still under investigation. Here we show that cultured picocyanobacteria, Synechococcus and Prochlorococcus, release FDOM that closely match the typical fluorescent signals found in oceanic environments. Picocyanobacterial FDOM also shows comparable apparent fluorescent quantum yields and undergoes similar photo-degradation behaviour when compared with deep-ocean FDOM, further strengthening the similarity between them. Ultrahigh-resolution mass spectrometry (MS) and nuclear magnetic resonance spectroscopy reveal abundant nitrogen-containing compounds in Synechococcus DOM, which may originate from degradation products of the fluorescent phycobilin pigments. Given the importance of picocyanobacteria in the global carbon cycle, our results indicate that picocyanobacteria are likely to be important sources of marine autochthonous FDOM, which may accumulate in the deep ocean. PMID:28513605

Listening to the Deep: live monitoring of ocean noise and cetacean acoustic signals.

PubMed

André, M; van der Schaar, M; Zaugg, S; Houégnigan, L; Sánchez, A M; Castell, J V

2011-01-01

The development and broad use of passive acoustic monitoring techniques have the potential to help assessing the large-scale influence of artificial noise on marine organisms and ecosystems. Deep-sea observatories have the potential to play a key role in understanding these recent acoustic changes. LIDO (Listening to the Deep Ocean Environment) is an international project that is allowing the real-time long-term monitoring of marine ambient noise as well as marine mammal sounds at cabled and standalone observatories. Here, we present the overall development of the project and the use of passive acoustic monitoring (PAM) techniques to provide the scientific community with real-time data at large spatial and temporal scales. Special attention is given to the extraction and identification of high frequency cetacean echolocation signals given the relevance of detecting target species, e.g. beaked whales, in mitigation processes, e.g. during military exercises. Copyright © 2011. Published by Elsevier Ltd.

A seismic refraction technique used for subsurface investigations at Meteor Crater, Arizona

NASA Technical Reports Server (NTRS)

Ackermann, H. D.; Godson, R. H.; Watkins, J. S.

1975-01-01

A seismic refraction technique for interpreting the subsurface shape and velocity distribution of an anomalous surface feature such as an impact crater is described. The method requires the existence of a relatively deep refracting horizon and combines data obtained from both standard shallow refraction spreads and distant offset shots by using the deep refractor as a source of initial arrivals. Results obtained from applying the technique to Meteor crater generally agree with the known structure of the crater deduced by other investigators and provide new data on an extensive fractured zone surrounding the crater. The breccia lens is computed to extend roughly 190 m below the crater floor, about 30 m less than the value deduced from early drilling data. Rocks around the crater are fractured as distant as 900 m from the rim crest and to a depth of at least 800 m beneath the crater floor.

Eukaryotic opportunists dominate the deep-subsurface biosphere in South Africa

PubMed Central

Borgonie, G.; Linage-Alvarez, B.; Ojo, A. O.; Mundle, S.O.C.; Freese, L B.; Van Rooyen, C.; Kuloyo, O.; Albertyn, J.; Pohl, C.; Cason, E. D.; Vermeulen, J.; Pienaar, C.; Litthauer, D.; Van Niekerk, H.; Van Eeden, J.; Lollar, B. Sherwood.; Onstott, T. C.; Van Heerden, E.

2015-01-01

Following the discovery of the first Eukarya in the deep subsurface, intense interest has developed to understand the diversity of eukaryotes living in these extreme environments. We identified that Platyhelminthes, Rotifera, Annelida and Arthropoda are thriving at 1.4 km depths in palaeometeoric fissure water up to 12,300 yr old in South African mines. Protozoa and Fungi have also been identified; however, they are present in low numbers. Characterization of the different species reveals that many are opportunistic organisms with an origin due to recharge from surface waters rather than soil leaching. This is the first known study to demonstrate the in situ distribution of biofilms on fissure rock faces using video documentation. Calculations suggest that food, not dissolved oxygen is the limiting factor for eukaryal population growth. The discovery of a group of Eukarya underground has important implications for the search for life on other planets in our solar system. PMID:26597082

Eukaryotic opportunists dominate the deep-subsurface biosphere in South Africa.

PubMed

Borgonie, G; Linage-Alvarez, B; Ojo, A O; Mundle, S O C; Freese, L B; Van Rooyen, C; Kuloyo, O; Albertyn, J; Pohl, C; Cason, E D; Vermeulen, J; Pienaar, C; Litthauer, D; Van Niekerk, H; Van Eeden, J; Sherwood Lollar, B; Onstott, T C; Van Heerden, E

2015-11-24

Following the discovery of the first Eukarya in the deep subsurface, intense interest has developed to understand the diversity of eukaryotes living in these extreme environments. We identified that Platyhelminthes, Rotifera, Annelida and Arthropoda are thriving at 1.4 km depths in palaeometeoric fissure water up to 12,300 yr old in South African mines. Protozoa and Fungi have also been identified; however, they are present in low numbers. Characterization of the different species reveals that many are opportunistic organisms with an origin due to recharge from surface waters rather than soil leaching. This is the first known study to demonstrate the in situ distribution of biofilms on fissure rock faces using video documentation. Calculations suggest that food, not dissolved oxygen is the limiting factor for eukaryal population growth. The discovery of a group of Eukarya underground has important implications for the search for life on other planets in our solar system.

Reconstructing a hydrogen-driven microbial metabolic network in Opalinus Clay rock.

PubMed

Bagnoud, Alexandre; Chourey, Karuna; Hettich, Robert L; de Bruijn, Ino; Andersson, Anders F; Leupin, Olivier X; Schwyn, Bernhard; Bernier-Latmani, Rizlan

2016-10-14

The Opalinus Clay formation will host geological nuclear waste repositories in Switzerland. It is expected that gas pressure will build-up due to hydrogen production from steel corrosion, jeopardizing the integrity of the engineered barriers. In an in situ experiment located in the Mont Terri Underground Rock Laboratory, we demonstrate that hydrogen is consumed by microorganisms, fuelling a microbial community. Metagenomic binning and metaproteomic analysis of this deep subsurface community reveals a carbon cycle driven by autotrophic hydrogen oxidizers belonging to novel genera. Necromass is then processed by fermenters, followed by complete oxidation to carbon dioxide by heterotrophic sulfate-reducing bacteria, which closes the cycle. This microbial metabolic web can be integrated in the design of geological repositories to reduce pressure build-up. This study shows that Opalinus Clay harbours the potential for chemolithoautotrophic-based system, and provides a model of microbial carbon cycle in deep subsurface environments where hydrogen and sulfate are present.

Wireless sensors for measuring sub-surface processes in firn

NASA Astrophysics Data System (ADS)

Bagshaw, Elizabeth; Karlsson, Nanna; Lishman, Ben; Bun Lok, Lai; Burrow, Stephen; Wadham, Jemma; Clare, Lindsay; Nicholls, Keith; Corr, Hugh; Brennan, Paul; Eisen, Olaf; Dahl-Jensson, Dorthe

2017-04-01

Subsurface processes exert controls on meltwater storage and densification within firn, which are, by their nature, challenging to measure. We present the results of proof-of-concept tests of wireless ETracer sensors with the East Greenland Ice Core Project (EGRIP) at the Northeast Greenland Ice Stream. ETracers equipped with temperature, pressure and electrical conductivity sensors were deployed in firn boreholes at the centre and the shear margins of the ice stream. Data were returned from a 60m deep test borehole, and continuously for 4 weeks from two 14m deep boreholes, to autonomous receivers at the surface. Two receivers were tested: a station using software radio and PC, and the BAS/UCL ApRES radar system. The sensors were used to track high resolution changes in temperature with depth, changes in densification rates in response to accumulation events and snow redistribution, and the presence of liquid water within the firn.

Reconstructing a hydrogen-driven microbial metabolic network in Opalinus Clay rock

PubMed Central

Bagnoud, Alexandre; Chourey, Karuna; Hettich, Robert L.; de Bruijn, Ino; Andersson, Anders F.; Leupin, Olivier X.; Schwyn, Bernhard; Bernier-Latmani, Rizlan

2016-01-01

The Opalinus Clay formation will host geological nuclear waste repositories in Switzerland. It is expected that gas pressure will build-up due to hydrogen production from steel corrosion, jeopardizing the integrity of the engineered barriers. In an in situ experiment located in the Mont Terri Underground Rock Laboratory, we demonstrate that hydrogen is consumed by microorganisms, fuelling a microbial community. Metagenomic binning and metaproteomic analysis of this deep subsurface community reveals a carbon cycle driven by autotrophic hydrogen oxidizers belonging to novel genera. Necromass is then processed by fermenters, followed by complete oxidation to carbon dioxide by heterotrophic sulfate-reducing bacteria, which closes the cycle. This microbial metabolic web can be integrated in the design of geological repositories to reduce pressure build-up. This study shows that Opalinus Clay harbours the potential for chemolithoautotrophic-based system, and provides a model of microbial carbon cycle in deep subsurface environments where hydrogen and sulfate are present. PMID:27739431

Diatreme-forming volcanism in a deep-water faulted basin margin: Lower Cretaceous outcrops from the Basque-Cantabrian Basin, western Pyrenees

NASA Astrophysics Data System (ADS)

Agirrezabala, L. M.; Sarrionandia, F.; Carracedo-Sánchez, M.

2017-05-01

Deep-water diatremes and related eruption products are rare and they have been mainly interpreted from seismic-based data. We present lithofacies and geochemistry analysis of two Lower Cretaceous (Albian) deep-water diatremes and associated extra-diatreme volcaniclastic deposits at a well-exposed outcrop of the northern margin of the Basque-Cantabrian Basin (north Iberia). The studied diatremes are located along a N-S trending Albian fault and present sub-circular to elongate sections, inward-dipping steep walls and smooth to very irregular contacts with the host rocks. They are filled by un-bedded mixed breccias constituted by juvenile and lithic (sedimentary, igneous and metamorphic) clasts. Their textural and structural characteristics indicate that they represent lower diatreme and root zones of the volcanic system. Mapping, geochemical and petrologic data from diatreme-fills support their genetic relationship with the extra-diatreme volcaniclastic beds, which would be generated by the eruption of an incipiently vesicular trachytic magma. Studied diatremes result from multiple explosions that lasted over an estimated period of 65 k.y. during the Late Albian (H. varicosum ammonite Zone, pro parte), and reached up to a maximum subsurface depth of ca. 370 m, whereas extra-diatreme volcaniclastic beds were formed by eruption-fed gravity-driven flows on the deep-water (200-500 m) paleoseabed. Petrological features suggest that these diatremes and related extra-diatreme deposits resulted mainly from phreatomagmatic explosions. In addition, organic geochemistry data indicate that the thermal effect of the trachytic melts on the sedimentary host caused the conversion of the abundant organic matter to methane and CO2 gases, which could also contribute significantly to the overpressure necessary for the explosive fragmentation of the magma and the host rocks. Considering the inferred confining pressures (ca. 8-11 MPa) and the possible participation of unvesiculated (or degassed) melts, our results stress the importance of active hydraulic structures (e.g. faults) and the supplementary driving forces (e.g. thermogenic gases) in the formation of deep-water marine diatremes.

Deep Water, Shallow Water: Marine Animal Homes.

ERIC Educational Resources Information Center

Soltow, Willow

1984-01-01

Examines the diversity of life in the oceans and ways in which teachers can explore ocean habitats with their students without leaving the classroom. Topic areas considered include: restricted habitats, people and marine habitats, pollution, incidental kills, and the commercial and recreational uses of marine waters. (JN)

Carbon mineralization in surface and subsurface soils in a subtropical mixed forest in central China

NASA Astrophysics Data System (ADS)

Liu, F.; Tian, Q.

2014-12-01

About a half of soil carbon is stored in subsurface soil horizons, their dynamics have the potential to significantly affect carbon balancing in terrestrial ecosystems. However, the main factors regulating subsurface soil carbon mineralization are poorly understood. As affected by mountain humid monsoon, the subtropical mountains in central China has an annual precipitation of about 2000 mm, which causes strong leaching of ions and nutrition. The objectives of this study were to monitor subsurface soil carbon mineralization and to determine if it is affected by nutrient limitation. We collected soil samples (up to 1 m deep) at three locations in a small watershed with three soil layers (0-10 cm, 10-30 cm, below 30 cm). For the three layers, soil organic carbon (SOC) ranged from 35.8 to 94.4 mg g-1, total nitrogen ranged from 3.51 to 8.03 mg g-1, microbial biomass carbon (MBC) ranged from 170.6 to 718.4 μg g-1 soil. We measured carbon mineralization with the addition of N (100 μg N/g soil), P (50 μg P/g soil), and liable carbon (glucose labeled by 5 atom% 13C, at five levels: control, 10% MBC, 50% MBC, 100% MBC, 200% MBC). The addition of N and P had negligible effects on CO2 production in surface soil layers; in the deepest soil layer, the addition of N and P decreased CO2 production from 4.32 to 3.20 μg C g-1 soil carbon h-1. Glucose addition stimulated both surface and subsurface microbial mineralization of SOC, causing priming effects. With the increase of glucose addition rate from 10% to 200% MBC, the primed mineralization rate increased from 0.19 to 3.20 μg C g-1 soil carbon h-1 (fifth day of glucose addition). The magnitude of priming effect increased from 28% to 120% as soil layers go deep compare to the basal CO2 production (fifth day of 200% MBC glucose addition, basal CO2 production rate for the surface and the deepest soil was 11.17 and 2.88 μg C g-1 soil carbon h-1). These results suggested that the mineralization of subsurface carbon is more sensitive to nutrient addition, and carbon mineralization in this layer is likely limited by carbon availability. Thus, any changes in environment conditions (global warming, nitrogen deposition, precipitation pattern change etc.) that affect the distribution of fresh carbon in soil profiles could then stimulate the release of deep soil carbon.

A mosaic of diverse ideas: The ecological legacy of J. Frederick Grassle

USGS Publications Warehouse

Snelgrove, Paul V.R; Petrecca, Rose; Stocks, Karen I.; Van Dover, Cindy L.; Zimmer, Cheryl A.

2009-01-01

During the 40 years (and counting) of his scientific career, J. Frederick Grassle has made fundamental contributions to our understanding of marine ecosystems from coral reefs to deep-sea sediments. His advocacy and passion for marine biodiversity in the form of myriad groundbreaking studies and influential reviews, his generosity of ideas and capacity to catalyze and inspire those working with him as well as the science community in general, his breakthroughs in improved ocean observation, his marine science infrastructure initiatives, together with his tireless persistence, have helped lead to major shifts in approaches to marine science and the shape of modern ocean studies to one that favours multidisciplinary research, teamwork, continuous, long-term observation, in situ experimentation, recognition of the importance of marine biodiversity, and global cooperation on research and data sharing. In shallow-water ecology, he co-discovered sibling species of Capitella spp., important not only because it is a key pollution indicator but also because the work helped to pave the way for the discovery of numerous sibling species in other taxa with major ramifications for ecological understanding. He was also a key player in the West Falmouth oil spill study which, along with complementary mesocosm experiments, remains one of the most important and detailed studies of its kind. He was also a lead player in the first biological expedition to hydrothermal vents and wrote the seminal articles that helped to inspire the flurry of vent research that followed. He is perhaps best known for his deep-sea work, where he brought submersibles to the forefront as a sampling tool, brought experimental manipulative studies to the primarily descriptive discipline of deep-sea benthic ecology, and generated tremendous excitement, debate, and rekindled interest in marine biodiversity with the first quantitative estimate of global deep-sea diversity. His efforts to document marine biodiversity resulted in the international Census of Marine Life, and his emphasis on the need for continuous, long-term ocean observation has led to breakthroughs in international cooperation in cabled observatories such as LEO-15. These efforts have also enhanced efforts to integrate ocean data on a global scale in platforms such as the Ocean Biogeographic Information System (OBIS). The diversity of his contributions to marine science mirror the immense marine diversity he has recognized, documented, and championed so effectively over the last four decades.

Subsurface Environment Sampler for Improved In Situ Characterization of Subsurface Microbial Communities

NASA Astrophysics Data System (ADS)

Barnhart, E. P.; Ruppert, L. F.; Orem, W. H.; McIntosh, J. C.; Cunningham, A. B.; Fields, M. W.; Hiebert, R.; Hyatt, R.

2016-12-01

There is an increasing threat that deep aquifers, an important drinking water resource, may be contaminated by the extraction and transport of fossil fuels. This threat increases the need for improved groundwater monitoring and the ability to predict the extent to which microbial activity may remediate such contamination. The characterization of subsurface microbial communities could provide an ideal biomonitoring tool for the assessment of subsurface contamination due to prokaryotes environmental ubiquity, rapidity of response to environmental perturbation and the important role they play in hydrocarbon degradation and bioremediation. New DNA sequencing technologies provide the opportunity to cost-effectively identify the vast subsurface microbial ecosystem, but use of this new technology is restricted due to issues with sampling. Prior subsurface microbiology studies have relied on core samples that are expensive to obtain hard to collect aseptically and/or ground water samples that do not reflect in situ microbial densities or activities. The development of down-well incubation of sterile sediment with a Diffusive Microbial Sampler (DMS) has emerged as an alternative method to sample subsurface microbial communities that minimizes cost and contamination issues associated with traditional methods. We have designed a Subsurface Environment Sampler with a DMS module that could enable the anaerobic transport of the in situ microbial community from the field for laboratory bioremediation studies. This sampler could provide an inexpensive and standard method for subsurface microbial sampling which would make this tool useful for Federal, State, private and local agencies interested in monitoring contamination or the effectiveness of bioremediation activities in subsurface aquifers.

Ten Simple Rules for Effective Online Outreach: What a decade at Deep Sea News has taught us.

NASA Astrophysics Data System (ADS)

Martini, K. I.; McClain, C. R.; Bik, H.; Helm, R. R.; Long, D.; Warneke, A. M.; Dove, A. D.; Goldstein, M. C.; MacPherson, R.; Zelnio, K. A.

2016-12-01

Deep Sea News was established in 2005 and has become one of the most popular marine science blogs on the internet, with 7000 hits/day and over 8 million cumulative hits. Written by 6 practicing Marine Scientists with diverse interests, expertise and a deep curiosity for science, our mission statement is " Demystifying and humanizing science in an open conversation that instills passion, awe, and responsibility for the oceans." We leverage humor and popular culture to make complex science and conservation stories accessible. We will discuss what worked, what didn't, and our path forward in the changing social media landscape

Shallow Aquifer Vulnerability From Subsurface Fluid Injection at a Proposed Shale Gas Hydraulic Fracturing Site

NASA Astrophysics Data System (ADS)

Wilson, M. P.; Worrall, F.; Davies, R. J.; Hart, A.

2017-11-01

Groundwater flow resulting from a proposed hydraulic fracturing (fracking) operation was numerically modeled using 91 scenarios. Scenarios were chosen to be a combination of hydrogeological factors that a priori would control the long-term migration of fracking fluids to the shallow subsurface. These factors were induced fracture extent, cross-basin groundwater flow, deep low hydraulic conductivity strata, deep high hydraulic conductivity strata, fault hydraulic conductivity, and overpressure. The study considered the Bowland Basin, northwest England, with fracking of the Bowland Shale at ˜2,000 m depth and the shallow aquifer being the Sherwood Sandstone at ˜300-500 m depth. Of the 91 scenarios, 73 scenarios resulted in tracked particles not reaching the shallow aquifer within 10,000 years and 18 resulted in travel times less than 10,000 years. Four factors proved to have a statistically significant impact on reducing travel time to the aquifer: increased induced fracture extent, absence of deep high hydraulic conductivity strata, relatively low fault hydraulic conductivity, and magnitude of overpressure. Modeling suggests that high hydraulic conductivity formations can be more effective barriers to vertical flow than low hydraulic conductivity formations. Furthermore, low hydraulic conductivity faults can result in subsurface pressure compartmentalization, reducing horizontal groundwater flow, and encouraging vertical fluid migration. The modeled worst-case scenario, using unlikely geology and induced fracture lengths, maximum values for strata hydraulic conductivity and with conservative tracer behavior had a particle travel time of 130 years to the base of the shallow aquifer. This study has identified hydrogeological factors which lead to aquifer vulnerability from shale exploitation.

Single-Cell Genome and Group-Specific dsrAB Sequencing Implicate Marine Members of the Class Dehalococcoidia (Phylum Chloroflexi) in Sulfur Cycling

PubMed Central

Cooper, Myriel; Schreiber, Lars; Lloyd, Karen G.; Baker, Brett J.; Petersen, Dorthe G.; Jørgensen, Bo Barker; Stepanauskas, Ramunas; Reinhardt, Richard; Schramm, Andreas; Loy, Alexander; Adrian, Lorenz

2016-01-01

ABSTRACT The marine subsurface sediment biosphere is widely inhabited by bacteria affiliated with the class Dehalococcoidia (DEH), phylum Chloroflexi, and yet little is known regarding their metabolisms. In this report, genomic content from a single DEH cell (DEH-C11) with a 16S rRNA gene that was affiliated with a diverse cluster of 16S rRNA gene sequences prevalent in marine sediments was obtained from sediments of Aarhus Bay, Denmark. The distinctive gene content of this cell suggests metabolic characteristics that differ from those of known DEH and Chloroflexi. The presence of genes encoding dissimilatory sulfite reductase (Dsr) suggests that DEH could respire oxidized sulfur compounds, although Chloroflexi have never been implicated in this mode of sulfur cycling. Using long-range PCR assays targeting DEH dsr loci, dsrAB genes were amplified and sequenced from various marine sediments. Many of the amplified dsrAB sequences were affiliated with the DEH Dsr clade, which we propose equates to a family-level clade. This provides supporting evidence for the potential for sulfite reduction by diverse DEH species. DEH-C11 also harbored genes encoding reductases for arsenate, dimethyl sulfoxide, and halogenated organics. The reductive dehalogenase homolog (RdhA) forms a monophyletic clade along with RdhA sequences from various DEH-derived contigs retrieved from available metagenomes. Multiple facts indicate that this RdhA may not be a terminal reductase. The presence of other genes indicated that nutrients and energy may be derived from the oxidation of substituted homocyclic and heterocyclic aromatic compounds. Together, these results suggest that marine DEH play a previously unrecognized role in sulfur cycling and reveal the potential for expanded catabolic and respiratory functions among subsurface DEH. PMID:27143384

New procedure for recovering extra- and intracellular DNA from marine sediment samples

NASA Astrophysics Data System (ADS)

Alawi, M.; Kallmeyer, J.

2012-12-01

Extracellular DNA (eDNA) is a ubiquitous biological compound in aquatic sediment and soil. Despite major methodological advances, analysis of DNA from sediment is still technically challenging, not just because of the co-elution of inhibitory substances, but also due to co-elution of extracellular DNA, which potentially leads to an overestimate of the actual diversity. Previous studies suggested that eDNA might play an important role in biogeochemical element cycling, horizontal gene transfer and stabilization of biofilm structures. Several protocols based on the precipitation of eDNA e.g. with CTAB and ethanol have already been published. However, using these methods we did not succeed in quantifying very low amounts of eDNA (e.g. <1μg eDNA/g dry wt) in marine sediment even when using DNA carriers like glycogen. Since the recovery of eDNA by precipitation strongly depends on its concentration, these previously published procedures are not adequate for deep biosphere sediment due to the low eDNA content. We have focused on the question whether eDNA could be a source of nitrogen and phosphorus for microbes in the subseafloor biosphere. Therefore we developed a new method for the (semi)-quantitative extraction of eDNA from sediment. The new extraction procedure is based on sequential washing of the sediment to remove simultaneously eDNA and microbial cells without lysing them. After separation of the cells by centrifugation, the eDNA was extracted from the supernatant and purified by adsorption onto a solid phase, followed by removal of the solids and subsequent elution of the pure eDNA. Intracellular DNA (iDNA) was extracted and purified from the cell pellet using a commercial DNA extraction kit. Additional to a very low detection limit and reproducible quantification, this new method allows separation and purification of both extracellular and intracellular DNA to an extent that inhibitors are removed and downstream applications like PCR can be performed. To evaluate the new extraction method two sediments with rather opposing composition were analyzed. Sediment from the South Pacific Gyre, the most oligotrophic oceanic region on earth and organic-rich Baltic Sea sediment (Northern Germany) were processed. Using this new procedure high purity genomic iDNA and eDNA with a molecular size range between 20 bp and 50k bp can be simultaneously recovered even from very oligotrophic sediment with very low cell abundances. The main fraction of recovered eDNA was suitable for downstream applications like PCR and had a molecular size that indicates minimal shearing. Despite about two decades of research many questions about deep subsurface life remain unanswered. The fact that microbes can be found even in deep oligotrophic marine sediment raises the fundamental questions of the types and availability of substrates and their biogeochemical cycling. This is the first study that provides evidence that eDNA is an important potential substrate for microorganisms in the deep biosphere. Also, our results show a link between cell counts and eDNA content, indicating that the eDNA pool in the investigated sediment consist mainly of microbial DNA. Comparative sequence analysis of extracted iDNA and eDNA will provide deeper insights into the origin and turnover of eDNA and the apparent microbial community composition in the deep biosphere.

Microbial community assembly and evolution in subseafloor sediment.

PubMed

Starnawski, Piotr; Bataillon, Thomas; Ettema, Thijs J G; Jochum, Lara M; Schreiber, Lars; Chen, Xihan; Lever, Mark A; Polz, Martin F; Jørgensen, Bo B; Schramm, Andreas; Kjeldsen, Kasper U

2017-03-14

Bacterial and archaeal communities inhabiting the subsurface seabed live under strong energy limitation and have growth rates that are orders of magnitude slower than laboratory-grown cultures. It is not understood how subsurface microbial communities are assembled and whether populations undergo adaptive evolution or accumulate mutations as a result of impaired DNA repair under such energy-limited conditions. Here we use amplicon sequencing to explore changes of microbial communities during burial and isolation from the surface to the >5,000-y-old subsurface of marine sediment and identify a small core set of mostly uncultured bacteria and archaea that is present throughout the sediment column. These persisting populations constitute a small fraction of the entire community at the surface but become predominant in the subsurface. We followed patterns of genome diversity with depth in four dominant lineages of the persisting populations by mapping metagenomic sequence reads onto single-cell genomes. Nucleotide sequence diversity was uniformly low and did not change with age and depth of the sediment. Likewise, there was no detectable change in mutation rates and efficacy of selection. Our results indicate that subsurface microbial communities predominantly assemble by selective survival of taxa able to persist under extreme energy limitation.

75 FR 49420 - Fisheries of the Northeastern United States; Atlantic Deep-Sea Red Crab Fisheries; 2010 Atlantic...

Federal Register 2010, 2011, 2012, 2013, 2014

2010-08-13

.... 100513223-0289-02] RIN 0648-AY88 Fisheries of the Northeastern United States; Atlantic Deep-Sea Red Crab Fisheries; 2010 Atlantic Deep-Sea Red Crab Specifications In- season Adjustment AGENCY: National Marine...-sea (DAS) allocation for the Atlantic deep- sea red crab fishery that were implemented in May 2010...

75 FR 7435 - Fisheries of the Northeastern United States; Atlantic Deep-Sea Red Crab Fisheries; 2010 Atlantic...

Federal Register 2010, 2011, 2012, 2013, 2014

2010-02-19

.... 100105009-0053-01] RIN 0648-AY51 Fisheries of the Northeastern United States; Atlantic Deep-Sea Red Crab Fisheries; 2010 Atlantic Deep-Sea Red Crab Specifications AGENCY: National Marine Fisheries Service (NMFS... comments. SUMMARY: NMFS proposes 2010 specifications for the Atlantic deep-sea red crab fishery, including...

75 FR 27219 - Fisheries of the Northeastern United States; Atlantic Deep-Sea Red Crab Fisheries; 2010 Atlantic...

Federal Register 2010, 2011, 2012, 2013, 2014

2010-05-14

.... 100105009-0167-02] RIN 0648-AY51 Fisheries of the Northeastern United States; Atlantic Deep-Sea Red Crab Fisheries; 2010 Atlantic Deep-Sea Red Crab Specifications AGENCY: National Marine Fisheries Service (NMFS... final specifications for the 2010 Atlantic deep- sea red crab fishery, including a target total...

Detection of microbes in the subsurface

NASA Technical Reports Server (NTRS)

White, David C.; Tunlid, Anders

1989-01-01

The search for evidence of microbial life in the deep subsurface of Earth has implications for the Mars Rover Sampling Return Missions program. If suitably protected environments can be found on Mars then the instrumentation to detect biomarkers could be used to examine the molecular details. Finding a lipid in Martian soil would represent possibly the simplest test for extant or extinct life. A device that could do a rapid extraction possibly using the supercritical fluid technology under development now with a detection of the carbon content would clearly indicate a sample to be returned.

Subsurface geology of the Lusi region: preliminary results from a comprehensive seismic-stratigraphic study.

NASA Astrophysics Data System (ADS)

Moscariello, Andrea; Do Couto, Damien; Lupi, Matteo; Mazzini, Adriano

2016-04-01

We investigate the subsurface data of a large sector in the Sidoarjo district (East Java, Indonesia) where the sudden catastrophic Lusi eruption started the 26th May 2006. Our goal is to understand the stratigraphic and structural features which can be genetically related to the surface manifestations of deep hydrothermal fluids and thus allow us to predict possible future similar phenomena in the region. In the framework of the Lusi Lab project (ERC grant n° 308126) we examined a series of densely spaced 2D reflection commercial seismic lines This allowed the reconstruction of the lateral variability of key stratigraphic horizons as well as the main tectonic features. In particular, we shed light on the deep structure of the Watukosek fault system and the associated fracture corridors crossing the entire stratigraphic successions. To the South-West, when approaching the volcanic complex, we could identify a clear contrast in seismic facies between chaotic volcanoclastic wedges and clastic-prone sedimentary successions as well as between the deeper stratigraphic units consisting of carbonates and lateral shales units. The latter show possible ductile deformation associated to fault-controlled diapirism which control in turns deformation of overlying stratigraphic units and deep geo-fluids circulation. Large collapse structures recognized in the study area (e.g. well PRG-1) are interpreted as the results of shale movement at depth. Similarly to Lusi, vertical deformation zones ("pipes"), likely associated with deeply rooted strike-slip systems seem to be often located at the interface between harder carbonate rocks forming isolated build ups and the laterally nearby clastic (shale-prone)-units. The mechanisms of deformation of structural features (strike vs dip slip systems) which may affect either the basement rock or the overlying deeper stratigraphic rocks is also being investigated to understand the relationship between deep and shallower (i.e. meteoric) fluid circulation. Seismic stratigraphic study of the basin margin (closer to volcanic accumulations) will also allow reconstructing the relationships between present and past volcanic activity recorded in the deep subsurface with the genesis of piercement structures and development of vertical deformation zones

Ocean Drilling Program Contributions to the Understanding of the Deep Subsurface Biosphere

NASA Astrophysics Data System (ADS)

Fisk, M. R.

2003-12-01

Tantalizing evidence for microbes in oceanic basalts has been reported for a few decades, but it was from rocks cored on Ocean Drilling Program (ODP) Leg 148 in 1993 that the first clear-cut evidence of microbial invasion of ocean basalts was obtained. (Work on ODP legs, starting with Leg 112 in 1986, had already revealed the presence of significant microbial biomass in sediments.) In 1997 ODP created the Deep Biosphere Program Planning Group to promote the investigation of the microbiology of the ocean crust. In 1999 ODP built a microbiology lab on the JOIDES Resolution, and used the lab that year (Legs 185 and 187) to test the amount of microbial contamination introduced into rocks during drilling and to establish cultures from cored basalts. These experiments have been repeated on several legs since then. The development of CORKs has permitted long-term sampling of subseafloor fluids, and microorganisms have been recovered from CORKed holes. Thus, ODP made it possible for the scientific community to address major questions about the biology of the igneous crust, such as, (1) What microbes are present? (2) How abundant are they? (3) How are they distributed? DNA from basalts and subseafloor fluids reveal what types of organisms are present. Cell abundance and biomass have been estimated based on cell counts and on organic content of basalts. Surveys of basalts in DSDP/ODP repositories indicate that microorganisms are ubiquitous in the igneous crust. Microorganisms are found in rocks that are close to 100° C. They are found as deep as 1500 m below the sea floor, and in rocks as young as a few years and as old as 170 million years. Because of the vast size of the habitat, microorganism, even if present in small numbers, could be a significant fraction of the Earth's biomass. In a short time ODP contributed to advances in our understanding of the oceanic subsurface biosphere. Answers to other significant questions such as: (1) How do the microorganisms live?, (2) What impact do subsurface microorganisms have on the surface biosphere? (3) And, what roles do the subsurface biosphere play in element cycling? will be answered by future drilling. The International Ocean Drilling Program (IODP) is in the enviable position of providing support to address these key questions about the Earth's subsurface biosphere.

Looking For a Needle in the Haystack: Deciphering Indigenous 1.79 km Deep Subsurface Microbial Communities from Drilling Mud Contaminants Using 454 Pyrotag Sequencing

NASA Astrophysics Data System (ADS)

Dong, Y.; Cann, I.; Mackie, R.; Price, N.; Flynn, T. M.; Sanford, R.; Miller, P.; Chia, N.; Kumar, C. G.; Kim, P.; Sivaguru, M.; Fouke, B. W.

2010-12-01

Knowledge of the composition, structure and activity of microbial communities that live in deeply buried sedimentary rocks is fundamental to the future of subsurface biosphere stewardship as it relates to hydrocarbon exploration and extraction, carbon sequestration, gas storage and groundwater management. However, the study of indigenous subsurface microorganisms has been limited by the technical challenges of collecting deep formation water samples that have not been heavily contaminated by the mud used to drill the wells. To address this issue, a “clean-sampling method” deploying the newly developed Schlumberger Quicksilver MDT probe was used to collect a subsurface sample at a depth of 1.79 km (5872 ft) from an exploratory well within Cambrian-age sandstones in the Illinois Basin. This yielded a formation water sample that was determined to have less than 4% drilling mud contamination based on tracking changes in the aqueous geochemistry of the formation water during ~3 hours of pumping at depth prior to sample collection. A suite of microscopy and culture-independent molecular analyses were completed using the DNA extracted from microbial cells in the formation water, which included 454 amplicon pyrosequencing that targeted the V1-V3 hypervariable region of bacterial 16S rRNA gene sequences. Results demonstrated an extremely low diversity microbial community living in formation water at 1.79 km-depth. More than 95 % of the total V1-V3 pyrosequencing reads (n=11574) obtained from the formation water were affiliated with a halophilic γ-proteobacterium and most closely related to the genus Halomonas. In contrast, about 3 % of the V1-V3 sequences in the drilling mud library (n=13044) were classified as genus Halomonas but were distinctly different and distantly related to the formation water Halomonas detected at 1.79 km-depth. These results were consistent with those obtained using a suite of other molecular screens (e.g., Terminal-Restriction Fragment Length Polymorphism (T-RFLP) and the initial full length 16S rRNA amplicon libraries) and bioinformatic analyses (e.g., 16S rRNA and Open Reading Frame (ORF) calls established from the 454 metagenomic community analyses). Functional pathway modeling is underway to evaluate the adaptation of this indigenous microbial community to the hydrologic and geologic history of the deep subsurface environment of the Illinois Basin.

Indicators used to monitor subsurface oil during the Deepwater Horizon Event

EPA Science Inventory

The Gulf of Mexico Deepwater Horizon oil spill was the largest accidental marine spill in the history of the petroleum industry. The spill was also unprecedented due to the extreme depth of the wellhead leak within the ocean, posing unique challenges to the monitoring efforts, w...

Acidification of subsurface coastal waters enhanced by eutrophication

EPA Science Inventory

Uptake of fossil-fuel carbon dioxide (CO2) from the atmosphere has acidified the surface ocean by ~0.1 pH units and driven down the carbonate saturation state. Ocean acidification is a threat to marine ecosystems and may alter key biogeochemical cycles. Coastal oceans have also b...

Middle Jurassic incised valley fill (eolian/estuarine) and nearshore marine petroleum reservoirs, Powder River Basin

USGS Publications Warehouse

Ahlbrandt, T.S.; Fox, J.E.

1997-01-01

Paleovalleys incised into the Triassic Spearfish Formation (Chugwater equivalent) are filled with a vertical sequence of eolian, estuarine, and marine sandstones of the Middle Jurassic (Bathonian age) Canyon Springs Sandstone Member of the Sundance Formation. An outcrop exemplifying this is located at Red Canyon in the southern Black Hills, Fall River County, South Dakota. These paleovalleys locally have more than 300 ft of relief and are as much as several miles wide. Because they slope in a westerly direction, and Jurassic seas transgressed into the area from the west there was greater marine-influence and more stratigraphic complexity in the subsurface, to the west, as compared to the Black Hills outcrops. In the subsurface two distinctive reservoir sandstone beds within the Canyon Springs Sandstone Member fill the paleovalleys. These are the eolian lower Canyon Springs unit (LCS) and the estuarine upper Canyon Springs unit (UCS), separated by the marine "Limestone Marker" and estuarine "Brown Shale". The LCS and UCS contain significant proven hydrocarbon reservoirs in Wyoming (about 500 MMBO in-place in 9 fields, 188 MMBO produced through 1993) and are prospective in western South Dakota, western Nebraska and northern Colorado. Also prospective is the Callovian-age Hulett Sandstone Member which consists of multiple prograding shoreface to foreshore parasequences, as interpreted from the Red Canyon locality. Petrographic, outcrop and subsurface studies demonstrate the viability of both the Canyon Springs Sandstone and Hulett Sandstone members as superior hydrocarbon reservoirs in both stratigraphic and structural traps. Examples of fields with hydrocarbon production from the Canyon Springs in paleovalleys include Lance Creek field (56 MMBO produced) and the more recently discovered Red Bird field (300 MBO produced), both in Niobrara County, Wyoming. At Red Bird field the primary exploration target was the Pennsylvanian "Leo sands" of the Minnelusa Formation, and production from the Canyon Springs was not anticipated. Canyon Springs reservoirs are easily bypassed because they are relatively unconsolidated, underpressured, low-resistivity, and difficult to evaluate from petrophysics, drill-stem tests, or well cuttings.

Connectivity to the surface determines diversity patterns in subsurface aquifers of the Fennoscandian shield.

PubMed

Hubalek, Valerie; Wu, Xiaofen; Eiler, Alexander; Buck, Moritz; Heim, Christine; Dopson, Mark; Bertilsson, Stefan; Ionescu, Danny

2016-10-01

Little research has been conducted on microbial diversity deep under the Earth's surface. In this study, the microbial communities of three deep terrestrial subsurface aquifers were investigated. Temporal community data over 6 years revealed that the phylogenetic structure and community dynamics were highly dependent on the degree of isolation from the earth surface biomes. The microbial community at the shallow site was the most dynamic and was dominated by the sulfur-oxidizing genera Sulfurovum or Sulfurimonas at all-time points. The microbial community in the meteoric water filled intermediate aquifer (water turnover approximately every 5 years) was less variable and was dominated by candidate phylum OD1. Metagenomic analysis of this water demonstrated the occurrence of key genes for nitrogen and carbon fixation, sulfate reduction, sulfide oxidation and fermentation. The deepest water mass (5000 year old waters) had the lowest taxon richness and surprisingly contained Cyanobacteria. The high relative abundance of phylogenetic groups associated with nitrogen and sulfur cycling, as well as fermentation implied that these processes were important in these systems. We conclude that the microbial community patterns appear to be shaped by the availability of energy and nutrient sources via connectivity to the surface or from deep geological processes.

Model Fit to Experimental Data for Foam-Assisted Deep Vadose Zone Remediation

DOE Office of Scientific and Technical Information (OSTI.GOV)

Roostapour, A.; Lee, G.; Zhong, Lirong

2014-01-15

Foam has been regarded as a promising means of remeidal amendment delivery to overcome subsurface heterogeneity in subsurface remediation processes. This study investigates how a foam model, developed by Method of Characteristics and fractional flow analysis in the companion paper of Roostapour and Kam (2012), can be applied to make a fit to a set of existing laboratory flow experiments (Zhong et al., 2009) in an application relevant to deep vadose zone remediation. This study reveals a few important insights regarding foam-assisted deep vadose zone remediation: (i) the mathematical framework established for foam modeling can fit typical flow experiments matchingmore » wave velocities, saturation history , and pressure responses; (ii) the set of input parameters may not be unique for the fit, and therefore conducting experiments to measure basic model parameters related to relative permeability, initial and residual saturations, surfactant adsorption and so on should not be overlooked; and (iii) gas compressibility plays an important role for data analysis, thus should be handled carefully in laboratory flow experiments. Foam kinetics, causing foam texture to reach its steady-state value slowly, may impose additional complications.« less

Sorting Out the Ocean Crust Deep Biosphere with Single Cell Omics Approaches

NASA Astrophysics Data System (ADS)

Orcutt, B.; D'Angelo, T.; Goordial, J.; Jones, R. M.; Carr, S. A.

2017-12-01

Although oceanic crust comprises a large habitat for subsurface life, the structure, function, and dynamics of microbial communities living on rocks in the subsurface are poorly understood. Single cell level approaches can overcome limitations of low biomass in subsurface systems. Coupled with incubation experiments with amino acid orthologs, single cell level sorting can reveal high resolution information about identity, functional potential, and growth. Leveraging collaboration with the Single Cell Genomics Center and the Facility for Aquatic Cytometry at Bigelow Laboratory, we present recent results from single cell level sorting and -omics sequencing from several crustal environments, including the Atlantis Massif and the Juan de Fuca Ridge flank. We will also highlight new experiments conducted with samples recovered from the flank of the Mid-Atlantic Ridge.

Deep trees: Woodfall biodiversity dynamics in present and past oceans

NASA Astrophysics Data System (ADS)

Sigwart, Julia D.

2017-03-01

Marine deposits of sunken wood provide an important habitat for deep-sea biota, including an extensive wood-endemic invertebrate fauna. These habitats are important in their own right; many species on organic falls are not able to survive in other deep sea ecosystems. Evolutionary transitions of species among various chemosynthesis-based ecosystems does not proceed deliberately from organic falls toward hydrothermal vents. Polyplacophoran molluscs (chitons) are generally rare in deep-sea systems but are found in comparatively high diversity and abundance on tropical sunken wood. A new time-calibrated phylogeny for the predominantly deep-sea order Lepidopleurida shows the chiton lineages found in sunken wood habitats do not comprise a single clade or radiation, but represents a minimum of three independent radiations in the Pacific alone. Most marine invertebrate groups diversified in the deep sea following the end Cretaceous extinction event; by contrast, sunken-wood chitons may have persisted in these habitats for longer than other animals. Fossil chitons from the early Carboniferous (ca. 350 Mya) have strong similarities to modern wood-endemic taxa, yet the common ancestor of living Lepidopleurida occurred much later in the Triassic and did not apparently rely on woodfall. Clades within Lepidopleurida that occupy wood habitats in the tropical Pacific probably arose in the Jurassic, which corresponds to evidence from the fossil record, but with an additional separate colonisation more recently in the early Paleogene. Wood-endemic chiton species encompass multiple independent evolutionary origins of co-occurring wood species, and these separate lineages correspond to differences in micohabitat and feeding strategies. These patterns demonstrate the ongoing evolutionary linkages between terrestrial and deep marine environments, and the opportunistic adaptations of deep-sea organisms.

Parametric study on the behavior of an innovative subsurface tension leg platform in ultra-deep water

NASA Astrophysics Data System (ADS)

Zhen, Xing-wei; Huang, Yi

2017-10-01

This study focuses on a new technology of Subsurface Tension Leg Platform (STLP), which utilizes the shallowwater rated well completion equipment and technology for the development of large oil and gas fields in ultra-deep water (UDW). Thus, the STLP concept offers attractive advantages over conventional field development concepts. STLP is basically a pre-installed Subsurface Sea-star Platform (SSP), which supports rigid risers and shallow-water rated well completion equipment. The paper details the results of the parametric study on the behavior of STLP at a water depth of 3000 m. At first, a general description of the STLP configuration and working principle is introduced. Then, the numerical models for the global analysis of the STLP in waves and current are presented. After that, extensive parametric studies are carried out with regarding to SSP/tethers system analysis, global dynamic analysis and riser interference analysis. Critical points are addressed on the mooring pattern and riser arrangement under the influence of ocean current, to ensure that the requirements on SSP stability and riser interference are well satisfied. Finally, conclusions and discussions are made. The results indicate that STLP is a competitive well and riser solution in up to 3000 m water depth for offshore petroleum production.

A metagenomic window into carbon metabolism at 3 km depth in Precambrian continental crust

PubMed Central

Magnabosco, Cara; Ryan, Kathleen; Lau, Maggie C Y; Kuloyo, Olukayode; Sherwood Lollar, Barbara; Kieft, Thomas L; van Heerden, Esta; Onstott, Tullis C

2016-01-01

Subsurface microbial communities comprise a significant fraction of the global prokaryotic biomass; however, the carbon metabolisms that support the deep biosphere have been relatively unexplored. In order to determine the predominant carbon metabolisms within a 3-km deep fracture fluid system accessed via the Tau Tona gold mine (Witwatersrand Basin, South Africa), metagenomic and thermodynamic analyses were combined. Within our system of study, the energy-conserving reductive acetyl-CoA (Wood-Ljungdahl) pathway was found to be the most abundant carbon fixation pathway identified in the metagenome. Carbon monoxide dehydrogenase genes that have the potential to participate in (1) both autotrophic and heterotrophic metabolisms through the reversible oxidization of CO and subsequent transfer of electrons for sulfate reduction, (2) direct utilization of H2 and (3) methanogenesis were identified. The most abundant members of the metagenome belonged to Euryarchaeota (22%) and Firmicutes (57%)—by far, the highest relative abundance of Euryarchaeota yet reported from deep fracture fluids in South Africa and one of only five Firmicutes-dominated deep fracture fluids identified in the region. Importantly, by combining the metagenomics data and thermodynamic modeling of this study with previously published isotopic and community composition data from the South African subsurface, we are able to demonstrate that Firmicutes-dominated communities are associated with a particular hydrogeologic environment, specifically the older, more saline and more reducing waters. PMID:26325359

75 FR 35435 - Fisheries of the Northeastern United States; Atlantic Deep-Sea Red Crab Fisheries; 2010 Atlantic...

Federal Register 2010, 2011, 2012, 2013, 2014

2010-06-22

.... 100513223-0254-01] RIN 0648-AY88 Fisheries of the Northeastern United States; Atlantic Deep-Sea Red Crab Fisheries; 2010 Atlantic Deep-Sea Red Crab Specifications In- season Adjustment AGENCY: National Marine... deep-sea red crab fishery, including a target total allowable catch (TAC) and a fleet-wide days-at-sea...

Prey consumption and energy transfer by marine birds in the Gulf of Alaska

USGS Publications Warehouse

Hunt, G.L.; Drew, G.S.; Jahncke, J.; Piatt, John F.

2005-01-01

We investigated prey consumption by marine birds and their contribution to cross-shelf fluxes in the northern Gulf of Alaska. We utilized data from the North Pacific Pelagic Seabird Database for modeling energy demand and prey consumption. We found that prey consumption by marine birds was much greater over the continental shelf than it was over the basin. Over the shelf, subsurface-foraging marine birds dominated food consumption, whereas over the basin, surface-foraging birds took the most prey biomass. Daily consumption by marine birds during the non-breeding season ("winter") from September through April was greater than daily consumption during the breeding season, between May and August. Over the shelf, shearwaters, murres and, in winter, sea ducks, were the most important consumers. Over the basin, northern fulmars, gulls and kittiwakes predominated in winter and storm-petrels dominated in May to August. Our results suggest that marine birds contribute little to cross-shelf fluxes of energy or matter, but they do remove energy from the marine system through consumption, respiration and migration. ?? 2005 Elsevier Ltd. All rights reserved.

Mechanical properties and molecular structure analysis of subsurface dentin after Er:YAG laser irradiation.

PubMed

He, Zhengdi; Chen, Lingling; Hu, Xuejuan; Shimada, Yasushi; Otsuki, Masayuki; Tagami, Junji; Ruan, Shuangchen

2017-10-01

The purpose of this study was to evaluate the chemical and mechanical modifications in subsurface dentin layer after Er: YAG (Erbium-Yttrium Aluminium Garnet) laser irradiation, as the guidance of new dental restorative materials specific for laser irradiated dentin. Dentin disks obtained from extracted human molars were prepared and exposed to a single pulse Er:YAG laser irradiation at 80mJ/pulse. After laser irradiation the mechanical and chemical characteristics of intertubular dentin in subsurface layer were studied using nanoindentation tester and micro-Raman spectromy (μ-RS). The dentin 5-50µm depth beneath the lased surface was determined as testing area. Two-way analysis of variance (ANOVA) were used to compare the mechanical values between lased and untreated subsurface dentin (P = 0.05). A laser affected subsurface dentin layer after Er:YAG laser treatment is present. The laser irradiation is considered to decrease the mechanical properties in the superficial subsurface layer (<15µm deep). There was no significant difference in nanohardness and Young's modulus between lased subsurface dentin and untreated dentin (p > 0.05) under the depth of 15µm. However, the dentin at 5µm and 10µm depth beneath the lased surface exhibited significantly lower (~ 47.8% and ~ 33.6% respectively) hardness (p < 0.05). Er:YAG laser irradiation affected both mineral and organic components in subsurface dentin layer, a higher degree of crystallinity and reduced organic compounds occurred in the lased subsurface dentin. Under the tested laser parameters, Er:YAG laser irradiation causes lower mechanical values and reduction of organic components in subsurface dentin, which has deleterious effects on resin adhesion to this area. Copyright © 2017 The Authors. Published by Elsevier Ltd.. All rights reserved.

Advances in deep-sea biology: biodiversity, ecosystem functioning and conservation. An introduction and overview

NASA Astrophysics Data System (ADS)

Cunha, Marina R.; Hilário, Ana; Santos, Ricardo S.

2017-03-01

Once considered as monotonous and devoid of life, the deep sea was revealed during the last century as an environment with a plethora of life forms and extremely high species richness (Rex and Etter, 2010). Underwater vehicle developments allowed direct observations of the deep, disclosing unique habitats and diverse seascapes, and other technological advances enabled manipulative experimentation and unprecedented prospects to pursue novel research topics (Levin and Sibuet, 2012; Danovaro et al., 2014). Alongside, the growing human population greatly increased the pressure on deep-sea ecosystems and the services they provide (Ramirez-Llodra et al., 2011; Thurber et al., 2014; Levin et al., 2016). Societal changes further intensified worldwide competition for natural resources, extending the present footprint of impacts over most of the global ocean (Halpern et al., 2008). In this socio-economic context, and in tandem with cutting edge technological advances and an unclear legal framework to regulate access to natural resources (Boyes and Elliott, 2014), the deep sea has emerged as a new opportunity for industrial exploitation and novel economic activities. The expanding use of the deep sea prompted a rapid reply from deep-sea scientists that recommended "a move from a frontier mentality of exploitation and single-sector management to a precautionary system that balances use of living marine resources, energy, and minerals from the deep ocean with maintenance of a productive and healthy marine environment, while improving knowledge and collaboration" and proposed "three directions to advance deep-ocean stewardship: i) protection and mitigation, ii) research, and iii) collaborative governance" (Mengerink et al., 2014). The European Marine Board position paper 22 (Rogers et al., 2015) further examined the key societal and environmental drivers confronting the deep sea and the role of deep-sea research to deliver future knowledge needs for science and society; a clear and consistent message from consultation with wider stakeholders was the need for fundamental knowledge of deep-sea ecosystems. Enhanced deep-sea knowledge is crucial to establish baselines and assess long term impact of human activity on ecosystems and it is also instrumental to inform environmental impact assessments, strategic management plans, effective decision making, environmental regulation and ocean governance (Rogers et al., 2015).

Rates of microbial metabolism in deep coastal plain aquifers

USGS Publications Warehouse

Chapelle, F.H.; Lovley, D.R.

1990-01-01

Rates of microbial metabolism in deep anaerobic aquifers of the Atlantic coastal plain of South Carolina were investigated by both microbiological and geochemical techniques. Rates of [2-14C]acetate and [U-14C]glucose oxidation as well as geochemical evidence indicated that metabolic rates were faster in the sandy sediments composing the aquifers than in the clayey sediments of the confining layers. In the sandy aquifer sediments, estimates of the rates of CO2 production (millimoles of CO2 per liter per year) based on the oxidation of [2-14C]acetate were 9.4 x 10-3 to 2.4 x 10-1 for the Black Creek aquifer, 1.1 x 10-2 for the Middendorf aquifer, and <7 x 10-5 for the Cape Fear aquifer. These estimates were at least 2 orders of magnitude lower than previously published estimates that were based on the accumulation of CO2 in laboratory incubations of similar deep subsurface sediments. In contrast, geochemical modeling of groundwater chemistry changes along aquifer flowpaths gave rate estimates that ranged from 10-4 to 10-6 mmol of CO2 per liter per year. The age of these sediments (ca. 80 million years) and their organic carbon content suggest that average rates of CO2 production could have been no more than 10-4 mmol per liter per year. Thus, laboratory incubations may greatly overestimate the in situ rates of microbial metabolism in deep subsurface environments. This has important implications for the use of laboratory incubations in attempts to estimate biorestoration capacities of deep aquifers. The rate estimates from geochemical modeling indicate that deep aquifers are among the most oligotrophic aquatic environments in which there is ongoing microbial metabolism.

Sedimentation and basin-fill history of the Neogene clastic succession exposed in the southeastern fold belt of the Bengal Basin, Bangladesh: a high-resolution sequence stratigraphic approach

NASA Astrophysics Data System (ADS)

Royhan Gani, M.; Mustafa Alam, M.

2003-02-01

The Tertiary basin-fill history of the Bengal Basin suffers from oversimplification. The interpretation of the sedimentary history of the basin should be consistent with the evolution of its three geo-tectonic provinces, namely, western, northeastern and eastern. Each province has its own basin generation and sediment-fill history related mainly to the Indo-Burmese and subordinately to the Indo-Tibetan plate convergence. This paper is mainly concerned with facies and facies sequence analysis of the Neogene clastic succession within the subduction-related active margin setting (oblique convergence) in the southeastern fold belt of the Bengal Basin. Detailed fieldwork was carried out in the Sitapahar anticline of the Rangamati area and the Mirinja anticline of the Lama area. The study shows that the exposed Neogene succession represents an overall basinward progradation from deep marine through shallow marine to continental-fluvial environments. Based on regionally correlatable erosion surfaces the entire succession (3000+ m thick) has been grouped into three composite sequences C, B and A, from oldest to youngest. Composite sequence C begins with deep-water base-of-slope clastics overlain by thick slope mud that passes upward into shallow marine and nearshore clastics. Composite sequence B characteristically depicts tide-dominated open-marine to coastal depositional systems with evidence of cyclic marine regression and transgression. Repetitive occurrence of incised channel, tidal inlet, tidal ridge/shoal, tidal flat and other tidal deposits is separated by shelfal mudstone. Most of the sandbodies contain a full spectrum of tide-generated structures (e.g. herringbone cross-bedding, bundle structure, mud couplet, bipolar cross-lamination with reactivation surfaces, 'tidal' bedding). Storm activities appear to have played a subordinate role in the mid and inner shelf region. Rizocorallium, Rosselia, Planolites and Zoophycos are the dominant ichnofacies within the shelfal mudstone. This paralic sedimentation of Neogene succession in the study area can serve as a good point of reference for tide-dominated regressive shelf depositional systems. The top of the composite sequence B is marked by a pronounced erosion surface indicating the final phase of marine regression followed by the gradual establishment of continental-fluvial depositional systems represented by composite sequence A. In this composite sequence, stacked channel bars of low-sinuosity braided rivers gradually pass upsequence into high-sinuosity meandering river deposits. A sequence stratigraphic approach has been adopted to interpret the basin-fill history with respect to relative sea-level changes; and to subdivide the rock record into several sequences and units (systems tracts and parasequences) based on identified bounding discontinuities, such as transgressive erosion surface (TES), regressive erosion surface (RES), marine flooding surface (MFS), and incised valley floor (IVF). This approach provides new insight for both exploration and exploitation strategy for hydrocarbon plays that may prove vital to the oil companies engaged in exploration activities in the Bengal Basin. It is strongly recommended here that the traditional lithostratigraphic classification of this part of the basin, which is based on the Assam stratigraphy, be abandoned or at least revised. A tentative allostratigraphic scheme is presented, and it is suggested that to formalize the scheme further study, both surface and subsurface, is needed.

Reorientation of Sputnik Planitia implies a subsurface ocean on Pluto.

PubMed

Nimmo, F; Hamilton, D P; McKinnon, W B; Schenk, P M; Binzel, R P; Bierson, C J; Beyer, R A; Moore, J M; Stern, S A; Weaver, H A; Olkin, C B; Young, L A; Smith, K E

2016-12-01

The deep nitrogen-covered basin on Pluto, informally named Sputnik Planitia, is located very close to the longitude of Pluto's tidal axis and may be an impact feature, by analogy with other large basins in the Solar System. Reorientation of Sputnik Planitia arising from tidal and rotational torques can explain the basin's present-day location, but requires the feature to be a positive gravity anomaly, despite its negative topography. Here we argue that if Sputnik Planitia did indeed form as a result of an impact and if Pluto possesses a subsurface ocean, the required positive gravity anomaly would naturally result because of shell thinning and ocean uplift, followed by later modest nitrogen deposition. Without a subsurface ocean, a positive gravity anomaly requires an implausibly thick nitrogen layer (exceeding 40 kilometres). To prolong the lifetime of such a subsurface ocean to the present day and to maintain ocean uplift, a rigid, conductive water-ice shell is required. Because nitrogen deposition is latitude-dependent, nitrogen loading and reorientation may have exhibited complex feedbacks.

Reorientation of Sputnik Planitia implies a subsurface ocean on Pluto

NASA Astrophysics Data System (ADS)

Nimmo, F.; Hamilton, D. P.; McKinnon, W. B.; Schenk, P. M.; Binzel, R. P.; Bierson, C. J.; Beyer, R. A.; Moore, J. M.; Stern, S. A.; Weaver, H. A.; Olkin, C. B.; Young, L. A.; Smith, K. E.; Moore, J. M.; McKinnon, W. B.; Spencer, J. R.; Beyer, R.; Binzel, R. P.; Buie, M.; Buratti, B.; Cheng, A.; Cruikshank, D.; Ore, C. Dalle; Earle, A.; Gladstone, R.; Grundy, W.; Howard, A. D.; Lauer, T.; Linscott, I.; Nimmo, F.; Parker, J.; Porter, S.; Reitsema, H.; Reuter, D.; Roberts, J. H.; Robbins, S.; Schenk, P. M.; Showalter, M.; Singer, K.; Strobel, D.; Summers, M.; Tyler, L.; White, O. L.; Umurhan, O. M.; Banks, M.; Barnouin, O.; Bray, V.; Carcich, B.; Chaikin, A.; Chavez, C.; Conrad, C.; Hamilton, D. P.; Howett, C.; Hofgartner, J.; Kammer, J.; Lisse, C.; Marcotte, A.; Parker, A.; Retherford, K.; Saina, M.; Runyon, K.; Schindhelm, E.; Stansberry, J.; Steffl, A.; Stryk, T.; Throop, H.; Tsang, C.; Verbiscer, A.; Winters, H.; Zangari, A.; Stern, S. A.; Weaver, H. A.; Olkin, C. B.; Young, L. A.; Smith, K. E.

2016-12-01

The deep nitrogen-covered basin on Pluto, informally named Sputnik Planitia, is located very close to the longitude of Pluto’s tidal axis and may be an impact feature, by analogy with other large basins in the Solar System. Reorientation of Sputnik Planitia arising from tidal and rotational torques can explain the basin’s present-day location, but requires the feature to be a positive gravity anomaly, despite its negative topography. Here we argue that if Sputnik Planitia did indeed form as a result of an impact and if Pluto possesses a subsurface ocean, the required positive gravity anomaly would naturally result because of shell thinning and ocean uplift, followed by later modest nitrogen deposition. Without a subsurface ocean, a positive gravity anomaly requires an implausibly thick nitrogen layer (exceeding 40 kilometres). To prolong the lifetime of such a subsurface ocean to the present day and to maintain ocean uplift, a rigid, conductive water-ice shell is required. Because nitrogen deposition is latitude-dependent, nitrogen loading and reorientation may have exhibited complex feedbacks.

Suboxic deep seawater in the late Paleoproterozoic: Evidence from hematitic chert and iron formation related to seafloor-hydrothermal sulfide deposits, central Arizona, USA

USGS Publications Warehouse

Slack, J.F.; Grenne, Tor; Bekker, A.; Rouxel, O.J.; Lindberg, P.A.

2007-01-01

A current model for the evolution of Proterozoic deep seawater composition involves a change from anoxic sulfide-free to sulfidic conditions 1.8??Ga. In an earlier model the deep ocean became oxic at that time. Both models are based on the secular distribution of banded iron formation (BIF) in shallow marine sequences. We here present a new model based on rare earth elements, especially redox-sensitive Ce, in hydrothermal silica-iron oxide sediments from deeper-water, open-marine settings related to volcanogenic massive sulfide (VMS) deposits. In contrast to Archean, Paleozoic, and modern hydrothermal iron oxide sediments, 1.74 to 1.71??Ga hematitic chert (jasper) and iron formation in central Arizona, USA, show moderate positive to small negative Ce anomalies, suggesting that the redox state of the deep ocean then was at a transitional, suboxic state with low concentrations of dissolved O2 but no H2S. The presence of jasper and/or iron formation related to VMS deposits in other volcanosedimentary sequences ca. 1.79-1.69??Ga, 1.40??Ga, and 1.24??Ga also reflects oxygenated and not sulfidic deep ocean waters during these time periods. Suboxic conditions in the deep ocean are consistent with the lack of shallow-marine BIF ??? 1.8 to 0.8??Ga, and likely limited nutrient concentrations in seawater and, consequently, may have constrained biological evolution. ?? 2006 Elsevier B.V. All rights reserved.

Aerobic microbial taxa dominate deep subsurface cores from the Alberta oil sands.

PubMed

Ridley, Christina M; Voordouw, Gerrit

2018-06-01

Little is known about the microbial ecology of the subsurface oil sands in Northern Alberta, Canada. Biodegradation of low molecular weight hydrocarbons by indigenous microbes has enriched high molecular weight hydrocarbons, resulting in highly viscous bitumen. This extreme subsurface environment is further characterized by low nutrient availability and limited access to water, thus resulting in low microbial biomass. Improved DNA isolation protocols and increasingly sensitive sequencing methods have allowed an in-depth investigation of the microbial ecology of this unique subsurface environmental niche. Community analysis was performed on core samples (n = 62) that were retrieved from two adjacent sites located in the Athabasca Oil Sands at depths from 220 to 320 m below the surface. Microbial communities were dominated by aerobic taxa, including Pseudomonas and Acinetobacter. Only one core sample microbial community was dominated by anaerobic taxa, including the methanogen Methanoculleus, as well as Desulfomicrobium and Thauera. Although the temperature of the bitumen-containing subsurface is low (8°C), two core samples had high fractions of the potentially thermophilic taxon, Thermus. Predominance of aerobic taxa in the subsurface suggests the potential for in situ aerobic hydrocarbon degradation; however, more studies are required to determine the functional role of these taxa within this unique environment.

Biofilm formation and potential for iron cycling in serpentinization-influenced groundwater of the Zambales and Coast Range ophiolites.

PubMed

Meyer-Dombard, D'Arcy R; Casar, Caitlin P; Simon, Alexander G; Cardace, Dawn; Schrenk, Matthew O; Arcilla, Carlo A

2018-05-01

Terrestrial serpentinizing systems harbor microbial subsurface life. Passive or active microbially mediated iron transformations at alkaline conditions in deep biosphere serpentinizing ecosystems are understudied. We explore these processes in the Zambales (Philippines) and Coast Range (CA, USA) ophiolites, and associated surface ecosystems by probing the relevance of samples acquired at the surface to in situ, subsurface ecosystems, and the nature of microbe-mineral associations in the subsurface. In this pilot study, we use microcosm experiments and batch culturing directed at iron redox transformations to confirm thermodynamically based predictions that iron transformations may be important in subsurface serpentinizing ecosystems. Biofilms formed on rock cores from the Zambales ophiolite on surface and in-pit associations, confirming that organisms from serpentinizing systems can form biofilms in subsurface environments. Analysis by XPS and FTIR confirmed that enrichment culturing utilizing ferric iron growth substrates produced reduced, magnetic solids containing siderite, spinels, and FeO minerals. Microcosms and enrichment cultures supported organisms whose near relatives participate in iron redox transformations. Further, a potential 'principal' microbial community common to solid samples in serpentinizing systems was identified. These results indicate collectively that iron redox transformations should be more thoroughly and universally considered when assessing the function of terrestrial subsurface ecosystems driven by serpentinization.

Diversity of Southern Ocean deep-sea benthos between cosmopolitism and cryptic speciation: new species from the ANDEEP expeditions.

PubMed

Schüller, Myriam; Brandt, Angelika; Ebbe, Brigitte

2013-01-01

The richness of life in parts of the earth that to us appear inhospitable and remote never fails to fascinate scientists and non-scientists alike. The largest ecosystem of the planet, the abyssal plains of the world ocean, makes up about 90 percent of the seafloor and thus nearly 78 percent of the Earth’s surface, yet only a minor fraction of this huge environment has been investigated. Authors have questioned repeatedly "how many species would live on earth and in the ocean" (Mora et al. 2011; May 2011), and recent estimations predict ~ 8.7 million (+/- 1.3 million SE) eukaryotic species globally, with 2.2 million of these being marine (Mora et al. 2011). To date, 91 % of all marine species still await description. Other authors concluded that marine biodiversity is grossly underestimated (Bouchet 2006) because so far, only one-third of all species descriptions concerns marine biota (Reaka-Kudla 1997; Groombridge & Jenkins 2000, Grassle 2001, Boltovskoy et al. 2005). We know that marine live thrives even in hadal trenches (Jamieson et al. 2009), that biogeographic ranges in the deep sea are dynamic (McClain & Mincks Hardy 2010) and that the origin of the modern deep-sea fauna is ancient (Thuy et al. 2012). For example, the origin of Isopoda dates back to Permo-Triassic times (232– 314 mya; Lins et al. 2012).

Red fluorescence in reef fish: A novel signalling mechanism?

PubMed Central

Michiels, Nico K; Anthes, Nils; Hart, Nathan S; Herler, Jürgen; Meixner, Alfred J; Schleifenbaum, Frank; Schulte, Gregor; Siebeck, Ulrike E; Sprenger, Dennis; Wucherer, Matthias F

2008-01-01

Background At depths below 10 m, reefs are dominated by blue-green light because seawater selectively absorbs the longer, 'red' wavelengths beyond 600 nm from the downwelling sunlight. Consequently, the visual pigments of many reef fish are matched to shorter wavelengths, which are transmitted better by water. Combining the typically poor long-wavelength sensitivity of fish eyes with the presumed lack of ambient red light, red light is currently considered irrelevant for reef fish. However, previous studies ignore the fact that several marine organisms, including deep sea fish, produce their own red luminescence and are capable of seeing it. Results We here report that at least 32 reef fishes from 16 genera and 5 families show pronounced red fluorescence under natural, daytime conditions at depths where downwelling red light is virtually absent. Fluorescence was confirmed by extensive spectrometry in the laboratory. In most cases peak emission was around 600 nm and fluorescence was associated with guanine crystals, which thus far were known for their light reflecting properties only. Our data indicate that red fluorescence may function in a context of intraspecific communication. Fluorescence patterns were typically associated with the eyes or the head, varying substantially even between species of the same genus. Moreover red fluorescence was particularly strong in fins that are involved in intraspecific signalling. Finally, microspectrometry in one fluorescent goby, Eviota pellucida, showed a long-wave sensitivity that overlapped with its own red fluorescence, indicating that this species is capable of seeing its own fluorescence. Conclusion We show that red fluorescence is widespread among marine fishes. Many features indicate that it is used as a private communication mechanism in small, benthic, pair- or group-living fishes. Many of these species show quite cryptic colouration in other parts of the visible spectrum. High inter-specific variation in red fluorescence and its association with structures used in intra-specific signalling further corroborate this view. Our findings challenge the notion that red light is of no importance to marine fish, calling for a reassessment of its role in fish visual ecology in subsurface marine environments. PMID:18796150

Flavins in Marine Sediments: A Potentially Ubiquitous Intermediary In Microbial Electron Transfer

NASA Astrophysics Data System (ADS)

Monteverde, D.; Sylvan, J. B.; Suffridge, C.; Berelson, W.; Sanudo-Wilhelmy, S. A.; Baronas, J. J.

2016-12-01

The flavins (riboflavin, flavin mononucleotide [FMN], flavin adenine dinucleotide [FA­­D]) are a class of organic compounds synthesized by organisms to assist in redox reactions. They represent the largest class of required coenzymes, rivaled only by iron in the number of unique enzymes they bind. In addition to internal use, cultured metal-reducing organisms such as Shewanella and Geobacter have been known to release flavins into the extracellular pool to aid in external electron transfer. So called "electron shuttles" can allow organisms to overcome unfavorable geochemical zonation by transferring electrons onto a relatively distant insoluble acceptor. Despite the extensive culture work, flavins have not been systematically measured in the environment. Here we present the first set of flavin profiles from the water column and pore waters of a marine environment. Samples were taken from San Pedro Basin, a 900 meter deep, silled basin, with high seasonal inputs of organic carbon, low bottom water oxygen concentrations, and laminated sediments - making it ideal to explore variations in sediment geochemical zonations. Dissolved flavin concentrations in the water column and pore waters collected from two cores were preconcentrated via solid phase extraction and measured via LC/MS. Flavin profiles are compared to a suite of geochemical parameters as well as sediment microbial 16s rRNA data. Preliminary results show that FMN is typically an order of magnitude higher concentration than riboflavin (800-300pM versus 100-50pM). Porewater concentrations were elevated over water column values for all analytes (ranging from 100-2000pM) and displayed an increasing trend with depth in both cores. This increasing trend correlated with a decrease in dissolved Fe (ranging from 160 µM in surface sediments to 65 µM at 40 cm) and shifts in microbial diversity from sediments shallower than 5 cm depth dominated by Delta- and Gammaproteobacteria to subsurface sediments dominated by Chloroflexi and Archaea at 20-40 cm. These first environmental profiles of flavins in the marine environmental support previous observations of the importance of electron transfer intermediaries in culture and point to an important role for flavins in modern marine microbial communities.

Discriminative detection and enumeration of microbial life in marine subsurface sediments.

PubMed

Morono, Yuki; Terada, Takeshi; Masui, Noriaki; Inagaki, Fumio

2009-05-01

Detection and enumeration of microbial life in natural environments provide fundamental information about the extent of the biosphere on Earth. However, it has long been difficult to evaluate the abundance of microbial cells in sedimentary habitats because non-specific binding of fluorescent dye and/or auto-fluorescence from sediment particles strongly hampers the recognition of cell-derived signals. Here, we show a highly efficient and discriminative detection and enumeration technique for microbial cells in sediments using hydrofluoric acid (HF) treatment and automated fluorescent image analysis. Washing of sediment slurries with HF significantly reduced non-biological fluorescent signals such as amorphous silica and enhanced the efficiency of cell detachment from the particles. We found that cell-derived SYBR Green I signals can be distinguished from non-biological backgrounds by dividing green fluorescence (band-pass filter: 528/38 nm (center-wavelength/bandwidth)) by red (617/73 nm) per image. A newly developed automated microscope system could take a wide range of high-resolution image in a short time, and subsequently enumerate the accurate number of cell-derived signals by the calculation of green to red fluorescence signals per image. Using our technique, we evaluated the microbial population in deep marine sediments offshore Peru and Japan down to 365 m below the seafloor, which provided objective digital images as evidence for the quantification of the prevailing microbial life. Our method is hence useful to explore the extent of sub-seafloor life in the future scientific drilling, and moreover widely applicable in the study of microbial ecology.

Recent advances in the use of acoustics across the frequency spectrum in the oil and gas industry

NASA Astrophysics Data System (ADS)

Zeroug, Smaine; Bose, Sandip

2018-04-01

Acoustics enjoys a wide array of applicability in the Oil and Gas industry. Signals with very low-frequencies (tens of Hertz) are routinely used on surface to image the earth subsurface delineating hydrocarbon reservoirs while signals with mid-frequencies (thousands of Hertz) to high-frequencies (hundreds of kilo Hertz) are used in deep boreholes to probe rock mechanical properties and evaluate completion hardware. This article reviews a few recent advances in these applications spanning both measurement concepts and processing and inversion approaches. Three applications are covered, going from high to low frequencies. The first relates to an ultrasonic imager deployed in open boreholes to probe the laminated structure of unconventional shale rock formations at depth of more than 3000 m. The imager yields rock compressional and shear wavespeed images as a function of depth and azimuth revealing a host of geomechanical manifestations of the borehole shape and near-wellbore region at an unprecedented centimetric spatial resolution. The quantitative images have bearing on rock strength and local stresses as they relate to the hydraulic fracturing of these shale formations. The second relates to the interpretation of the complex sonic response in a well cased with double steel strings cemented to the rock formation for the purpose of evaluating the integrity of the cement placed between the outer string and formation. Here, machine learning-based approaches are employed with training on modeling and experimental datasets to develop effective and wellsite diagnosis for the condition of the cement sheath. The third relates to the seismic imaging domain and the deployment of novel accelerometers added to hydrophones on marine seismic cables to capture the subsurface-reflected pressure signals and their spatial gradients. The combination of the two sensors provides the means to deghost the signal from the sea surface reflection, and more importantly, reconstruct the subsurface seismic wavefield that is poorly sampled across cables that are spaced 75m to 150 m apart. Novel compressive-sensing schemes coupled with wave physics are employed for the wavefield reconstruction at virtual sampling rates way beyond Nyquist's criterion.

Gulf Coast Deep Water Port Facilities Study. Appendix C. Eastern Gulf Hydrobiological Zones.

DTIC Science & Technology

1973-04-01

MARINE 5IOTA C-22 1. Benthic Plants C-22 2. Plankton C;23 3. Benthic Invertebrates C-27 4. Fish C-33 5. Marine Mammals C-35 6. Marine Birds C-37 7. Rare...56 B. RESIDENT AND TRANSIENT MARINE BIOTA C-56 1. Plankton C-56 2. Benthic Invertebrates C-62 3. Fish C-62 4. Marine Mammals C-684 Artur D Little Inc...TRANSIENT MARINE BIOTA C-78 l.-Plankton C-78 .-2. Benthic Invertebrates C8 3. F ish C-81 4. Marine Mammals C-85 V. ZONAL ANALYSIS C-87 A. ZONE V

3D voxel modelling of the marine subsurface: the Belgian Continental Shelf case

NASA Astrophysics Data System (ADS)

Hademenos, Vasileios; Kint, Lars; Missiaen, Tine; Stafleu, Jan; Van Lancker, Vera

2017-04-01

The need for marine space grows bigger by the year. Dredging, wind farms, aggregate extraction and many other activities take up more space than ever before. As a result, the need for an accurate model that describes the properties of the areas in use is a priority. To address this need a 3D voxel model of the subsurface of the Belgian part of the North Sea has been created in the scope of the Belgian Science Policy project TILES ('Transnational and Integrated Long-term Marine Exploitation Strategies'). Since borehole data in the marine environment are a costly endeavour and therefore relatively scarce, seismic data have been incorporated in order to improve the data coverage. Lithostratigraphic units have been defined and lithoclasses are attributed to the voxels using a stochastic interpolation. As a result each voxel contains a unique value of one of 7 lithological classes (spanning in grain size from clay to gravel) in association with the geological layer it belongs to. In addition other forms of interpolation like sequential indicator simulation have allowed us to calculate the probability occurrence of each lithoclass, thus providing additional info from which the uncertainty of the model can be derived. The resulting 3D voxel model gives a detailed image of the distribution of different sediment types and provides valuable insight on the different geological settings. The voxel model also allows to estimate resource volumes (e.g. the availability of particular sand classes), enabling a more targeted exploitation. The primary information of the model is related to geology, but the model can additionally host any type of information.

Bioprospecting for Exopolysaccharides from Deep-Sea Hydrothermal Vent Bacteria: Relationship between Bacterial Diversity and Chemical Diversity

PubMed Central

Delbarre-Ladrat, Christine; Leyva Salas, Marcia; Zykwinska, Agata; Colliec-Jouault, Sylvia

2017-01-01

Many bacteria biosynthesize structurally diverse exopolysaccharides (EPS) and excrete them into their surrounding environment. The EPS functional features have found many applications in industries such as cosmetics and pharmaceutics. In particular, some EPS produced by marine bacteria are composed of uronic acids, neutral sugars, and N-acetylhexosamines, and may also bear some functional sulfate groups. This suggests that they can share common structural features with glycosaminoglycans (GAG) like the two EPS (HE800 and GY785) originating from the deep sea. In an attempt to discover new EPS that may be promising candidates as GAG-mimetics, fifty-one marine bacterial strains originating from deep-sea hydrothermal vents were screened. The analysis of the EPS chemical structure in relation to bacterial species showed that Vibrio, Alteromonas, and Pseudoalteromonas strains were the main producers. Moreover, they produced EPS with distinct structural features, which might be useful for targeting marine bacteria that could possibly produce structurally GAG-mimetic EPS. PMID:28930185

Evidence for a persistent microbial seed bank throughout the global ocean

PubMed Central

Gibbons, Sean M.; Caporaso, J. Gregory; Pirrung, Meg; Field, Dawn; Knight, Rob; Gilbert, Jack A.

2013-01-01

Do bacterial taxa demonstrate clear endemism, like macroorganisms, or can one site’s bacterial community recapture the total phylogenetic diversity of the world’s oceans? Here we compare a deep bacterial community characterization from one site in the English Channel (L4-DeepSeq) with 356 datasets from the International Census of Marine Microbes (ICoMM) taken from around the globe (ranging from marine pelagic and sediment samples to sponge-associated environments). At the L4-DeepSeq site, increasing sequencing depth uncovers greater phylogenetic overlap with the global ICoMM data. This site contained 31.7–66.2% of operational taxonomic units identified in a given ICoMM biome. Extrapolation of this overlap suggests that 1.93 × 1011 sequences from the L4 site would capture all ICoMM bacterial phylogenetic diversity. Current technology trends suggest this limit may be attainable within 3 y. These results strongly suggest the marine biosphere maintains a previously undetected, persistent microbial seed bank. PMID:23487761

Subsurface Hydrologic Processes Revealed by Time-lapse GPR in Two Contrasting Soils in the Shale Hills CZO

NASA Astrophysics Data System (ADS)

Guo, L.; Lin, H.; Nyquist, J.; Toran, L.; Mount, G.

2017-12-01

Linking subsurface structures to their functions in determining hydrologic processes, such as soil moisture dynamics, subsurface flow patterns, and discharge behaviours, is a key to understanding and modelling hydrological systems. Geophysical techniques provide a non-invasive approach to investigate this form-function dualism of subsurface hydrology at the field scale, because they are effective in visualizing subsurface structure and monitoring the distribution of water. In this study, we used time-lapse ground-penetrating radar (GPR) to compare the hydrologic responses of two contrasting soils in the Shale Hills Critical Zone Observatory. By integrating time-lapse GPR with artificial water injection, we observed distinct flow patterns in the two soils: 1) in the deep Rushtown soil (over 1.5 m depth to bedrock) located in a concave hillslope, a lateral preferential flow network extending as far as 2 m downslope was identified above a less permeable layer and via a series of connected macropores; whereas 2) in the shallow Weikert soil ( 0.3 m depth to saprock) located in a planar hillslope, vertical infiltration into the permeable fractured shale dominated the flow field, while the development of lateral preferential flow along the hillslope was restrained. At the Weikert soil site, the addition of brilliant blue dye to the water injection followed by in situ excavation supported GPR interpretation that only limited lateral preferential flow formed along the soil-saprock interface. Moreover, seasonally repeated GPR surveys indicated different patterns of profile moisture distribution in the two soils that in comparison with the dry season, a dense layer within the BC horizon in the deep Rushtown soil prevented vertical infiltration in the wet season, leading to the accumulation of soil moisture above this layer; whereas, in the shallow Weikert soil, water infiltrated into saprock in wet seasons, building up water storage within the fractured bedrock (i.e., the rock moisture). Results of this study demonstrated the strong interplay between soil structures and subsurface hydrologic behaviors, and time-lapse GPR is an effective method to establish such a relationship under the field conditions.

A stochastic approach for model reduction and memory function design in hydrogeophysical inversion

NASA Astrophysics Data System (ADS)

Hou, Z.; Kellogg, A.; Terry, N.

2009-12-01

Geophysical (e.g., seismic, electromagnetic, radar) techniques and statistical methods are essential for research related to subsurface characterization, including monitoring subsurface flow and transport processes, oil/gas reservoir identification, etc. For deep subsurface characterization such as reservoir petroleum exploration, seismic methods have been widely used. Recently, electromagnetic (EM) methods have drawn great attention in the area of reservoir characterization. However, considering the enormous computational demand corresponding to seismic and EM forward modeling, it is usually a big problem to have too many unknown parameters in the modeling domain. For shallow subsurface applications, the characterization can be very complicated considering the complexity and nonlinearity of flow and transport processes in the unsaturated zone. It is warranted to reduce the dimension of parameter space to a reasonable level. Another common concern is how to make the best use of time-lapse data with spatial-temporal correlations. This is even more critical when we try to monitor subsurface processes using geophysical data collected at different times. The normal practice is to get the inverse images individually. These images are not necessarily continuous or even reasonably related, because of the non-uniqueness of hydrogeophysical inversion. We propose to use a stochastic framework by integrating minimum-relative-entropy concept, quasi Monto Carlo sampling techniques, and statistical tests. The approach allows efficient and sufficient exploration of all possibilities of model parameters and evaluation of their significances to geophysical responses. The analyses enable us to reduce the parameter space significantly. The approach can be combined with Bayesian updating, allowing us to treat the updated ‘posterior’ pdf as a memory function, which stores all the information up to date about the distributions of soil/field attributes/properties, then consider the memory function as a new prior and generate samples from it for further updating when more geophysical data is available. We applied this approach for deep oil reservoir characterization and for shallow subsurface flow monitoring. The model reduction approach reliably helps reduce the joint seismic/EM/radar inversion computational time to reasonable levels. Continuous inversion images are obtained using time-lapse data with the “memory function” applied in the Bayesian inversion.

Application of the Coastal and Marine Ecological Classification Standard to ROV Video Data for Enhanced Analysis of Deep-Sea Habitats in the Gulf of Mexico

NASA Astrophysics Data System (ADS)

Ruby, C.; Skarke, A. D.; Mesick, S.

2016-02-01

The Coastal and Marine Ecological Classification Standard (CMECS) is a network of common nomenclature that provides a comprehensive framework for organizing physical, biological, and chemical information about marine ecosystems. It was developed by the National Oceanic and Atmospheric Administration (NOAA) Coastal Services Center, in collaboration with other feral agencies and academic institutions, as a means for scientists to more easily access, compare, and integrate marine environmental data from a wide range of sources and time frames. CMECS has been endorsed by the Federal Geographic Data Committee (FGDC) as a national metadata standard. The research presented here is focused on the application of CMECS to deep-sea video and environmental data collected by the NOAA ROV Deep Discoverer and the NOAA Ship Okeanos Explorer in the Gulf of Mexico in 2011-2014. Specifically, a spatiotemporal index of the physical, chemical, biological, and geological features observed in ROV video records was developed in order to allow scientist, otherwise unfamiliar with the specific content of existing video data, to rapidly determine the abundance and distribution of features of interest, and thus evaluate the applicability of those video data to their research. CMECS units (setting, component, or modifier) for seafloor images extracted from high-definition ROV video data were established based upon visual assessment as well as analysis of coincident environmental sensor (temperature, conductivity), navigation (ROV position, depth, attitude), and log (narrative dive summary) data. The resulting classification units were integrated into easily searchable textual and geo-databases as well as an interactive web map. The spatial distribution and associations of deep-sea habitats as indicated by CMECS classifications are described and optimized methodological approaches for application of CMECS to deep-sea video and environmental data are presented.

Pumice in the interglacial Whidbey Formation at Blowers Bluff, central Whidbey Island, WA, USA

USGS Publications Warehouse

Dethier, D.P.; Dragovich, J.D.; Sarna-Wojcicki, A. M.; Fleck, R.J.

2008-01-01

A new 40Ar/39Ar age of 128??9 ka and chemical analyses of pumice layers from interglacial alluvium at Blowers Bluff, Whidbey Island, WA, show that the deposits are part of the Whidbey Formation, a widespread, mainly subsurface unit. Glass chemistry of the dated dacitic pumice does not match any analyzed northern Cascade source, but upper Pleistocene dacites from Glacier Peak and early Pleistocene silicic rocks from the Kulshan caldera are chemically similar. The chemistry of pumiceous dacite in younger units, including the latest Pleistocene Partridge Gravel, is similar to that of the dated material. The deep troughs of the modern northern Puget lowland must have been filled during deposition of the Whidbey Formation, allowing volcanic-rich sediment to reach what is now Whidbey Island. Topographic analysis of LIDAR images demonstrates that extensive erosion occurred during latest Pleistocene ice retreat. The Partridge Gravel likely records subglacial fluvial erosion along an ice tunnel and ice-marginal deposition into adjacent marine waters. Pumice in the Partridge Gravel probably was reworked from stratigraphically and topographically lower deposits, including those at Blowers Bluff. ?? 2007 Elsevier Ltd and INQUA.

Mercury as a Global Pollutant: Sources, Pathways, and Effects

PubMed Central

2013-01-01

Mercury (Hg) is a global pollutant that affects human and ecosystem health. We synthesize understanding of sources, atmosphere-land-ocean Hg dynamics and health effects, and consider the implications of Hg-control policies. Primary anthropogenic Hg emissions greatly exceed natural geogenic sources, resulting in increases in Hg reservoirs and subsequent secondary Hg emissions that facilitate its global distribution. The ultimate fate of emitted Hg is primarily recalcitrant soil pools and deep ocean waters and sediments. Transfers of Hg emissions to largely unavailable reservoirs occur over the time scale of centuries, and are primarily mediated through atmospheric exchanges of wet/dry deposition and evasion from vegetation, soil organic matter and ocean surfaces. A key link between inorganic Hg inputs and exposure of humans and wildlife is the net production of methylmercury, which occurs mainly in reducing zones in freshwater, terrestrial, and coastal environments, and the subsurface ocean. Elevated human exposure to methylmercury primarily results from consumption of estuarine and marine fish. Developing fetuses are most at risk from this neurotoxin but health effects of highly exposed populations and wildlife are also a concern. Integration of Hg science with national and international policy efforts is needed to target efforts and evaluate efficacy. PMID:23590191

Anaerobic methanotrophic communities thrive in deep submarine permafrost.

PubMed

Winkel, Matthias; Mitzscherling, Julia; Overduin, Pier P; Horn, Fabian; Winterfeld, Maria; Rijkers, Ruud; Grigoriev, Mikhail N; Knoblauch, Christian; Mangelsdorf, Kai; Wagner, Dirk; Liebner, Susanne

2018-01-22

Thawing submarine permafrost is a source of methane to the subsurface biosphere. Methane oxidation in submarine permafrost sediments has been proposed, but the responsible microorganisms remain uncharacterized. We analyzed archaeal communities and identified distinct anaerobic methanotrophic assemblages of marine and terrestrial origin (ANME-2a/b, ANME-2d) both in frozen and completely thawed submarine permafrost sediments. Besides archaea potentially involved in anaerobic oxidation of methane (AOM) we found a large diversity of archaea mainly belonging to Bathyarchaeota, Thaumarchaeota, and Euryarchaeota. Methane concentrations and δ 13 C-methane signatures distinguish horizons of potential AOM coupled either to sulfate reduction in a sulfate-methane transition zone (SMTZ) or to the reduction of other electron acceptors, such as iron, manganese or nitrate. Analysis of functional marker genes (mcrA) and fluorescence in situ hybridization (FISH) corroborate potential activity of AOM communities in submarine permafrost sediments at low temperatures. Modeled potential AOM consumes 72-100% of submarine permafrost methane and up to 1.2 Tg of carbon per year for the total expected area of submarine permafrost. This is comparable with AOM habitats such as cold seeps. We thus propose that AOM is active where submarine permafrost thaws, which should be included in global methane budgets.

Deep aquifer prokaryotic community responses to CO2 geosequestration

NASA Astrophysics Data System (ADS)

Mu, A.; Moreau, J. W.

2015-12-01

Little is known about potential microbial responses to supercritical CO2 (scCO2) injection into deep subsurface aquifers, a currently experimental means for mitigating atmospheric CO2 pollution being trialed at several locations around the world. One such site is the Paaratte Formation of the Otway Basin (~1400 m below surface; 60°C; 2010 psi), Australia. Microbial responses to scCO2 are important to understand as species selection may result in changes to carbon and electron flow. A key aim is to determine if biofilm may form in aquifer pore spaces and reduce aquifer permeability and storage. This study aimed to determine in situ, using 16S rRNA gene, and functional metagenomic analyses, how the microbial community in the Otway Basin geosequestration site responded to experimental injection of 150 tons of scCO2. We demonstrate an in situ sampling approach for detecting deep subsurface microbial community changes associated with geosequestration. First-order level analyses revealed a distinct shift in microbial community structure following the scCO2 injection event, with proliferation of genera Comamonas and Sphingobium. Similarly, functional profiling of the formation revealed a marked increase in biofilm-associated genes (encoding for poly-β-1,6-N-acetyl-D-glucosamine). Global analysis of the functional gene profile highlights that scCO2 injection potentially degraded the metabolism of CH4 and lipids. A significant decline in carboxydotrophic gene abundance (cooS) and an anaerobic carboxydotroph OTU (Carboxydocella), was observed in post-injection samples. The potential impacts on the flow networks of carbon and electrons to heterotrophs are discussed. Our findings yield insights for other subsurface systems, such as hydrocarbon-rich reservoirs and high-CO2 natural analogue sites.

Does Aspartic Acid Racemization Constrain the Depth Limit of the Subsurface Biosphere?

NASA Technical Reports Server (NTRS)

Onstott, T C.; Magnabosco, C.; Aubrey, A. D.; Burton, A. S.; Dworkin, J. P.; Elsila, J. E.; Grunsfeld, S.; Cao, B. H.; Hein, J. E.; Glavin, D. P.;

Does aspartic acid racemization constrain the depth limit of the subsurface biosphere?

PubMed

Onstott, T C; Magnabosco, C; Aubrey, A D; Burton, A S; Dworkin, J P; Elsila, J E; Grunsfeld, S; Cao, B H; Hein, J E; Glavin, D P; Kieft, T L; Silver, B J; Phelps, T J; van Heerden, E; Opperman, D J; Bada, J L

2014-01-01

Previous studies of the subsurface biosphere have deduced average cellular doubling times of hundreds to thousands of years based upon geochemical models. We have directly constrained the in situ average cellular protein turnover or doubling times for metabolically active micro-organisms based on cellular amino acid abundances, D/L values of cellular aspartic acid, and the in vivo aspartic acid racemization rate. Application of this method to planktonic microbial communities collected from deep fractures in South Africa yielded maximum cellular amino acid turnover times of ~89 years for 1 km depth and 27 °C and 1-2 years for 3 km depth and 54 °C. The latter turnover times are much shorter than previously estimated cellular turnover times based upon geochemical arguments. The aspartic acid racemization rate at higher temperatures yields cellular protein doubling times that are consistent with the survival times of hyperthermophilic strains and predicts that at temperatures of 85 °C, cells must replace proteins every couple of days to maintain enzymatic activity. Such a high maintenance requirement may be the principal limit on the abundance of living micro-organisms in the deep, hot subsurface biosphere, as well as a potential limit on their activity. The measurement of the D/L of aspartic acid in biological samples is a potentially powerful tool for deep, fractured continental and oceanic crustal settings where geochemical models of carbon turnover times are poorly constrained. Experimental observations on the racemization rates of aspartic acid in living thermophiles and hyperthermophiles could test this hypothesis. The development of corrections for cell wall peptides and spores will be required, however, to improve the accuracy of these estimates for environmental samples. © 2013 John Wiley & Sons Ltd.

Deep subsurface drip irrigation using coal-bed sodic water: part II. geochemistry

USGS Publications Warehouse

Bern, Carleton R.; Breit, George N.; Healy, Richard W.; Zupancic, John W.

2013-01-01

Waters with low salinity and high sodium adsorption ratios (SARs) present a challenge to irrigation because they degrade soil structure and infiltration capacity. In the Powder River Basin of Wyoming, such low salinity (electrical conductivity, EC 2.1 mS cm-1) and high-SAR (54) waters are co-produced with coal-bed methane and some are used for subsurface drip irrigation(SDI). The SDI system studied mixes sulfuric acid with irrigation water and applies water year-round via drip tubing buried 92 cm deep. After six years of irrigation, SAR values between 0 and 30 cm depth (0.5-1.2) are only slightly increased over non-irrigated soils (0.1-0.5). Only 8-15% of added Na has accumulated above the drip tubing. Sodicity has increased in soil surrounding the drip tubing, and geochemical simulations show that two pathways can generate sodic conditions. In soil between 45-cm depth and the drip tubing, Na from the irrigation water accumulates as evapotranspiration concentrates solutes. SAR values >12, measured by 1:1 water-soil extracts, are caused by concentration of solutes by factors up to 13. Low-EC (-1) is caused by rain and snowmelt flushing the soil and displacing ions in soil solution. Soil below the drip tubing experiences lower solute concentration factors (1-1.65) due to excess irrigation water and also contains relatively abundant native gypsum (2.4 ± 1.7 wt.%). Geochemical simulations show gypsum dissolution decreases soil-water SAR to 14 and decreasing EC in soil water to 3.2 mS cm-1. Increased sodicity in the subsurface, rather than the surface, indicates that deep SDI can be a viable means of irrigating with sodic waters.

Subsurface microbial diversity in deep-granitic-fracture water in Colorado

USGS Publications Warehouse

Sahl, J.W.; Schmidt, R.; Swanner, E.D.; Mandernack, K.W.; Templeton, A.S.; Kieft, Thomas L.; Smith, R.L.; Sanford, W.E.; Callaghan, R.L.; Mitton, J.B.; Spear, J.R.

2008-01-01

A microbial community analysis using 16S rRNA gene sequencing was performed on borehole water and a granite rock core from Henderson Mine, a >1,000-meter-deep molybdenum mine near Empire, CO. Chemical analysis of borehole water at two separate depths (1,044 m and 1,004 m below the mine entrance) suggests that a sharp chemical gradient exists, likely from the mixing of two distinct subsurface fluids, one metal rich and one relatively dilute; this has created unique niches for microorganisms. The microbial community analyzed from filtered, oxic borehole water indicated an abundance of sequences from iron-oxidizing bacteria (Gallionella spp.) and was compared to the community from the same borehole after 2 weeks of being plugged with an expandable packer. Statistical analyses with UniFrac revealed a significant shift in community structure following the addition of the packer. Phospholipid fatty acid (PLFA) analysis suggested that Nitrosomonadales dominated the oxic borehole, while PLFAs indicative of anaerobic bacteria were most abundant in the samples from the plugged borehole. Microbial sequences were represented primarily by Firmicutes, Proteobacteria, and a lineage of sequences which did not group with any identified bacterial division; phylogenetic analyses confirmed the presence of a novel candidate division. This "Henderson candidate division" dominated the clone libraries from the dilute anoxic fluids. Sequences obtained from the granitic rock core (1,740 m below the surface) were represented by the divisions Proteobacteria (primarily the family Ralstoniaceae) and Firmicutes. Sequences grouping within Ralstoniaceae were also found in the clone libraries from metal-rich fluids yet were absent in more dilute fluids. Lineage-specific comparisons, combined with phylogenetic statistical analyses, show that geochemical variance has an important effect on microbial community structure in deep, subsurface systems. Copyright ?? 2008, American Society for Microbiology. All Rights Reserved.

Subsurface Microbial Diversity in Deep-Granitic-Fracture Water in Colorado▿

PubMed Central

Sahl, Jason W.; Schmidt, Raleigh; Swanner, Elizabeth D.; Mandernack, Kevin W.; Templeton, Alexis S.; Kieft, Thomas L.; Smith, Richard L.; Sanford, William E.; Callaghan, Robert L.; Mitton, Jeffry B.; Spear, John R.

2008-01-01

A microbial community analysis using 16S rRNA gene sequencing was performed on borehole water and a granite rock core from Henderson Mine, a >1,000-meter-deep molybdenum mine near Empire, CO. Chemical analysis of borehole water at two separate depths (1,044 m and 1,004 m below the mine entrance) suggests that a sharp chemical gradient exists, likely from the mixing of two distinct subsurface fluids, one metal rich and one relatively dilute; this has created unique niches for microorganisms. The microbial community analyzed from filtered, oxic borehole water indicated an abundance of sequences from iron-oxidizing bacteria (Gallionella spp.) and was compared to the community from the same borehole after 2 weeks of being plugged with an expandable packer. Statistical analyses with UniFrac revealed a significant shift in community structure following the addition of the packer. Phospholipid fatty acid (PLFA) analysis suggested that Nitrosomonadales dominated the oxic borehole, while PLFAs indicative of anaerobic bacteria were most abundant in the samples from the plugged borehole. Microbial sequences were represented primarily by Firmicutes, Proteobacteria, and a lineage of sequences which did not group with any identified bacterial division; phylogenetic analyses confirmed the presence of a novel candidate division. This “Henderson candidate division” dominated the clone libraries from the dilute anoxic fluids. Sequences obtained from the granitic rock core (1,740 m below the surface) were represented by the divisions Proteobacteria (primarily the family Ralstoniaceae) and Firmicutes. Sequences grouping within Ralstoniaceae were also found in the clone libraries from metal-rich fluids yet were absent in more dilute fluids. Lineage-specific comparisons, combined with phylogenetic statistical analyses, show that geochemical variance has an important effect on microbial community structure in deep, subsurface systems. PMID:17981950

Exploring Genomic Diversity Using Metagenomics of Deep-Sea Subsurface Microbes from the Louisville Seamount and the South Pacific Gyre

NASA Astrophysics Data System (ADS)

Tully, B. J.; Sylvan, J. B.; Heidelberg, J. F.; Huber, J. A.

2014-12-01

There are many limitations involved with sampling microbial diversity from deep-sea subsurface environments, ranging from physical sample collection, low microbial biomass, culturing at in situ conditions, and inefficient nucleic acid extractions. As such, we are continually modifying our methods to obtain better results and expanding what we know about microbes in these environments. Here we present analysis of metagenomes sequences from samples collected from 120 m within the Louisville Seamount and from the top 5-10cm of the sediment in the center of the south Pacific gyre (SPG). Both systems are low biomass with ~102 and ~104 cells per cm3 for Louisville Seamount samples analyzed and the SPG sediment, respectively. The Louisville Seamount represents the first in situ subseafloor basalt and the SPG sediments represent the first in situ low biomass sediment microbial metagenomes. Both of these environments, subseafloor basalt and sediments underlying oligotrophic ocean gyres, represent large provinces of the seafloor environment that remain understudied. Despite the low biomass and DNA generated from these samples, we have generated 16 near complete genomes (5 from Louisville and 11 from the SPG) from the two metagenomic datasets. These genomes are estimated to be between 51-100% complete and span a range of phylogenetic groups, including the Proteobacteria, Actinobacteria, Firmicutes, Chloroflexi, and unclassified bacterial groups. With these genomes, we have assessed potential functional capabilities of these organisms and performed a comparative analysis between the environmental genomes and previously sequenced relatives to determine possible adaptations that may elucidate survival mechanisms for these low energy environments. These methods illustrate a baseline analysis that can be applied to future metagenomic deep-sea subsurface datasets and will help to further our understanding of microbiology within these environments.

Scales of Spatial Heterogeneity of Plastic Marine Debris in the Northeast Pacific Ocean

PubMed Central

Goldstein, Miriam C.; Titmus, Andrew J.; Ford, Michael

2013-01-01

Plastic debris has been documented in many marine ecosystems, including remote coastlines, the water column, the deep sea, and subtropical gyres. The North Pacific Subtropical Gyre (NPSG), colloquially called the “Great Pacific Garbage Patch,” has been an area of particular scientific and public concern. However, quantitative assessments of the extent and variability of plastic in the NPSG have been limited. Here, we quantify the distribution, abundance, and size of plastic in a subset of the eastern Pacific (approximately 20–40°N, 120–155°W) over multiple spatial scales. Samples were collected in Summer 2009 using surface and subsurface plankton net tows and quantitative visual observations, and Fall 2010 using surface net tows only. We documented widespread, though spatially variable, plastic pollution in this portion of the NPSG and adjacent waters. The overall median microplastic numerical concentration in Summer 2009 was 0.448 particles m−2 and in Fall 2010 was 0.021 particles m−2, but plastic concentrations were highly variable over the submesoscale (10 s of km). Size-frequency spectra were skewed towards small particles, with the most abundant particles having a cross-sectional area of approximately 0.01 cm2. Most microplastic was found on the sea surface, with the highest densities detected in low-wind conditions. The numerical majority of objects were small particles collected with nets, but the majority of debris surface area was found in large objects assessed visually. Our ability to detect high-plastic areas varied with methodology, as stations with substantial microplastic did not necessarily also contain large visually observable objects. A power analysis of our data suggests that high variability of surface microplastic will make future changes in abundance difficult to detect without substantial sampling effort. Our findings suggest that assessment and monitoring of oceanic plastic debris must account for high spatial variability, particularly in regards to the evaluation of initiatives designed to reduce marine debris. PMID:24278233

Scales of spatial heterogeneity of plastic marine debris in the northeast pacific ocean.

PubMed

Goldstein, Miriam C; Titmus, Andrew J; Ford, Michael

2013-01-01

Plastic debris has been documented in many marine ecosystems, including remote coastlines, the water column, the deep sea, and subtropical gyres. The North Pacific Subtropical Gyre (NPSG), colloquially called the "Great Pacific Garbage Patch," has been an area of particular scientific and public concern. However, quantitative assessments of the extent and variability of plastic in the NPSG have been limited. Here, we quantify the distribution, abundance, and size of plastic in a subset of the eastern Pacific (approximately 20-40°N, 120-155°W) over multiple spatial scales. Samples were collected in Summer 2009 using surface and subsurface plankton net tows and quantitative visual observations, and Fall 2010 using surface net tows only. We documented widespread, though spatially variable, plastic pollution in this portion of the NPSG and adjacent waters. The overall median microplastic numerical concentration in Summer 2009 was 0.448 particles m(-2) and in Fall 2010 was 0.021 particles m(-2), but plastic concentrations were highly variable over the submesoscale (10 s of km). Size-frequency spectra were skewed towards small particles, with the most abundant particles having a cross-sectional area of approximately 0.01 cm(2). Most microplastic was found on the sea surface, with the highest densities detected in low-wind conditions. The numerical majority of objects were small particles collected with nets, but the majority of debris surface area was found in large objects assessed visually. Our ability to detect high-plastic areas varied with methodology, as stations with substantial microplastic did not necessarily also contain large visually observable objects. A power analysis of our data suggests that high variability of surface microplastic will make future changes in abundance difficult to detect without substantial sampling effort. Our findings suggest that assessment and monitoring of oceanic plastic debris must account for high spatial variability, particularly in regards to the evaluation of initiatives designed to reduce marine debris.

Enrichment of Fusobacteria in Sea Surface Oil Slicks from the Deepwater Horizon Oil Spill

PubMed Central

Gutierrez, Tony; Berry, David; Teske, Andreas; Aitken, Michael D.

2016-01-01

The Deepwater Horizon (DWH) oil spill led to rapid microbial community shifts in the Gulf of Mexico, including the formation of unprecedented quantities of marine oil snow (MOS) and of a massive subsurface oil plume. The major taxa that bloomed in sea surface oil slicks during the spill included Cycloclasticus, and to a lesser extent Halomonas, Alteromonas, and Pseudoalteromonas—organisms that grow and degrade oil hydrocarbons aerobically. Here, we show that sea surface oil slicks at DWH contained obligate and facultative anaerobic taxa, including members of the obligate anaerobic phylum Fusobacteria that are commonly found in marine sediment environments. Pyrosequencing analysis revealed that Fusobacteria were strongly selected for when sea surface oil slicks were allowed to develop anaerobically. These organisms have been found in oil-contaminated sediments in the Gulf of Mexico, in deep marine oil reservoirs, and other oil-contaminated sites, suggesting they have putative hydrocarbon-degrading qualities. The occurrence and strong selection for Fusobacteria in a lab-based incubation of a sea surface oil slick sample collected during the spill suggests that these organisms may have become enriched in anaerobic zones of suspended particulates, such as MOS. Whilst the formation and rapid sinking of MOS is recognised as an important mechanism by which a proportion of the Macondo oil had been transported to the sea floor, its role in potentially transporting microorganisms, including oil-degraders, from the upper reaches of the water column to the seafloor should be considered. The presence of Fusobacteria on the sea surface—a highly oxygenated environment—is intriguing, and may be explained by the vertical upsurge of oil that provided a carrier to transport these organisms from anaerobic/micro-aerophilic zones in the oil plume or seabed to the upper reaches of the water column. We also propose that the formation of rapidly-sinking MOS may have re-transported these, and other microbial taxa, to the sediment in the Gulf of Mexico. PMID:27681918

Subsurface Permian reef complexes of southern Tunisia: Shelf carbonate setting and paleogeographic implications

NASA Astrophysics Data System (ADS)

Zaafouri, Adel; Haddad, Sofiene; Mannaî-Tayech, Beya

2017-05-01

2-D seismic reflection sections, borehole data as well as published and unpublished data have been investigated to reconstruct the paleogeography of southern Tunisia during Middle to Late Permian times. Paleogeographical reconstruction based on the integration of petroleum well data and 2-D seismic facies interpretation shows three main depositional areas with very contrasting sedimentary pile. These are 1) a subsiding basin; 2) an outer shelf carbonate, and 3) an inner shelf carbonate. Based on typical electric responses of reef buildups to seismic wave, we shall urge that during Middle Permian times, the outer carbonate shelf was subject of reef barrier development. Lithology evidences from core samples show that reef framework correspond mainly to fossiliferous limestone and dolomite. The WNW-ESE recognized reef barrier led between latitudes 33° 10‧ 00″N and 33° 20‧ 00″N. The Tebaga of Medenine outcrop constitutes the northern-edge of this barrier. Westward it may be extended to Bir Soltane area whereas its extension eastward is still to be determined. Biogenic buildups took place preferentially over faulted Carboniferous and lower Paleozoic paleohighs resulting likely from the Hercynian orogeny. The subsiding basin is located north of Tebaga of Medenine outcrop where Upper Permian sedimentary sequence is made entirely of 4000 m deep marine green silty shale facies. These are ascribed to unorganized and chaotic reflectors. Inner carbonate shelf facies succession corresponds to a typical interbedding of shallow marine carbonate deposits, shale, dolomite, and anhydrite inducing parallel-layered of strong amplitude and good continuity reflectors. Also within the inner carbonate shelf patch reef or reef pinnacles have been identified based on their seismic signature particularly their low vertical development as compared to reef complexes. Southward, towards Sidi Toui area, the Upper Permian depositional sequence thins out and bears witness of land influences as entailed by the increase of silicoclastic sedimentary supply and the lack of marine fossil.

Energy Requirements of Hydrogen-utilizing Microbes: A Boundary Condition for Subsurface Life

NASA Technical Reports Server (NTRS)

Hoehler, Tori M.; Alperin, Marc J.; Albert, Daniel B.; Martens, Christopher S.

2003-01-01

Microbial ecosystems based on the energy supplied by water-rock chemistry carry particular significance in the context of geo- and astrobiology. With no direct dependence on solar energy, lithotrophic microbes could conceivably penetrate a planetary crust to a depth limited only by temperature or pressure constraints (several kilometers or more). The deep lithospheric habitat is thereby potentially much greater in volume than its surface counterpart, and in addition offers a stable refuge against inhospitable surface conditions related to climatic or atmospheric evolution (e.g., Mars) or even high-energy impacts (e.g., early in Earth's history). The possibilities for a deep microbial biosphere are, however, greatly constrained by life s need to obtain energy at a certain minimum rate (the maintenance energy requirement) and of a certain minimum magnitude (the energy quantum requirement). The mere existence of these requirements implies that a significant fraction of the chemical free energy available in the subsurface environment cannot be exploited by life. Similar limits may also apply to the usefulness of light energy at very low intensities or long wavelengths. Quantification of these minimum energy requirements in terrestrial microbial ecosystems will help to establish a criterion of energetic habitability that can significantly constrain the prospects for life in Earth's subsurface, or on other bodies in the solar system. Our early work has focused on quantifying the biological energy quantum requirement for methanogenic archaea, as representatives of a plausible subsurface metabolism, in anoxic sediments (where energy availability is among the most limiting factors in microbial population growth). In both field and laboratory experiments utilizing these sediments, methanogens retain a remarkably consistent free energy intake, in the face of fluctuating environmental conditions that affect energy availability. The energy yields apparently required by methanogens in these sediment systems for sustained metabolism are about half that previously thought necessary. Lowered energy requirements would imply that a correspondingly greater proportion of the planetary subsurface could represent viable habitat for microorganisms.

Confocal examination of subsurface cracking in ceramic materials.

PubMed

Etman, Maged K

2009-10-01

The original ceramic surface finish and its microstructure may have an effect on crack propagation. The purpose of this study was to investigate the relation between crack propagation and ceramic microstructure following cyclic fatigue loading, and to qualitatively evaluate and quantitatively measure the surface and subsurface crack depths of three types of ceramic restorations with different microstructures using a Confocal Laser Scanning Microscope (CLSM) and Scanning Electron Microscope (SEM). Twenty (8 x 4 x 2 mm(3)) blocks of AllCeram (AC), experimental ceramic (EC, IPS e.max Press), and Sensation SL (SSL) were prepared, ten glazed and ten polished of each material. Sixty antagonist enamel specimens were made from the labial surfaces of permanent incisors. The ceramic abraders were attached to a wear machine, so that each enamel specimen presented at 45 degrees to the vertical movement of the abraders, and immersed in artificial saliva. Wear was induced for 80K cycles at 60 cycles/min with a load of 40 N and 2-mm horizontal deflection. The specimens were examined for cracks at baseline, 5K, 10K, 20K, 40K, and 80K cycles. Twenty- to 30-microm deep subsurface cracking appeared in SSL, with 8 to 10 microm in AC, and 7 microm close to the margin of the wear facets in glazed EC after 5K cycles. The EC showed no cracks with increasing wear cycles. Seventy-microm deep subsurface cracks were detected in SSL and 45 microm in AC after 80K cycles. Statistically, there was significant difference among the three materials (p < 0.05). Bonferroni multiple comparison of means test confirmed the ANOVA test and showed that there was no statistical difference (p > 0.05) in crack depth within the same ceramic material with different surface finishes. The ceramic materials with different microstructures showed different patterns of subsurface cracking.

Noninvasive deep Raman detection with 2D correlation analysis

NASA Astrophysics Data System (ADS)

Kim, Hyung Min; Park, Hyo Sun; Cho, Youngho; Jin, Seung Min; Lee, Kang Taek; Jung, Young Mee; Suh, Yung Doug

2014-07-01

The detection of poisonous chemicals enclosed in daily necessaries is prerequisite essential for homeland security with the increasing threat of terrorism. For the detection of toxic chemicals, we combined a sensitive deep Raman spectroscopic method with 2D correlation analysis. We obtained the Raman spectra from concealed chemicals employing spatially offset Raman spectroscopy in which incident line-shaped light experiences multiple scatterings before being delivered to inner component and yielding deep Raman signal. Furthermore, we restored the pure Raman spectrum of each component using 2D correlation spectroscopic analysis with chemical inspection. Using this method, we could elucidate subsurface component under thick powder and packed contents in a bottle.

The State, Potential Distribution, and Biological Implications of Methane in the Martian Crust

NASA Technical Reports Server (NTRS)

Max, Michael D.; Clifford, Stephen M.

2000-01-01

The search for life on Mars has recently focused on its potential survival in deep (>2 km) subpermafrost aquifers where anaerobic bacteria, similar to those found in deep subsurface ecosystems on Earth, may have survived in an environment that has remained stable for billions of years. An anticipated by-product of this biological activity is methane. The detection of large deposits of methane gas and hydrate in the Martian cryosphere, or as emissions from deep fracture zones, would provide persuasive evidence of indigenous life and confirm the presence of a valuable in situ resource for use by future human explorers.

Feeding a subsurface biosphere: radiolysis and abiogenic energy sources

NASA Astrophysics Data System (ADS)

Onstott, T.

Noble gas analyses of ground water collected from the deep, fractured, basaltic andesite and quartzite Archean strata in South Africa suggest subsurface residence times ranging from tens to hundreds of millions of years. Hydraulically isolated compartments of highly saline water contain hundreds of μM concentrations of gas comprised primarily of C1-4 hydrocarbons, H2 and He, with minor Ar and N .2 Carbon and hydrogen isotopic analyses of the hydrocarbons suggest an abiogenic origin com atible with surface catalysed reductive assimilation (i.e. Fischer-Tropschp synthesis). H2 and He data suggest that the H2 is generated by subsurface radiolysis of water. One sample of a saline, isolated water/gas pocket agrees exactly with that predicted by radioactive decay of U, Th, K in the host rock and indicates a subsurface H2 production rate of 0.1 to 1 nM/yr. Other samples yielded less H2 than predicted and require a sink for this H2 . Possible sinks include microbial H2 oxidation and abiotic formation of hydrocarbons at rates slightly less than the H2 production rate. Highly diffusive H2 is essential for life in deep subsurface environments where only trace amounts of organic carbon exist. Lithoautotrophic microbes can acquire energy from the redox reactions involving H2 with other electron acceptors (Fe3 +, SO4 2 - or CO2 ), to synthesis organic carbon and can be fully independent of solar-driven photosynthesis. The microbial abundance in many of these ground water samples, however, is below our detection limit (<5000 cells/ml). This contrasts with shallow sedimentary aquifers where H2 levels of tens of nM are regulated by the coexistence of autotrophs/lithotrophs and heterotrophs for maximum efficiency of H2 utilization. The excessive H2 found in deep crustal environments implies that these microbial ecosystems are electron-acceptor and or substrate limited. The oxidants generated by water radiolysis interact with the reduced solid phases in the rock matrix, e.g. pyrite, producing potential electron acceptors, e.g. Fe3 +, that may be readily available for consumption by microbial communities than H . Nitrogen doesn't appear to be2 limited, because ammonia concentrations range upwards to tens of μM, but its origin remains a mystery. The unused H2 , CH4 and He continue to migrate upward to shallow aquifers. Microbial H2 oxidation may dominate over Fischer-Tropsch reactions in crustal environments where formation temperatures are <120o C; and vice versa for deeper crustal environments. This H2 cycle should be present on extraterrestrial bodies, producing potential chemical energy and crustal scale diffusive fluxes from the interaction subsurface ice/water and radiogenic decay.

The Sunny Point Formation: a new Upper Cretaceous subsurface unit in the Carolina Coastal Plain

USGS Publications Warehouse

Balson, Audra E.; Self-Trail, Jean; Terry, Dennis O.

2013-01-01

This paper formally defines the Sunny Point Formation, a new Upper Cretaceous subsurface unit confined to the outer Atlantic Coastal Plain of North and South Carolina. Its type section is established in corehole NH-C-1-2001 (Kure Beach) from New Hanover County, North Carolina. The Sunny Point Formation consists of light-olive-gray to greenish-gray, fine to coarse micaceous sands and light-olive-brown and grayish-red silty, sandy clays. The clay-rich sections typically include ironstone, lignitized wood, root traces, hematite concretions, goethite, limonite, and sphaerosiderites. The Sunny Point Formation is also documented in cores from Bladen County, North Carolina, and from Dorchester and Horry Counties, South Carolina. Previously, strata of the Sunny Point Formation had been incorrectly assigned to the Cape Fear and Middendorf Formations. The Sunny Point occupies a stratigraphic position above the Cenomanian marine Clubhouse Formation and below an upper Turonian unnamed marine unit. Contacts between these units are sharp and unconformable. Calcareous nannofossil and palynomorph analyses indicate that the Sunny Point Formation is Turonian.

Sediment Transport Capacity of Turbidity Currents: from Microscale to Geological Scale.

NASA Astrophysics Data System (ADS)

Eggenhuisen, J. T.; Tilston, M.; Cartigny, M.; Pohl, F.; de Leeuw, J.; van der Grind, G. J.

2016-12-01

A big question in sedimentology concerns the magnitude of fluxes of sediment particles, solute matter and dissolved gasses from shallow marine waters to deep basins by turbidity current flow. Here we establish sediment transport capacity of turbidity current flow on three levels. The most elementary level is set by the maximum amount of sediment that can be contained at the base of turbidity currents without causing complete extinction of boundary layer turbulence. The second level concerns the capacity in a vertical column within turbidity currents. The third level involves the amount of sediment that can be transported in turbidite systems on geological timescales. The capacity parameter Γ compares turbulent forces near the boundary of a turbulent suspension to gravity and buoyancy forces acting on suspended particles. The condition of Γ>1 coincides with complete suppression of coherent boundary layer turbulence in Direct Numerical Simulations of sediment-laden turbulent flow. Γ=1 coincides with the upper limit of observed suspended particle concentrations in flume and field measurements. Γ is grainsize independent, yet capacity of the full vertical structure of turbidity currents becomes grainsize dependent. This is due to the appearance of grainsize dependent vertical motions within turbulence as a primary control on the shape of the vertical concentration profile. We illustrate this dependence with experiments and theory and conclude that capacity depends on the competence of prevailing turbulence to suspend particle sizes. The concepts of capacity and competence are thus tangled. Finally, the capacity of turbidity current flow structure is coupled to geological constraints on recurrence times, channel and lobe life cycles, and allogenic forcing on system activity to arrive at system scale sediment transport capacity. We demonstrate a simple model that uses the fundamental process insight described above to estimate geological sediment budgets from architectural information. These predictions are tied to existing S2S analyses to constrain submarine channel and fan dimensions in ancient and subsurface systems. Predictions of sediment budgets in deep marine systems rely on integration of fundamental issues in turbulent particle suspension into geological models of turbidite systems.

Optical remote sensing of oil in the marine environment

NASA Astrophysics Data System (ADS)

Byfield, Valborg

1998-11-01

Remote sensing has played an increasing role in the routine monitoring of oil pollution and in support of the operational response to major oil pollution incidents. This study develops the technique of optical measurement for the detection of oil in the Marine Environment. A theoretical model is proposed, which relates upwelling radiance from surface oil to the optical properties of the oil in question, to the thickness of the oil layer, and to a number of ancillary environmental parameters. It is used to interpret the results of laboratory experiments in artificial and natural light, and ultimately as a tool in the analysis of airborne optical data of surface oil in the field, including the Sea Empress oil spill. Laboratory experiments showed that the thickness of surface oil may be determined using spectral ratios, and the results compared well with the predictions made by the theoretical model. Using the peak to near-infrared ratio, relative thickness estimates can be made from remote sensing data, without extensive data processing. Absolute thickness measurements are more complex, and require the knowledge of a number of environmental parameters. Both the laboratory and airborne data show that classification of oils into broad groups is possible using spectral analysis. However, the number of environmental parameters that must be considered makes this a complex task for field data. The model predicts that sheen detection will be most reliable in regions of the spectrum where the sub-surface signal is low, such as the violet to deep blue and the near-infrared. This is confirmed by the laboratory experiments in natural light, and by the airborne data from the field experiments. When water-leaving radiance is high in the near-infrared, sheen detection may be more difficult, although it should still be possible in the violet to deep blue. The theoretical model and the field data suggest that dispersed oil may be detected if concentrations are sufficiently high. The presence of suspended sediment or high concentrations of planktonic algae will, however, make this task more difficult, and success depends on a good knowledge of the background conditions.

Immunosuppressive compounds from a deep water marine sponge, Agelas flabelliformis.

PubMed

Gunasekera, S P; Cranick, S; Longley, R E

1989-01-01

Two immunosuppressive compounds, 4 alpha-methyl-5 alpha-cholest-8-en-3 beta-ol and 4,5-dibromo-2-pyrrolic acid were isolated from a deep water marine sponge, Agelas flabelliformis. Their structures were determined by comparison of their spectral data with those of samples isolated from other organisms. Both compounds were highly active in suppression of the response of murine splenocytes in the two-way mixed lymphocyte reaction (MLR) with little to no demonstrable cytotoxicity at lower doses. In addition, 4,5-dibromo-2-pyrrolic acid suppressed the proliferative response of splenocytes to suboptimal concentrations of the mitogen, concanavalin A (Con A). These results describe for the first time compounds isolated from the marine sponge A. flabelliformis that possess potent in vitro immunosuppressive activity.

Radar Imaging of Europa's Subsurface Properties and Processes: The View from Earth

NASA Astrophysics Data System (ADS)

Blankenship, D. D.; Moore, W. B.; Young, D. A.; Peters, M. E.

2007-12-01

A primary objective of future Europa studies will be to characterize the distribution of shallow subsurface water as well as to identify any ice-ocean interface. Another objective will be to understand the formation of surface and subsurface features associated with interchange processes between any ocean and the surface. Achieving these objectives will require either direct or inferred knowledge of the position of any ice/water interfaces as well as any brine or layer pockets. We will review the hypothesized processes that control the thermal, compositional and structural (TCS) properties, and therefore the dielectric character, of the subsurface of Europa's icy shell. Our approach will be to extract the TCS properties for various subsurface processes thought to control the formation of major surface (e.g., ridges/bands, lenticulae, chaos, cratering...) and subsurface (e.g., rigid shell eutectics, diapirs, accretionary lenses ...) features on Europa. We will then assess the spectrum of analog processes and TCS properties represented by Earth's cryosphere including both Arctic and Antarctic ice sheets, ice shelves and valley glaciers. There are few complete analogs over the full TCS space but, because of the wide range of ice thickness, impurities and strain rates for Earth's cryosphere, there are many more analogs than many Earth and planetary researchers might imagine for significant portions of this space (e.g., bottom crevasses, marine ice shelf/subglacial lake accretion, surging polythermal glaciers...).Our ultimate objective is to use these Earth analog studies to define the radar imaging approach for Europa's subsurface that will be most useful for supporting/refuting the hypotheses for the formation of major surface/subsurface features as well as for "pure" exploration of Europa's icy shell and its interface with the underlying ocean.

Deep Vadose Zone Treatability Test of Soil Desiccation for the Hanford Central Plateau: Final Report

DOE Office of Scientific and Technical Information (OSTI.GOV)

Truex, Michael J.; Chronister, Glen B.; Strickland, Christopher E.

Some of the inorganic and radionuclide contaminants in the deep vadose zone at the Hanford Site are at depths where direct exposure pathways are not of concern, but may need to be remediated to protect groundwater. The Department of Energy developed a treatability test program for technologies to address Tc-99 and uranium in the deep vadose zone. These contaminants are mobile in the subsurface environment, have been detected at high concentrations deep in the vadose zone, and at some locations have reached groundwater. The treatability test of desiccation described herein was conducted as an element of the deep vadose zonemore » treatability test program. Desiccation was shown to be a potentially effective vadose zone remediation technology to protect groundwater when used in conjunction with a surface infiltration barrier.« less

Exploring Microbial Life in Oxic Sediments Underlying Oligotrophic Ocean Gyres

NASA Astrophysics Data System (ADS)

Ziebis, W.; Orcutt, B.; Wankel, S. D.; D'Hondt, S.; Szubin, R.; Kim, J. N.; Zengler, K.

2015-12-01

Oxygen, carbon and nutrient availability are defining parameters for microbial life. In contrast to organic-rich sediments of the continental margins, where high respiration rates lead to a depletion of O2 within a thin layer at the sediment surface, it was discovered that O2 penetrates several tens of meters into organic-poor sediments underlying oligotrophic ocean gyres. In addition, nitrate, another important oxidant, which usually disappears rapidly with depth in anoxic sediments, tends to accumulate above seawater concentrations in the oxic subsurface, reflecting the importance of nitrogen cycling processes, including both nitrification and denitrification. Two IODP drilling expeditions were vital for exploring the nature of the deep subsurface beneath oligotrophic ocean gyres, expedition 329 to the South Pacific Gyre (SPG) and expedition 336 to North Pond, located on the western flank of the Mid-Atlantic ridge beneath the North Atlantic Gyre. Within the ultra-oligotrophic SPG O2 penetrates the entire sediment column from the sediment-water interface to the underlying basement to depths of > 75 m. At North Pond, a topographic depression filled with sediment and surrounded by steep basaltic outcrops, O2 penetrates deeply into the sediment (~ 30 m) until it eventually becomes depleted. O2 also diffuses upward into the sediment from seawater circulating within the young crust underlying the sediment, resulting in a deep oxic layer several meters above the basalt. Despite low organic carbon contents microbial cells persist throughout the entire sediment column within the SPG (> 75 m) and at North Pond, albeit at low abundances. We explored the nature of the subsurface microbial communities by extracting intact cells from large volumes of sediment obtained from drill cores of the two expeditions. By using CARD-FiSH, amplicon (16s rRNA) and metagenome sequencing we shed light on the phylogenetic and functional diversity of the elusive communities residing in the deep oxic sediments of these two different areas. Given the global extent of this oxic subsurface studies of the diversity and metabolic potential of its biome, together with the analyses of porewater geochemical and isotopic composition, are beginning to reveal its role in global biogeochemical cycles.

Three depositional states and sedimentary processes of the western Taiwan foreland basin system

NASA Astrophysics Data System (ADS)

Lin, Yi-Jung; Wu, Pei-Jen; Yu, Ho-Shing

2010-05-01

The western Taiwan foreland basin formed during the Early Pliocene as the flexural response to the loading of Taiwan orogen on the Eurasian plate. What makes Taiwan interesting is the oblique collision, which allows the foreland basin to be seen at different stages in its evolution at the present day. Due to oblique arc-continent collision from north to south, the western Taiwan foreland basin has evolved into three distinct subbasins: an over-filled basin proximal to the Taiwan orogen, mainly distributed in the Western Foothills and Coastal Plain provinces, a filled basin occupying the shallow Taiwan Strait continental shelf west of the Taiwan orogen and an under-filled basin distal to the Taiwan orogen in the deep marine Kaoping Slope offshore southwest Taiwan, respectively. The over-filled depositional phase is dominated by fluvial environments across the structurally controlled piggy-back basins. The filled depositional state in the Taiwan Strait is characterized by shallow marine environments and is filled by Pliocene-Quaternary sediments up to 4,000 m thick derived from the Taiwan orogen with an asymmetrical and wedge-shaped cross section. The under-filled depositional state is characteristic of deep marine environments in the wedge-top basins accompanied by active structures of thrust faults and mud diapers. Sediments derived from the Taiwan orogen have progressively filled the western Taiwan foreland basin across and along the orogen. Sediment dispersal model suggests that orogenic sediments derived from oblique dischronous collisional highlands are transported in two different ways. Transport of fluvial and shallow marine sediments is perpendicular to hill-slope and across-strike in the fluvial and shallow marine environments proximal to the orogen. Fine-grained sediments mainly longitudinally transported into the deep marine environments distal to the orogen. The present sedimentary processes in the over-filled basin on land are dominated by fluvial processes of small mountainous rivers. Tidal currents are prevalent in the filled basin in Taiwan Strait, transporting shelf sands and forming sand ridges. The deep marine under-filled basin are dominated by down-slope mass wasting processes, eroding slope strata and transporting sediments to the basin floor. In addition, many submarine canyons on the continental slope offshore southwest Taiwan serve as major sediment pathways, delivering shallow marine sediments to the basin floor.

Objectives and Capabilities of the Deep Space 2 (DS2) Evolved Water Experiment

NASA Astrophysics Data System (ADS)

Yen, A. S.; Murray, B.; Zent, A. P.

1999-09-01

The New Millennium Deep Space 2 (DS2) Mars Microprobes will impact the surface of Mars at a latitude of approximately 75 degrees South on December 3, 1999. The primary objective of this mission is to demonstrate penetrator technologies for future scientific applications. Nonetheless, measurements will be obtained with the goal of characterizing the atmospheric structure during entry as well as the penetrability, thermal conductivity, and water ice content of the polar layered terrains. In addition to demonstrating the ability to collect a subsurface sample, the evolved water experiment will test models of the south polar regions which indicate that water ice is stable at depths of 4 to 20 cm and greater [Paige and Keegan, 1994]. This prediction for the presence of ice is in contrast to atmospheric circulation models which suggest that water is irreversibly lost from southern latitudes and that the only extensive, permanent ice deposits are located in the northern hemisphere [Houben et al., 1997]. Furthermore, MOC images from the 1998 aerobraking phase suggest a rougher and perhaps more devolatilized surface than inferred from Viking and Mariner 9 data. Thus, the direct determination of the presence or absence of near-surface ice by the DS2 probes is important in the resolution of the fundamental questions about Mars regarding the global inventory of water and the climate history. In pursuit of these objectives, a 160 milliliter soil sample will be actively collected by a miniature drill and analyzed for water ice both thermally and spectroscopically. Specific capabilities and detection limits for the abundance of water ice will be presented at the meeting.

Potential Mechanisms for Microbial Energy Acquisition in Oxic Deep-Sea Sediments

PubMed Central

Heidelberg, John F.

2016-01-01

ABSTRACT The South Pacific Gyre (SPG) possesses the lowest rates of sedimentation, surface chlorophyll concentration, and primary productivity in the global oceans. As a direct result, deep-sea sediments are thin and contain small amounts of labile organic carbon. It was recently shown that the entire SPG sediment column is oxygenated and may be representative of up to a third of the global marine environment. To understand the microbial processes that contribute to the removal of the labile organic matter at the water-sediment interface, a sediment sample was collected and subjected to metagenomic sequencing and analyses. Analysis of nine partially reconstructed environmental genomes, which represent approximately one-third of the microbial community, revealed that the members of the SPG surface sediment microbial community are phylogenetically distinct from surface/upper-ocean organisms. These genomes represent a wide distribution of novel organisms, including deep-branching Alphaproteobacteria, two novel organisms within the Proteobacteria, and new members of the Nitrospirae, Nitrospinae, and candidate phylum NC10. These genomes contain evidence for microbially mediated metal (iron/manganese) oxidation and carbon fixation linked to nitrification. Additionally, despite hypothesized energy limitation, members of the SPG microbial community had motility and chemotaxis genes and possessed mechanisms for the degradation of high-molecular-weight organic matter. This study contributes to our understanding of the metabolic potential of microorganisms in deep-sea oligotrophic sediments and their impact on local carbon geochemistry. IMPORTANCE This research provides insight into the microbial metabolic potential of organisms inhabiting oxygenated deep-sea marine sediments. Current estimates suggest that these environments account for up to a third of the global marine sediment habitat. Nine novel deep-sea microbial genomes were reconstructed from a metagenomic data set and expand the limited number of environmental genomes from deep-sea sediment environments. This research provides phylogeny-linked insight into critical metabolisms, including carbon fixation associated with nitrification, which is assignable to members of the marine group 1 Thaumarchaeota, Nitrospinae, and Nitrospirae and neutrophilic metal (iron/manganese) oxidation assignable to a novel proteobacterium. PMID:27208118

Potential Mechanisms for Microbial Energy Acquisition in Oxic Deep-Sea Sediments.

PubMed

Tully, Benjamin J; Heidelberg, John F

2016-07-15

The South Pacific Gyre (SPG) possesses the lowest rates of sedimentation, surface chlorophyll concentration, and primary productivity in the global oceans. As a direct result, deep-sea sediments are thin and contain small amounts of labile organic carbon. It was recently shown that the entire SPG sediment column is oxygenated and may be representative of up to a third of the global marine environment. To understand the microbial processes that contribute to the removal of the labile organic matter at the water-sediment interface, a sediment sample was collected and subjected to metagenomic sequencing and analyses. Analysis of nine partially reconstructed environmental genomes, which represent approximately one-third of the microbial community, revealed that the members of the SPG surface sediment microbial community are phylogenetically distinct from surface/upper-ocean organisms. These genomes represent a wide distribution of novel organisms, including deep-branching Alphaproteobacteria, two novel organisms within the Proteobacteria, and new members of the Nitrospirae, Nitrospinae, and candidate phylum NC10. These genomes contain evidence for microbially mediated metal (iron/manganese) oxidation and carbon fixation linked to nitrification. Additionally, despite hypothesized energy limitation, members of the SPG microbial community had motility and chemotaxis genes and possessed mechanisms for the degradation of high-molecular-weight organic matter. This study contributes to our understanding of the metabolic potential of microorganisms in deep-sea oligotrophic sediments and their impact on local carbon geochemistry. This research provides insight into the microbial metabolic potential of organisms inhabiting oxygenated deep-sea marine sediments. Current estimates suggest that these environments account for up to a third of the global marine sediment habitat. Nine novel deep-sea microbial genomes were reconstructed from a metagenomic data set and expand the limited number of environmental genomes from deep-sea sediment environments. This research provides phylogeny-linked insight into critical metabolisms, including carbon fixation associated with nitrification, which is assignable to members of the marine group 1 Thaumarchaeota, Nitrospinae, and Nitrospirae and neutrophilic metal (iron/manganese) oxidation assignable to a novel proteobacterium. Copyright © 2016 Tully and Heidelberg.

Sulfur mass-independent fractionation in subsurface fracture waters indicates a long-standing sulfur cycle in Precambrian rocks.

PubMed

Li, L; Wing, B A; Bui, T H; McDermott, J M; Slater, G F; Wei, S; Lacrampe-Couloume, G; Lollar, B Sherwood

2016-10-27

The discovery of hydrogen-rich waters preserved below the Earth's surface in Precambrian rocks worldwide expands our understanding of the habitability of the terrestrial subsurface. Many deep microbial ecosystems in these waters survive by coupling hydrogen oxidation to sulfate reduction. Hydrogen originates from water-rock reactions including serpentinization and radiolytic decomposition of water induced by decay of radioactive elements in the host rocks. The origin of dissolved sulfate, however, remains unknown. Here we report, from anoxic saline fracture waters ∼2.4 km below surface in the Canadian Shield, a sulfur mass-independent fractionation signal in dissolved sulfate. We demonstrate that this sulfate most likely originates from oxidation of sulfide minerals in the Archaean host rocks through the action of dissolved oxidants (for example, HO · and H 2 O 2 ) themselves derived from radiolysis of water, thereby providing a coherent long-term mechanism capable of supplying both an essential electron donor (H 2 ) and a complementary acceptor (sulfate) for the deep biosphere.

Deep-Focusing Time-Distance Helioseismology

NASA Technical Reports Server (NTRS)

Duvall, T. L., Jr.; Jensen, J. M.; Kosovichev, A. G.; Birch, A. C.; Fisher, Richard R. (Technical Monitor)

2001-01-01

Much progress has been made by measuring the travel times of solar acoustic waves from a central surface location to points at equal arc distance away. Depth information is obtained from the range of arc distances examined, with the larger distances revealing the deeper layers. This method we will call surface-focusing, as the common point, or focus, is at the surface. To obtain a clearer picture of the subsurface region, it would, no doubt, be better to focus on points below the surface. Our first attempt to do this used the ray theory to pick surface location pairs that would focus on a particular subsurface point. This is not the ideal procedure, as Born approximation kernels suggest that this focus should have zero sensitivity to sound speed inhomogeneities. However, the sensitivity is concentrated below the surface in a much better way than the old surface-focusing method, and so we expect the deep-focusing method to be more sensitive. A large sunspot group was studied by both methods. Inversions based on both methods will be compared.

Subsurface metabolic potential on the Costa Rican Margin

NASA Astrophysics Data System (ADS)

Biddle, J.; Leon, Z. R.; Martino, A. J.; Bousses, K.; House, C. H.

2017-12-01

The distribution of archaea and bacteria and their associated metabolic abilities in the deep subseafloor are poorly understood. In order to explore this, we focused on samples from the Costa Rica margin IODP Expedition 334. The microbial community was analyzed via metagenomics in two different sites at multiple depths. At Site 1378, samples are from 2 meters below the sea floor (mbsf), 33 mbsf and 93 mbsf, and at Site 1379 from 22 mbsf to 45 mbsf. Whole community analysis of conserved gene markers in the metagenome show that the microbial community varies with depth, and drastically differs between the two geographically close sites. Thirty-two genomes were recovered from the metagenomic data with more than 30% completion. Archaea make 49% of all genomes recovered and over 90% of these recovered genomes belong to recently discovered and poorly characterized groups of Archaea. This study explored the relative dynamics of microbial communities in the deep biosphere and presents the metabolic potential of distinct subsurface biosphere archaeal groups.

Sulfur mass-independent fractionation in subsurface fracture waters indicates a long-standing sulfur cycle in Precambrian rocks

PubMed Central

Li, L.; Wing, B. A.; Bui, T. H.; McDermott, J. M.; Slater, G. F.; Wei, S.; Lacrampe-Couloume, G.; Lollar, B. Sherwood

2016-01-01

The discovery of hydrogen-rich waters preserved below the Earth's surface in Precambrian rocks worldwide expands our understanding of the habitability of the terrestrial subsurface. Many deep microbial ecosystems in these waters survive by coupling hydrogen oxidation to sulfate reduction. Hydrogen originates from water–rock reactions including serpentinization and radiolytic decomposition of water induced by decay of radioactive elements in the host rocks. The origin of dissolved sulfate, however, remains unknown. Here we report, from anoxic saline fracture waters ∼2.4 km below surface in the Canadian Shield, a sulfur mass-independent fractionation signal in dissolved sulfate. We demonstrate that this sulfate most likely originates from oxidation of sulfide minerals in the Archaean host rocks through the action of dissolved oxidants (for example, HO· and H2O2) themselves derived from radiolysis of water, thereby providing a coherent long-term mechanism capable of supplying both an essential electron donor (H2) and a complementary acceptor (sulfate) for the deep biosphere. PMID:27807346

Subsurface site conditions and geology in the San Fernando earthquake area

DOE Office of Scientific and Technical Information (OSTI.GOV)

Duke, C.M.; Johnson, J.A.; Kharraz, Y.

1971-12-01

The report presents the progress to date in establishing the facts about dynamic subsurface properties and geological features in the area affected by the San Fernando earthquake of February 9, 1971. Special emphasis is given to the locations of accelerographs, seismoscopes and Seismological Field Survey aftershock instruments. Thirty shallow geophysical surveys were made for determination of S and P velocities, with damping measured at some sites. Deep velocity data were obtained from geophysical surveys by others. Soil Mechanics and water well borings by others were utilized. Published and ongoing geological studies were applied. Results are presented in the form ofmore » five geological cross-sections, nine subsurface exploration models extending through basement complex to depths of 14,000 feet, a general geologic map, the shallow geophysical surveys, and selected data on damping.« less

A Generalized Subsurface Flow Parameterization Considering Subgrid Spatial Variability of Recharge and Topography

DOE Office of Scientific and Technical Information (OSTI.GOV)

Huang, Maoyi; Liang, Xu; Leung, Lai R.

2008-12-05

Subsurface flow is an important hydrologic process and a key component of the water budget, especially in humid regions. In this study, a new subsurface flow formulation is developed that incorporates spatial variability of both topography and recharge. It is shown through theoretical derivation and case studies that the power law and exponential subsurface flow parameterizations and the parameterization proposed by Woods et al.[1997] are all special cases of the new formulation. The subsurface flows calculated using the new formulation compare well with values derived from observations at the Tulpehocken Creek and Walnut Creek watersheds. Sensitivity studies show that whenmore » the spatial variability of topography or recharge, or both is increased, the subsurface flows increase at the two aforementioned sites and the Maimai hillslope. This is likely due to enhancement of interactions between the groundwater table and the land surface that reduce the flow path. An important conclusion of this study is that the spatial variability of recharge alone, and/or in combination with the spatial variability of topography can substantially alter the behaviors of subsurface flows. This suggests that in macroscale hydrologic models or land surface models, subgrid variations of recharge and topography can make significant contributions to the grid mean subsurface flow and must be accounted for in regions with large surface heterogeneity. This is particularly true for regions with humid climate and relatively shallow groundwater table where the combined impacts of spatial variability of recharge and topography are shown to be more important. For regions with arid climate and relatively deep groundwater table, simpler formulations, especially the power law, for subsurface flow can work well, and the impacts of subgrid variations of recharge and topography may be ignored.« less

Deep seawater inherent optical properties in the Southern Ionian Sea

NASA Astrophysics Data System (ADS)

Riccobene, G.; Capone, A.; Aiello, S.; Ambriola, M.; Ameli, F.; Amore, I.; Anghinolfi, M.; Anzalone, A.; Avanzini, C.; Barbarino, G.; Barbarito, E.; Battaglieri, M.; Bellotti, R.; Beverini, N.; Bonori, M.; Bouhadef, B.; Brescia, M.; Cacopardo, G.; Cafagna, F.; Caponetto, L.; Castorina, E.; Ceres, A.; Chiarusi, T.; Circella, M.; Cocimano, R.; Coniglione, R.; Cordelli, M.; Costa, M.; Cuneo, S.; D'Amico, A.; de Bonis, G.; de Marzo, C.; de Rosa, G.; de Vita, R.; Distefano, C.; Falchini, E.; Fiorello, C.; Flaminio, V.; Fratini, K.; Gabrielli, A.; Galeotti, S.; Gandolfi, E.; Grimaldi, A.; Habel, R.; Leonora, E.; Lonardo, A.; Longo, G.; Lo Presti, D.; Lucarelli, F.; Maccioni, E.; Margiotta, A.; Martini, A.; Masullo, R.; Megna, R.; Migneco, E.; Mongelli, M.; Montaruli, T.; Morganti, M.; Musumeci, M.; Nicolau, C. A.; Orlando, A.; Osipenko, M.; Osteria, G.; Papaleo, R.; Pappalardo, V.; Petta, C.; Piattelli, P.; Raffaelli, F.; Raia, G.; Randazzo, N.; Reito, S.; Ricco, G.; Ripani, M.; Rovelli, A.; Ruppi, M.; Russo, G. V.; Russo, S.; Russo, S.; Sapienza, P.; Sedita, M.; Schuller, J.-P.; Shirokov, E.; Simeone, F.; Sipala, V.; Spurio, M.; Taiuti, M.; Terreni, G.; Trasatti, L.; Urso, S.; Valente, V.; Vicini, P.

2007-02-01

The NEMO (NEutrino Mediterranean Observatory) Collaboration has been carrying out since 1998 an evaluation programme of deep sea sites suitable for the construction of the future Mediterranean km3 Čerenkov neutrino telescope. We investigated the seawater optical and oceanographic properties of several deep sea marine areas close to the Italian Coast. Inherent optical properties (light absorption and attenuation coefficients) have been measured as a function of depth using an experimental apparatus equipped with standard oceanographic probes and the commercial transmissometer AC9 manufactured by WETLabs. This paper reports on the visible light absorption and attenuation coefficients measured in deep seawater of a marine region located in the Southern Ionian Sea, 60 100 km SE of Capo Passero (Sicily). Data show that blue light absorption coefficient is about 0.015 m-1 (corresponding to an absorption length of 67 m) close to the one of optically pure water and it does not show seasonal variation.

Microbial gene functions enriched in the Deepwater Horizon deep-sea oil plume

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lu, Z.; Deng, Y.; Nostrand, J.D. Van

2011-06-15

The Deepwater Horizon oil spill in the Gulf of Mexico is the deepest and largest offshore spill in U.S. history and its impacts on marine ecosystems are largely unknown. Here, we showed that the microbial community functional composition and structure were dramatically altered in a deep-sea oil plume resulting from the spill. A variety of metabolic genes involved in both aerobic and anaerobic hydrocarbon degradation were highly enriched in the plume compared to outside the plume, indicating a great potential for intrinsic bioremediation or natural attenuation in the deep-sea. Various other microbial functional genes relevant to carbon, nitrogen, phosphorus, sulfurmore » and iron cycling, metal resistance, and bacteriophage replication were also enriched in the plume. Together, these results suggest that the indigenous marine microbial communities could play a significant role in biodegradation of oil spills in deep-sea environments.« less

Survival of marine heterotrophic flagellates isolated from the surface and the deep sea at high hydrostatic pressure: Literature review and own experiments

NASA Astrophysics Data System (ADS)

Živaljić, Suzana; Schoenle, Alexandra; Nitsche, Frank; Hohlfeld, Manon; Piechocki, Julia; Reif, Farina; Shumo, Marwa; Weiss, Alexandra; Werner, Jennifer; Witt, Madeleine; Voss, Janine; Arndt, Hartmut

2018-02-01

Although the abyssal seafloor represents the most common benthic environment on Earth, eukaryotic microbial life at abyssal depths is still an uncharted territory. This is in striking contrast to their potential importance regarding the material flux and bacteria consumption in the deep sea. Flagellate genotypes determined from sedimentary DNA deep-sea samples might originate from vital deep-sea populations or from cysts of organisms sedimented down from surface waters. The latter one may have never been active under deep-sea conditions. We wanted to analyze the principal ability of cultivable heterotrophic flagellates of different phylogenetic groups (choanoflagellates, ancyromonads, euglenids, kinetoplastids, bicosoecids, chrysomonads, and cercozoans) to survive exposure to high hydrostatic pressure (up to 670 bar). We summarized our own studies and the few available data from literature on pressure tolerances of flagellates isolated from different marine habitats. Our results demonstrated that many different flagellate species isolated from the surface waters and deep-sea sediments survived drastic changes in hydrostatic pressure. Barophilic behavior was also recorded for several species isolated from the deep sea indicating their possible genetic adaptation to high pressures. This is in accordance with records of heterotrophic flagellates present in environmental DNA surveys based on clone libraries established for deep-sea environments.

Micronutrients and kelp cultures: Evidence for cobalt and manganese deficiency in Southern California deep seawater

USGS Publications Warehouse

Kuwabara, J.S.

1982-01-01

It has been suggested that naturally occurring copper and zinc concentrations in deep seawater are toxic to marine organisms when the free ion forms are overabundant. The effects of micronutrients on the growth of gametophytes of the ecologically and commercially significant giant kelp (Macrocystis pyrifera) were studied in defined media. The results indicate that toxic copper and zinc ion concentrations as well as cobalt and manganese deficiencies may be among the factors controlling the growth of marine organisms in nature. Copyright ?? 1982 AAAS.

Marine geodesy a multipurpose approach to solve oceanic problems. [including submersible navigation under iced seas, demarcation and determination of boundaries in deep ocean, tsunamis, and ecology

NASA Technical Reports Server (NTRS)

Saxena, N.

1974-01-01

Various current and future problem areas of marine geodesy are identified. These oceanic problem areas are highly diversified and include submersible navigation under ice seas, demarcation and determination of boundaries in deep ocean, tsunamis, ecology, etc., etc. Their achieved as well as desired positional accuracy estimates, based upon publications and discussions, are also given. A multipurpose approach to solve these problems is described. An optimum configuration of an ocean-bottom control-net unit is provided.

Metabolic activity of subseafloor microbes in the South Pacific Gyre

NASA Astrophysics Data System (ADS)

Morono, Y.; Ito, M.; Terada, T.; Inagaki, F.

2013-12-01

The South Pacific Gyre (SPG) is characterized as the most oligotrophic open ocean environment. The sediment is rich in oxygen but poor in energy-sources such as reduced organic matter, and hence harbors very low numbers of microbial cells in relatively shallow subseafloor sediment (D'Hondt et al., 2009; Kallmeyer et al., 2012). In such an energy-limited sedimentary habitat, a small size of microbial community persists living functions with extraordinary low oxygen-consumption rate (Røy et al., 2012). During IODP Expedition 329, a series of sediment samples were successfully recovered from 7 drill sites (U1365-1371) from the seafloor to basement in the SPG, providing an unprecedented opportunity to study metabolic activity of the aerobic subseafloor microbial communities. We initiated incubation onboard by adding stable isotope-labeled substrates to the freshly collected sediment sample, such as 13C and/or 15N-labeled bicarbonate, glucose, amino acids, acetate, and ammonium under the (micro-) aerobic condition. One of the technological challenges in this study is to harvest microbial cells from very low-biomass sediment samples for the analysis using nano-scale secondary ion mass spectrometry (NanoSIMS). To address the technical issue, we improved existing cell separation technique for the SPG sediment samples with small inorganic zeolitic grains. By monitoring cell recovery rates through an image-based cell enumeration technique (Morono et al., 2009), we found that cell recovery rates in the SPG sediment samples are generally lower than those in other oceanographic settings (i.e., organic-rich ocean margin sediments). To gain higher cell recovery ratio, we applied multiple density gradient layers, resulting in the cell recovery ratio up to around 80-95% (Morono et al., in press). Then, using the newly developed cell separation technique, we successfully sorted enough number of microbial cells in small spots on the membrane (i.e., 103 to 105 cells per spot). NanoSIMS analysis showed incorporation of the supplemented stable isotope-labeled substrates after 1.5 year-incubation. The substrate incorporation rates of individual microbial cell ranged in average from 1/10 to 1/2 of those values previously observed in an organic-rich ocean margin sediment (Morono et al., 2011). References S. D'Hondt et al., Subseafloor sedimentary life in the South Pacific Gyre. Proc Natl Acad Sci USA 106, 11651 (2009) J. Kallmeyeret al., Global distribution of microbial abundance and biomass in subseafloor sediment. Proc Natl Acad Sci USA 109, 16213 (2012) H. Røy et al., Aerobic microbial respiration in 86-million-year-old deep-sea red clay. Science 336, 922 (2012) Y. Morono et al. Discriminative detection and enumeration of microbial life in marine subsurface sediments. ISME J 3, 503 (2009) Y. Morono et al., An Improved Cell Separation Technique for Marine Subsurface Sediments: Applications for High-throughput Analysis Using Flow Cytometry and Cell Sorting. Environ Microbiol, (2013) Y. Morono et al., Carbon and nitrogen assimilation in deep subseafloor microbial cells. Proc Natl Acad Sci USA 108, 18295 (2011)

Emergence of modern marine ecosystems.

PubMed

Hull, Pincelli M

2017-06-05

The structure and function of marine ecosystems are not fixed. Instead, major innovations - from the origin of oxygenic photosynthesis, to the evolution of reefs or of deep bioturbation, to the rise of pelagic calcifiers - have changed biogeochemical cycles and ecosystem dynamics. As a result, modern marine ecosystems are fundamentally different from those in the distant past. Copyright © 2017 Elsevier Ltd. All rights reserved.

Timing of Benthic Foraminiferal δ18O Change in Deep and Intermediate Waters of the Atlantic and Indo-Pacific for 0-45 ka

NASA Astrophysics Data System (ADS)

Stern, J.; Lisiecki, L. E.

2011-12-01

Isotopic and compositional studies of marine sediment cores provide a wealth of insight into past and present climate processes, but accurately dating these records remains problematic. Age models developed by correlation of marine isotope stages in benthic foraminiferal δ18O are limited by the degree to which similarity in the timing and character of the records can be assumed. Skinner and Shackleton (2005) demonstrated that the marine isotope stage (MIS) 2/1 boundary in benthic foraminiferal δ18O occurred ~4,000 yr later at a deep equatorial Pacific site compared to a deep North Atlantic site due to diachronous changes in deep water temperature and local hydrography during the deglaciation. To further investigate the extent of potential differences at both orbital and millennial timescales, we compare stacks of benthic foraminiferal δ18O for the intermediate Atlantic, deep Atlantic, intermediate Indo-Pacific, and deep Indo-Pacific. The four stacks were generated by averaging together 40, 153, 30, and 75 individual records, respectively. Unique age models for each of the four stacks from 0-45 ka are based on a total of >1,200 radiocarbon dates from planktonic foraminfera in a subset of the cores used for the stacks. We discuss the relative timing of major events during Termination I in the four stacks, including a prominent reversal ~13-15 ka in the intermediate Atlantic. We also compare the expression of millennial-scale climate change associated with Heinrich Event 4 in the four stacks.

High Speed Trimaran (HST) Seatrain Experiments, Model 5714

DTIC Science & Technology

2013-12-01

Marine Highway 1 Historical Seatrains 1 Objectives 2 Hull &: Model Description 4 Data Acquisition and Instrumentation 7 Carriage II - Deep ...Operational Demonstration Measurement System 10 Experimental Procedures 10 Carriage II - Deep Water Basin Test 10 Calm Water Resistance 11... Deep Water Basin Analysis 17 Calm Water Resistance 17 Longitudinal Flow Through The Propeller Plane 18 Body Forces & Moments 18

78 FR 59626 - Main Hawaiian Islands Deep 7 Bottomfish Annual Catch Limits and Accountability Measures for 2013-14

Federal Register 2010, 2011, 2012, 2013, 2014

2013-09-27

... Accountability Measures for 2013-14 AGENCY: National Marine Fisheries Service (NMFS), National Oceanic and... associated accountability measure (AM) close the non-commercial and commercial fisheries for Deep 7...

Gulf Coast Deep Water Port Facilities Study. Appendix D. Adverse Environmental Effects.

DTIC Science & Technology

1973-04-01

mds 2. Thigmotropic effect of submerged structures 3. Attachment or shelter for marine organisms 4. Gain of sheltered habitat (lee of islands) 5...marshplants Bay margin marine grass, clams, snails and blue crab Grass flats marine grass, clams, snails, black drum and t other fish Open bay with tidal...surrounding area. F. CONCLUSION The most direct and easily understood effects of dredging projects on marine biota are: I) the destruction and removal of

Technical Challenges of Drilling on Mars

NASA Technical Reports Server (NTRS)

Briggs, Geoffrey; Gross, Anthony; Condon, Estelle (Technical Monitor)

2002-01-01

In the last year, NASA's Mars science advisory committee (MEPAG: Mars Exploration Payload Advisory Group) has formally recommended that deep drilling be undertaken as a priority investigation to meet astrobiology and geology goals. This proposed new dimension in Mars exploration has come about for several reasons. Firstly, geophysical models of the martian subsurface environment indicate that we may well find liquid water (in the form of brines) under ground-ice at depths of several kilometers near the equator. On Earth we invariably find life forms associated with any environmental niche that supports liquid water. New data from the Mars Global Surveyor have shown that the most recent volcanism on Mars is very young so we cannot rule out contemporary volcanism -- in which case subsurface temperatures consistent with having water in its liquid phase may be found at relatively shallow depths. Secondly, in recent decades we have learned to our surprise that the Earth's subsurface (microbial) biosphere extends to depths of many kilometers and this discovery provides the basis for planning to explore the martian subsurface in search of ancient or even extant microbial life forms. We know (from Viking measurements) that all the biogenic elements (C, H, O, N, P, S) are available on Mars. What we therefore hope to learn is whether or not the evolution of life is inevitable given the necessary ingredients and, by implication, whether the Universe may be teeming with life. The feasibility of drilling deep into the surface of Mars has been the subject of increasing attention within NASA (and more recently among some of its international partners) for several years and this led to a broad-based feasibility study carried out by the Los Alamos National Laboratory and, subsequently, to the development of several hardware prototypes. This paper is intended to provide a general survey of that activity.

Hydrology of two slopes in subarctic Yukon, Canada

NASA Astrophysics Data System (ADS)

Carey, Sean K.; Woo, Ming-Ko

1999-11-01

Two subarctic forested slopes in central Wolf Creek basin, Yukon, were studied in 1996-1997 to determine the seasonal pattern of the hydrologic processes. A south-facing slope has a dense aspen forest on silty soils with seasonal frost only and a north-facing slope has open stands of black spruce and an organic layer on top of clay sediments with permafrost. Snowmelt is advanced by approximately one month on the south-facing slope due to greater radiation receipt. Meltwater infiltrates its seasonally frozen soil with low ice content, recharging the soil moisture reservoir but yielding no lateral surface or subsurface flow. Summer evaporation depletes this recharged moisture and any additional rainfall input, at the expense of surface or subsurface flow. The north-facing slope with an ice rich substrate hinders deep percolation. Snow meltwater is impounded within the organic layer to produce surface runoff in rills and gullies, and subsurface flow along pipes and within the matrix of the organic soil. During the summer, most subsurface flows are confined to the organic layer which has hydraulic conductivities orders of magnitudes larger than the underlying boulder-clay. Evaporation on the north-facing slope declines as both the frost table and the water table descend in the summer. A water balance of the two slopes demonstrates that vertical processes of infiltration and evaporation dominate moisture exchanges on the south-facing slope, whereas the retardation of deep drainage by frost and by clayey soil on the permafrost slope promotes a strong lateral flow component, principally within the organic layer. These results have the important implication that permafrost slopes and organic horizons are the principal controls on streamflow generation in subarctic catchments.

Asymmetric Signature of Glacial Antarctic Intermediate Water in the Central South Pacific

NASA Astrophysics Data System (ADS)

Tapia, R.; Nuernberg, D.; Ho, S. L.; Lamy, F.; Ullermann, J.; Gersonde, R.; Tiedemann, R.

2017-12-01

Southern Ocean Intermediate Waters (SOIWs) play a key role in modulating the global climate on glacial-interglacial time scales as they connect the Southern Ocean and the tropics. Despite their importance, the past evolution of the SOIWs in the central South Pacific is largely unknown due to a dearth of sedimentary archives. Here we compare Mg/Ca-temperature, stable carbon and oxygen isotope records from surface-dwelling (G. bulloides) and deep-dwelling (G. inflata) planktic foraminifera at site PS75/059-2 (54°12.9' S, 125°25.53' W; recovery 13.98 m; 3.613 m water depth), located north of the modern Subantarctic Front. Our study focuses on the temperature and salinity variability controlled by SOIWs, which were subducted at the Subantarctic Front during the Last Glacial Maximum (LGM; 29-17ka BP) and the Penultimate Glacial Maximum (PGM; 180-150ka BP). During both glacial periods conditions at the subsurface ocean were colder and fresher relative to the Holocene (<10ka) suggesting an enhanced presence of SOIWs. In spite of the comparable subsurface cooling during both glacial, the subsurface ocean during the PGM was saltier and 0.35‰ more depleted in δ13C in comparison to the LGM. Interestingly, the mean δ13C value of the PGM is comparable to the Carbon Isotope Minimum Events, which might suggests a larger contribution of "old" low δ13C deep waters to the study site during the PGM. A Latitudinal comparison of subsurface proxies suggests glacial asymmetries in the advection of SOIWs into the central Pacific, plausibly related to glacial changes in the convection depth of SOIWs at the South Antarctic Front area rather than changes in production of the SOIWs.

Computational Modeling of the Geologic Sequestration of Carbon Dioxide

EPA Science Inventory

Geologic sequestration of CO2 is a component of C capture and storage (CCS), an emerging technology for reducing CO2 emissions to the atmosphere, and involves injection of captured CO2 into deep subsurface formations. Similar to the injection of hazardous wastes, before injection...

Eukaryotic microbes, principally fungi and labyrinthulomycetes, dominate biomass on bathypelagic marine snow

PubMed Central

Bochdansky, Alexander B; Clouse, Melissa A; Herndl, Gerhard J

2017-01-01

In the bathypelagic realm of the ocean, the role of marine snow as a carbon and energy source for the deep-sea biota and as a potential hotspot of microbial diversity and activity has not received adequate attention. Here, we collected bathypelagic marine snow by gentle gravity filtration of sea water onto 30 μm filters from ~1000 to 3900 m to investigate the relative distribution of eukaryotic microbes. Compared with sediment traps that select for fast-sinking particles, this method collects particles unbiased by settling velocity. While prokaryotes numerically exceeded eukaryotes on marine snow, eukaryotic microbes belonging to two very distant branches of the eukaryote tree, the fungi and the labyrinthulomycetes, dominated overall biomass. Being tolerant to cold temperature and high hydrostatic pressure, these saprotrophic organisms have the potential to significantly contribute to the degradation of organic matter in the deep sea. Our results demonstrate that the community composition on bathypelagic marine snow differs greatly from that in the ambient water leading to wide ecological niche separation between the two environments. PMID:27648811

Map showing depth to bedrock in the Seattle 30' by 60' Quadrangle, Washington

USGS Publications Warehouse

Yount, J.C.; Dembroff, G.R.; Barats, G.M.

1985-01-01

Bedrock throughout the Seattle quadrangle is presumed to be volcanic rock, conglomerate, Sandstone, or Shale and is Tertiary in age. With the exception of a few reports of age or lithology collected from oil wells (Livingston, 1958), the subsurface information used for this map sheds little light on the nature and distribution of the various Tertiary rocks in the subsurface. It is assumed, on the basis of pronounced lithologic differences in drill holes and widespread unconformable relationships with underlying bedrock units seen in marine seismic reflection profiles, that the deposits overlying bedrock are Quaternary in age, but no direct dating of materials has been done to confirm this assumption.

Modeling of Near-Surface Leakage and Seepage of CO2 for Risk Characterization

DOE Office of Scientific and Technical Information (OSTI.GOV)

Oldenburg, Curtis M.; Unger, Andre A.J.

2004-02-18

The injection of carbon dioxide (CO2) into deep geologic carbon sequestration sites entails risk that CO2 will leak away from the primary storage formation and migrate upwards to the unsaturated zone from which it can seep out of the ground. We have developed a coupled modeling framework called T2CA for simulating CO2 leakage and seepage in the subsurface and in the atmospheric surface layer. The results of model simulations can be used to calculate the two key health, safety, and environmental (HSE) risk drivers, namely CO2 seepage flux and nearsurface CO2 concentrations. Sensitivity studies for a subsurface system with amore » thick unsaturated zone show limited leakage attenuation resulting in correspondingly large CO2 concentrations in the shallow subsurface. Large CO2 concentrations in the shallow subsurface present a risk to plant and tree roots, and to humans and other animals in subsurface structures such as basements or utility vaults. Whereas CO2 concentrations in the subsurface can be high, surfacelayer winds reduce CO2 concentrations to low levels for the fluxes investigated. We recommend more verification and case studies be carried out with T2CA, along with the development of extensions to handle additional scenarios such as calm conditions, topographic effects, and catastrophic surface-layer discharge events.« less

Foraging in the Darkness of the Southern Ocean: Influence of Bioluminescence on a Deep Diving Predator

PubMed Central

Vacquié-Garcia, Jade; Royer, François; Dragon, Anne-Cécile; Viviant, Morgane; Bailleul, Frédéric; Guinet, Christophe

2012-01-01

How non-echolocating deep diving marine predators locate their prey while foraging remains mostly unknown. Female southern elephant seals (SES) (Mirounga leonina) have vision adapted to low intensity light with a peak sensitivity at 485 nm. This matches the wavelength of bioluminescence produced by a large range of marine organisms including myctophid fish, SES’s main prey. In this study, we investigated whether bioluminescence provides an accurate estimate of prey occurrence for SES. To do so, four SES were satellite-tracked during their post-breeding foraging trip and were equipped with Time-Depth-Recorders that also recorded light levels every two seconds. A total of 3386 dives were processed through a light-treatment model that detected light events higher than ambient level, i.e. bioluminescence events. The number of bioluminescence events was related to an index of foraging intensity for SES dives deep enough to avoid the influence of natural ambient light. The occurrence of bioluminescence was found to be negatively related to depth both at night and day. Foraging intensity was also positively related to bioluminescence both during day and night. This result suggests that bioluminescence likely provides SES with valuable indications of prey occurrence and might be a key element in predator-prey interactions in deep-dark marine environments. PMID:22952706

Rapid Response of Eastern Mediterranean Deep Sea Microbial Communities to Oil

DOE Office of Scientific and Technical Information (OSTI.GOV)

Liu, Jiang; Techtmann, Stephen M.; Woo, Hannah L.

Deep marine oil spills like the Deepwater Horizon (DWH) in the Gulf of Mexico have the potential to drastically impact marine systems. Crude oil contamination in marine systems remains a concern, especially for countries around the Mediterranean Sea with off shore oil production. The goal of this study was to investigate the response of indigenous microbial communities to crude oil in the deep Eastern Mediterranean Sea (E. Med.) water column and to minimize potential bias associated with storage and shifts in microbial community structure from sample storage. 16S rRNA amplicon sequencing was combined with GeoChip metagenomic analysis to monitor themore » microbial community changes to the crude oil and dispersant in on-ship microcosms set up immediately after water collection. After 3 days of incubation at 14 °C, the microbial communities from two different water depths: 824 m and 1210 m became dominated by well-known oil degrading bacteria. The archaeal population and the overall microbial community diversity drastically decreased. Similarly, GeoChip metagenomic analysis revealed a tremendous enrichment of genes related to oil biodegradation, which was consistent with the results from the DWH oil spill. These results highlight a rapid microbial adaption to oil contamination in the deep E. Med., and indicate strong oil biodegradation potentia« less

76 FR 27308 - Taking and Importing Marine Mammals; Taking Marine Mammals Incidental to Space Vehicle and...

Federal Register 2010, 2011, 2012, 2013, 2014

2011-05-11

... created by ascending rockets launched from the KLC reach the Earth's surface over deep ocean, well past... flushing in response to the rocket noise, or the mother/pup bond could be permanently broken. However, NMFS...

Emerging conservation challenges and prospects in an era of offshore hydrocarbon exploration and exploitation.

PubMed

Kark, Salit; Brokovich, Eran; Mazor, Tessa; Levin, Noam

2015-12-01

Globally, extensive marine areas important for biodiversity conservation and ecosystem functioning are undergoing exploration and extraction of oil and natural gas resources. Such operations are expanding to previously inaccessible deep waters and other frontier regions, while conservation-related legislation and planning is often lacking. Conservation challenges arising from offshore hydrocarbon development are wide-ranging. These challenges include threats to ecosystems and marine species from oil spills, negative impacts on native biodiversity from invasive species colonizing drilling infrastructure, and increased political conflicts that can delay conservation actions. With mounting offshore operations, conservationists need to urgently consider some possible opportunities that could be leveraged for conservation. Leveraging options, as part of multi-billion dollar marine hydrocarbon operations, include the use of facilities and costly equipment of the deep and ultra-deep hydrocarbon industry for deep-sea conservation research and monitoring and establishing new conservation research, practice, and monitoring funds and environmental offsetting schemes. The conservation community, including conservation scientists, should become more involved in the earliest planning and exploration phases and remain involved throughout the operations so as to influence decision making and promote continuous monitoring of biodiversity and ecosystems. A prompt response by conservation professionals to offshore oil and gas developments can mitigate impacts of future decisions and actions of the industry and governments. New environmental decision support tools can be used to explicitly incorporate the impacts of hydrocarbon operations on biodiversity into marine spatial and conservation plans and thus allow for optimum trade-offs among multiple objectives, costs, and risks. © 2015 Society for Conservation Biology.

Subsurface Ocean Tides in Enceladus and Other Icy Moons

NASA Astrophysics Data System (ADS)

Beuthe, M.

2016-12-01

Could tidal dissipation within Enceladus' subsurface ocean account for the observed heat flow? Earthlike models of dynamical tides give no definitive answer because they neglect the influence of the crust. I propose here the first model of dissipative tides in a subsurface ocean, by combining the Laplace Tidal Equations with the membrane approach. For the first time, it is possible to compute tidal dissipation rates within the crust, ocean, and mantle in one go. I show that oceanic dissipation is strongly reduced by the crustal constraint, and thus contributes little to Enceladus' present heat budget. Tidal resonances could have played a role in a forming or freezing ocean less than 100 meters deep. The model is general: it applies to all icy satellites with a thin crust and a shallow or stratified ocean. Scaling rules relate the resonances and dissipation rate of a subsurface ocean to the ones of a surface ocean. If the ocean has low viscosity, the westward obliquity tide does not move the crust. Therefore, crustal dissipation due to dynamical obliquity tides can differ from the static prediction by up to a factor of two.

Marine heatwaves off eastern Tasmania: Trends, interannual variability, and predictability

NASA Astrophysics Data System (ADS)

Oliver, Eric C. J.; Lago, Véronique; Hobday, Alistair J.; Holbrook, Neil J.; Ling, Scott D.; Mundy, Craig N.

2018-02-01

Surface waters off eastern Tasmania are a global warming hotspot. Here, mean temperatures have been rising over several decades at nearly four times the global average rate, with concomitant changes in extreme temperatures - marine heatwaves. These changes have recently caused the marine biodiversity, fisheries and aquaculture industries off Tasmania's east coast to come under stress. In this study we quantify the long-term trends, variability and predictability of marine heatwaves off eastern Tasmania. We use a high-resolution ocean model for Tasmania's eastern continental shelf. The ocean state over the 1993-2015 period is hindcast, providing daily estimates of the three-dimensional temperature and circulation fields. Marine heatwaves are identified at the surface and subsurface from ocean temperature time series using a consistent definition. Trends in marine heatwave frequency are positive nearly everywhere and annual marine heatwave days and penetration depths indicate significant positive changes, particularly off southeastern Tasmania. A decomposition into modes of variability indicates that the East Australian Current is the dominant driver of marine heatwaves across the domain. Self-organising maps are used to identify 12 marine heatwave types, each with its own regionality, seasonality, and associated large-scale oceanic and atmospheric circulation patterns. The implications of this work for marine ecosystems and their management were revealed through review of past impacts and stakeholder discussions regarding use of these data.

Geological Sequestration of CO2 A Brief Overview and Potential for Application for Oklahoma

EPA Science Inventory

Geologic sequestration of CO2 is a component of C capture and storage (CCS), an emerging technology for reducing CO2 emissions to the atmosphere, and involves injection of captured CO2 into deep subsurface formations. Similar to the injection of hazardous wastes, before injection...

HYDROGEOLOGIC FOUNDATIONS IN SUPPORT OF ECOSYSTEM RESTORATION: BASE-FLOW LOADINGS OF NITRATE IN MID-ATLANTIC AGRICULTURAL WATERSHEDS

EPA Science Inventory

Field evidence suggests that deep denitrification in the subsurface has the potential for
removal of nitrate from ground water. Two adjacent agricultural watersheds in the mid-
Atlantic coastal plain display remarkable differences in their ground-water nitrate discharges.

A first insight into the occurrence and expression of functional amoA and accA genes of autotrophic and ammonia-oxidizing bathypelagic Crenarchaeota of Tyrrhenian Sea

NASA Astrophysics Data System (ADS)

Yakimov, Michail M.; Cono, Violetta La; Denaro, Renata

2009-05-01

The autotrophic and ammonia-oxidizing crenarchaeal assemblage at offshore site located in the deep Mediterranean (Tyrrhenian Sea, depth 3000 m) water was studied by PCR amplification of the key functional genes involved in energy (ammonia mono-oxygenase alpha subunit, amoA) and central metabolism (acetyl-CoA carboxylase alpha subunit, accA). Using two recently annotated genomes of marine crenarchaeons, an initial set of primers targeting archaeal accA-like genes was designed. Approximately 300 clones were analyzed, of which 100% of amoA library and almost 70% of accA library were unambiguously related to the corresponding genes from marine Crenarchaeota. Even though the acetyl-CoA carboxylase is phylogenetically not well conserved and the remaining clones were affiliated to various bacterial acetyl-CoA/propionyl-CoA carboxylase genes, the pool of archaeal sequences was applied for development of quantitative PCR analysis of accA-like distribution using TaqMan ® methodolgy. The archaeal accA gene fragments, together with alignable gene fragments from the Sargasso Sea and North Pacific Subtropical Gyre (ALOHA Station) metagenome databases, were analyzed by multiple sequence alignment. Two accA-like sequences, found in ALOHA Station at the depth of 4000 m, formed a deeply branched clade with 64% of all archaeal Tyrrhenian clones. No close relatives for residual 36% of clones, except of those recovered from Eastern Mediterranean, was found, suggesting the existence of a specific lineage of the crenarchaeal accA genes in deep Mediterranean water. Alignment of Mediterranean amoA sequences defined four cosmopolitan phylotypes of Crenarchaeota putative ammonia mono-oxygenase subunit A gene occurring in the water sample from the 3000 m depth. Without exception all phylotypes fell into Deep Marine Group I cluster that contain the vast majority of known sequences recovered from global deep-sea environment. Remarkably, three phylotypes accounted for 91% of all Mediterranean amoA clones and corresponded to the sequences retrieved from the less deep compartments of the world's ocean, most likely reflecting the higher temperature at the depth of the Mediterranean Sea. In order to verify whether these phylotypes might represent important Crenarchaeota in the functioning of the Mediterranean bathypelagic ecosystem, expression of crenarchaeal amoA gene was monitored by direct RNA retrieval and following analysis of amoA-related mRNA transcripts. Surprisingly, all mRNA-derived sequences formed a tight monophyletic group, which fell into large Shallow Marine Group I cluster with sequences retrieved from shallow (up to 200 m) waters, sediments and corals. This group was not detected in DNA-based clone library, obviously, due to an overwhelming dominance of the Deep Marine Group I. The failure to recover the amoA transcripts, related to Deep Marine Group I of Crenarchaeota, was unanticipated and likely resulted from the physiology of these strongly adapted deep-sea organisms. As far as all seawater samples were treated on-board under atmospheric pressure conditions and sunlight, the decompression and/or photoinhibition likely affected their metabolic activity, followed by the strong decay of gene expression.

Localized Rapid Warming of West Antarctic Subsurface Waters by Remote Winds

NASA Astrophysics Data System (ADS)

Griffies, S. M.; Spence, P.; Holmes, R.; Hogg, A. M.; Stewart, K. D.; England, M. H.

2017-12-01

The largest rates of Antarctic glacial ice mass loss are occurring tothe west of the Antarctica Peninsula in regions where warming ofsubsurface continental shelf waters is also largest. However, thephysical mechanisms responsible for this warming remain unknown. Herewe show how localized changes in coastal winds off East Antarctica canproduce significant subsurface temperature anomalies (>2C) around theentire continent. We demonstrate how coastal-trapped Kelvin wavescommunicate the wind disturbance around the Antarctic coastline. Thewarming is focused on the western flank of the Antarctic Peninsulabecause the anomalous circulation induced by the coastal-trapped wavesis intensified by the steep continental slope there, and because ofthe presence of pre-existing warm subsurface water. Thecoastal-trapped waves leads to an adjustment of the flow that shoalsisotherms and brings warm deep water upwards onto the continentalshelf and closer to the coast. This result demonstrates the uniquevulnerability of the West Antarctic region to a changing climate.

A design study for a medium-scale field demonstration of the viscous barrier technology

DOE Office of Scientific and Technical Information (OSTI.GOV)

Moridis, G.; Yen, P.; Persoff, P.

1996-09-01

This report is the design study for a medium-scale field demonstration of Lawrence Berkeley National Laboratory`s new subsurface containment technology for waste isolation using a new generation of barrier liquids. The test site is located in central California in a quarry owned by the Los Banos Gravel Company in Los Banos, California, in heterogeneous unsaturated deposits of sand, silt, and -ravel typical of many of the and DOE cleanup sites and particularly analogous to the Hanford site. The coals of the field demonstration are (a) to demonstrate the ability to create a continuous subsurface barrier isolating a medium-scale volume (30more » ft long by 30 ft wide by 20 ft deep, i.e. 1/10th to 1/8th the size of a buried tank at the Hanford Reservation) in the subsurface, and (b) to demonstrate the continuity, performance, and integrity of the barrier.« less

A High-Resolution Multitechniques Approach to Characterize Bio-Organo-Mineral Associations Within Rock Samples: Tracking Biological vs Abiotic Processes? Towards a Better Understanding of the Deep Carbon Cycle.

NASA Astrophysics Data System (ADS)

Pisapia, C.

2015-12-01

Among all elements, carbon plays one of the major roles for the sustainability of life on Earth. Past considerations of the carbon cycle have mainly focused on surface processes occurring at the atmosphere, oceans and shallow crustal environments. By contrast, little is known about the Deep Carbon cycle whereas both geochemical and biological processes may induce organic carbon production and/or consumption at depth. Indeed, the nowadays-recognized capability of geochemical processes such as serpentinization to generate abiotic organic compounds as well as the existence of a potentially important intraterrestrial life raises questions about the limit of biotic/abiotic carbon on Earth's deep interior and how it impacts global biogeochemical cycles. It is then mandatory to increase our knowledge on the nature and extent of carbon reservoirs along with their sources, sinks and fluxes in the subsurface. This implies to be able to finely characterize organomineral associations within crustal rocks although it might be hampered by the scarceness and heterogeneous micrometric spatial distribution of organic molecules in natural rocks. We then developed an in situ analytical strategy based on the combination of high-resolution techniques to track organic molecules at the pore level in natural rocks and to determine their biological or abiotic origin. We associated classical high-resolution techniques and synchrotron-based imaging techniques in order to characterize their nature and localization (SEM/TEM, coupled CLSM/Raman spectroscopy, Tof-SIMS) along with their 3D-distribution relatively to mineral phases (S-FTIR, S-DeepUV, XANES, Biphoton microscopy). The effectiveness of this approach to shed light on the speciation and nature of carbon in subsurface environments will be illustrated through the study of (i) subsurface ecosystems and abiotic organic carbon within ultramafic rocks of the oceanic lithosphere as putative analogs for the nature and functioning of primitive ecosystems on Earth and of (ii) ecosystems inhabiting Archean craton and potentially playing a role in punk-rock karstification processes and rocks weathering.

The Economic Value of Coastal Ecosystems in California

EPA Science Inventory

The status of marine ecosystems affects the well being of human societies. These ecosystems include but are not limited to estuaries, lagoons, reefs, and systems further offshore such as deep ocean vents. The coastal regions that connect terrestrial and marine ecosystems are of p...

Blooms and subsurface phytoplankton layers on the Scotian Shelf: Insights from profiling gliders

NASA Astrophysics Data System (ADS)

Ross, Tetjana; Craig, Susanne E.; Comeau, Adam; Davis, Richard; Dever, Mathieu; Beck, Matthew

2017-08-01

Understanding how phytoplankton respond to their physical environment is key to predicting how bloom dynamics might change under future climate change scenarios. Phytoplankton are at the base of most marine food webs and play an important role in drawing CO2 out of the atmosphere. Using nearly 5 years of simultaneous CTD, irradiance, chlorophyll a fluorescence and optical backscattering observations obtained from Slocum glider missions, we observed the subsurface phytoplankton populations across the Scotian Shelf, near Halifax (Nova Scotia, Canada) along with their physical environment. Bloom conditions were observed in each of the 5 springs, with the average chlorophyll in the upper 60 m of water generally exceeding 3 mg m- 3. These blooms occurred when the upper water column stratification was at its lowest, in apparent contradiction of the critical depth hypothesis. A subsurface chlorophyll layer was observed each summer at about 30 m depth, which was below the base of the mixed layer. This subsurface layer lasted 3-4 months and contained, on average, 1/4 of the integrated water column chlorophyll found during the spring bloom. This suggests that a significant portion of the primary productivity over the Scotian Shelf occurs at depths that cannot be observed by satellites-highlighting the importance of including subsurface observations in the monitoring of future changes to primary productivity in the ocean.

Review of potential subsurface permeable barrier emplacement and monitoring technologies

DOE Office of Scientific and Technical Information (OSTI.GOV)

Riggsbee, W.H.; Treat, R.L.; Stansfield, H.J.

1994-02-01

This report focuses on subsurface permeable barrier technologies potentially applicable to existing waste disposal sites. This report describes candidate subsurface permeable barriers, methods for emplacing these barriers, and methods used to monitor the barrier performance. Two types of subsurface barrier systems are described: those that apply to contamination.in the unsaturated zone, and those that apply to groundwater and to mobile contamination near the groundwater table. These barriers may be emplaced either horizontally or vertically depending on waste and site characteristics. Materials for creating permeable subsurface barriers are emplaced using one of three basic methods: injection, in situ mechanical mixing, ormore » excavation-insertion. Injection is the emplacement of dissolved reagents or colloidal suspensions into the soil at elevated pressures. In situ mechanical mixing is the physical blending of the soil and the barrier material underground. Excavation-insertion is the removal of a soil volume and adding barrier materials to the space created. Major vertical barrier emplacement technologies include trenching-backfilling; slurry trenching; and vertical drilling and injection, including boring (earth augering), cable tool drilling, rotary drilling, sonic drilling, jetting methods, injection-mixing in drilled holes, and deep soil mixing. Major horizontal barrier emplacement technologies include horizontal drilling, microtunneling, compaction boring, horizontal emplacement, longwall mining, hydraulic fracturing, and jetting methods.« less

Raman spectroscopy method for subsurface detection of food powders through plastic layers

NASA Astrophysics Data System (ADS)

Dhakal, Sagar; Chao, Kuanglin; Qin, Jianwei; Schmidt, Walter F.; Kim, Moon S.; Chan, Diane E.; Bae, Abigail

2017-05-01

Proper chemical analyses of materials in sealed containers are important for quality control purpose. Although it is feasible to detect chemicals at top surface layer, it is relatively challenging to detect objects beneath obscuring surface. This study used spatially offset Raman spectroscopy (SORS) method to detect urea, ibuprofen and acetaminophen powders contained within one or more (up to eight) layers of gelatin capsules to demonstrate subsurface chemical detection and identification. A 785 nm point-scan Raman spectroscopy system was used to acquire spatially offset Raman spectra for an offset range of 0 to 10 mm from the surfaces of 24 encapsulated samples, using a step size of 0.1 mm to obtain 101 spectral measurements per sample. With increasing offset distance, the fraction of information from the deeper subsurface material increased compared to that from the top surface material. The series of measurements was analyzed to differentiate and identify the top surface and subsurface materials. Containing mixed contributions from the powder and capsule, the SORS of each sample was decomposed using self modeling mixture analysis (SMA) to obtain pure component spectra of each component and corresponding components were identified using spectral information divergence values. Results show that SORS technique together with SMA method has a potential for non-invasive detection of chemicals at deep subsurface layer.

Understanding mechanism of sea cucumber Apostichopus japonicus aestivation: Insights from TMT-based proteomic study.

PubMed

Chen, Muyan; Li, Xingke; Zhu, Aijun; Storey, Kenneth B; Sun, Lina; Gao, Tianxiang; Wang, Tianming

2016-09-01

Marine invertebrate aestivation is a unique strategy for summer survival in response to hot marine conditions. The sea cucumber, Apostichopus japonicus, is an excellent model marine invertebrate for studies of environmentally-induced aestivation. In the present study, we used a tandem mass tag (TMT)-coupled LC-MS/MS approach to identify and quantify the global proteome expression profile over the aestivation-arousal cycle of A. japonicus. A total of 3920 proteins were identified from the intestine of sea cucumber. Among them, 630 proteins showed significant differential expression when comparing three conditions of sea cucumbers: non-aestivating (active), deep-aestivation (at least 15days of continuous aestivation), and arousal after aestivation (renewed moving and feeding). Sea cucumbers in deep aestivation showed substantial differentially expressed proteins (143 up-regulated and 267 down-regulated proteins compared with non-aestivating controls). These differentially expressed proteins suggested that protein and phospholipid probably are major fuel sources during hypometabolism and a general attenuation of carbohydrate metabolism was observed during deep aestivation. Differentially expressed proteins also provided the first global picture of a shift in protein synthesis, protein folding, DNA binding, apoptosis, cellular transport and signaling, and cytoskeletal proteins during deep aestivation in sea cucumbers. A comparison of arousal from aestivation with deep aestivation, revealed a general reversal of the changes that occurred in aestivation for most proteins. Western blot detection further validated the significant up-regulation of HSP70 and down-regulation of methyltransferase-like protein 7A-like in deep-aestivation. Our results suggest that there is substantial post-transcriptional regulation of proteins during the aestivation-arousal cycle in sea cucumbers. Copyright © 2016 Elsevier Inc. All rights reserved.

Impact of CO 2 on the Evolution of Microbial Communities Exposed to Carbon Storage Conditions, Enhanced Oil Recovery, and CO 2 Leakage

DOE Office of Scientific and Technical Information (OSTI.GOV)

Gulliver, Djuna; Gregory, Kelvin B.; Lowry, Gregorgy V.

Geologic carbon storage (GCS) is a crucial part of a proposed mitigation strategy to reduce the anthropogenic carbon dioxide (CO 2) emissions to the atmosphere. During this process, CO 2 is injected as super critical carbon dioxide (SC-CO 2) in confined deep subsurface storage units, such as saline aquifers and depleted oil reservoirs. The deposition of vast amounts of CO 2 in subsurface geologic formations could unintentionally lead to CO 2 leakage into overlying freshwater aquifers. Introduction of CO 2 into these subsurface environments will greatly increase the CO 22 concentration and will create CO 2 concentration gradients that drivemore » changes in the microbial communities present. While it is expected that altered microbial communities will impact the biogeochemistry of the subsurface, there is no information available on how CO 2 gradients will impact these communities. The overarching goal of this project is to understand how CO 2 exposure will impact subsurface microbial communities at temperatures and pressures that are relevant to GCS and CO 2 leakage scenarios. To meet this goal, unfiltered, aqueous samples from a deep saline aquifer, a depleted oil reservoir, and a fresh water aquifer were exposed to varied concentrations of CO 2 at reservoir pressure and temperature. The microbial ecology of the samples was examined using molecular, DNA-based techniques. The results from these studies were also compared across the sites to determine any existing trends. Results reveal that increasing CO 2 leads to decreased DNA concentrations regardless of the site, suggesting that microbial processes will be significantly hindered or absent nearest the CO 2 injection/leakage plume where CO 2 concentrations are highest. At CO 2 exposures expected downgradient from the CO 2 plume, selected microorganisms emerged as dominant in the CO 2 exposed conditions. Results suggest that the altered microbial community was site specific and highly dependent on pH. The site-dependent results suggest a limited ability to predict the emerging dominant species for other CO 2 exposed environments. This study improves the understanding of how a subsurface microbial community may respond to conditions expected from GCS and CO 2 leakage. This is the first step for understanding how a CO 2-altered microbial community may impact injectivity, permanence of stored CO 2, and subsurface water quality. Future work with microbial communities from new subsurface sites would increase the current understanding of this project. Additionally, incorporation of metagenomic methods would increase understanding of potential microbial processes that may be prevalent in CO 2 exposed environments.« less

Impact of CO 2 on the Evolution of Microbial Communities Exposed to Carbon Storage Conditions, Enhanced Oil Recovery, and CO 2 Leakage

DOE Office of Scientific and Technical Information (OSTI.GOV)

Gulliver, Djuna M.; Gregory, Kelvin B.; Lowry, Gregory V.

Geologic carbon storage (GCS) is a crucial part of a proposed mitigation strategy to reduce the anthropogenic carbon dioxide (CO 2) emissions to the atmosphere. During this process, CO 2 is injected as super critical carbon dioxide (SC-CO 2) in confined deep subsurface storage units, such as saline aquifers and depleted oil reservoirs. The deposition of vast amounts of CO 2 in subsurface geologic formations could unintentionally lead to CO 2 leakage into overlying freshwater aquifers. Introduction of CO 2 into these subsurface environments will greatly increase the CO 2 concentration and will create CO 2 concentration gradients that drivemore » changes in the microbial communities present. While it is expected that altered microbial communities will impact the biogeochemistry of the subsurface, there is no information available on how CO 2 gradients will impact these communities. The overarching goal of this project is to understand how CO 2 exposure will impact subsurface microbial communities at temperatures and pressures that are relevant to GCS and CO 2 leakage scenarios. To meet this goal, unfiltered, aqueous samples from a deep saline aquifer, a depleted oil reservoir, and a fresh water aquifer were exposed to varied concentrations of CO 2 at reservoir pressure and temperature. The microbial ecology of the samples was examined using molecular, DNA-based techniques. The results from these studies were also compared across the sites to determine any existing trends. Results reveal that increasing CO 2 leads to decreased DNA concentrations regardless of the site, suggesting that microbial processes will be significantly hindered or absent nearest the CO 2 injection/leakage plume where CO 2 concentrations are highest. At CO 2 exposures expected downgradient from the CO 2 plume, selected microorganisms emerged as dominant in the CO 2 exposed conditions. Results suggest that the altered microbial community was site specific and highly dependent on pH. The site-dependent results suggest a limited ability to predict the emerging dominant species for other CO 2-exposed environments. This study improves the understanding of how a subsurface microbial community may respond to conditions expected from GCS and CO 2 leakage. This is the first step for understanding how a CO 2-altered microbial community may impact injectivity, permanence of stored CO 2, and subsurface water quality. Future work with microbial communities from new subsurface sites would increase the current understanding of this project. Additionally, incorporation of metagenomic methods would increase understanding of potential microbial processes that may be prevalent in CO 2 exposed environments.« less

Factors Effecting the Fate and Transport of CL-20 in the Vadose Zone and Groundwater: Final Report 2002 - 2004 SERDP Project CP-1255

DOE Office of Scientific and Technical Information (OSTI.GOV)

Szecsody, James E.; Riley, Robert G.; Devary, Brooks J.

2005-06-01

This SERDP-funded project was initiated to investigate the fate of CL-20 in the subsurface environment, with a focus on identification and quantification of geochemical and microbial reactions of CL-20. CL-20 can be released to the surface and subsurface terrestrial environment by: a) manufacturing processes, b) munition storage, and c) use with low order detonation or unexploded ordnance. The risk of far-field subsurface migration was assessed through labora-tory experiments with a variety of sediments and subsurface materials to quantify processes that control CL-20 sorption-limited migration and degradation. Results of this study show that CL-20 will exhibit differing behavior in the subsurfacemore » terrestrial environment: 1. CL-20 on the sediment surface will photodegrade and interact with plants/animals (described in other SERDP projects CU 1254, 1256). CL-20 will exhibit greater sorption in humid sediments to organic matter. Transport will be solubility limited (i.e., low CL-20 aqueous solubility). 2. CL-20 infiltration into soils (<2 m) from spills will be subject to sorption to soil organic matter (if present), and low to high biodegradation rates (weeks to years) depending on the microbial population (greater in humid environment). 3. CL-20 in the vadose zone (>2 m) will be, in most cases, subject to low sorption and low degradation rates, so would persist in the subsurface environment and be at risk for deep migration. Low water content in arid regions will result in a decrease in both sorption and the degradation rate. Measured degradation rates in unsaturated sediments of years would result in significant subsurface migration distances. 4. CL-20 in groundwater will be subject to some sorption but likely very slow degradation rates. CL-20 sorption will be greater than RDX. Most CL-20 degradation will be abiotic (ferrous iron and other transition metals), because most deep subsurface systems have extremely low natural microbial populations. Degradation rates will range from weeks (iron reducing systems) to years. Although CL-20 will move rapidly through most sediments in the terrestrial environment, subsurface remediation can be utilized for cleanup. Transformation of CL-20 to intermediates can be rapidly accomplished under: a) reducing conditions (CL-20 4.1 min. half-life, RDX 18 min. half-life), b) alkaline (pH >10) conditions, and c) bioremediation with added nutrients. CL-20 degradation to intermediates may be insufficient to mitigate environmental impact, as the toxicity of many of these compounds is unknown. Biostimulation in oxic to reducing systems by carbon and nutrient addition can mineralize CL-20, with the most rapid rates occurring under reducing conditions.« less

Methane-Oxidizing Bacteria Shunt Carbon to Microbial Mats at a Marine Hydrocarbon Seep

DOE Office of Scientific and Technical Information (OSTI.GOV)

Paul, Blair G.; Ding, Haibing; Bagby, Sarah C.

The marine subsurface is a reservoir of the greenhouse gas methane. While microorganisms living in water column and seafloor ecosystems are known to be a major sink limiting net methane transport from the marine subsurface to the atmosphere, few studies have assessed the flow of methane-derived carbon through the benthic mat communities that line the seafloor on the continental shelf where methane is emitted. We analyzed the abundance and isotope composition of fatty acids in microbial mats grown in the shallow Coal Oil Point seep field off Santa Barbara, CA, USA, where seep gas is a mixture of methane andmore » CO 2. We further used stable isotope probing (SIP) to track methane incorporation into mat biomass. We found evidence that multiple allochthonous substrates supported the rich growth of these mats, with notable contributions from bacterial methanotrophs and sulfur-oxidizers as well as eukaryotic phototrophs. Fatty acids characteristic of methanotrophs were shown to be abundant and 13C-enriched in SIP samples, and DNA-SIP identified members of the methanotrophic family Methylococcaceae as major 13CH 4 consumers. Members of Sulfuricurvaceae, Sulfurospirillaceae, and Sulfurovumaceae are implicated in fixation of seep CO 2. The mats’ autotrophs support a diverse assemblage of co-occurring bacteria and protozoa, with Methylophaga as key consumers of methane-derived organic matter. This study identifies the taxa contributing to the flow of seep-derived carbon through microbial mat biomass, revealing the bacterial and eukaryotic diversity of these remarkable ecosystems.« less

Methane-Oxidizing Bacteria Shunt Carbon to Microbial Mats at a Marine Hydrocarbon Seep

DOE PAGES

Paul, Blair G.; Ding, Haibing; Bagby, Sarah C.; ...

2017-02-27

The marine subsurface is a reservoir of the greenhouse gas methane. While microorganisms living in water column and seafloor ecosystems are known to be a major sink limiting net methane transport from the marine subsurface to the atmosphere, few studies have assessed the flow of methane-derived carbon through the benthic mat communities that line the seafloor on the continental shelf where methane is emitted. We analyzed the abundance and isotope composition of fatty acids in microbial mats grown in the shallow Coal Oil Point seep field off Santa Barbara, CA, USA, where seep gas is a mixture of methane andmore » CO 2. We further used stable isotope probing (SIP) to track methane incorporation into mat biomass. We found evidence that multiple allochthonous substrates supported the rich growth of these mats, with notable contributions from bacterial methanotrophs and sulfur-oxidizers as well as eukaryotic phototrophs. Fatty acids characteristic of methanotrophs were shown to be abundant and 13C-enriched in SIP samples, and DNA-SIP identified members of the methanotrophic family Methylococcaceae as major 13CH 4 consumers. Members of Sulfuricurvaceae, Sulfurospirillaceae, and Sulfurovumaceae are implicated in fixation of seep CO 2. The mats’ autotrophs support a diverse assemblage of co-occurring bacteria and protozoa, with Methylophaga as key consumers of methane-derived organic matter. This study identifies the taxa contributing to the flow of seep-derived carbon through microbial mat biomass, revealing the bacterial and eukaryotic diversity of these remarkable ecosystems.« less

Methane-Oxidizing Bacteria Shunt Carbon to Microbial Mats at a Marine Hydrocarbon Seep

PubMed Central

Paul, Blair G.; Ding, Haibing; Bagby, Sarah C.; Kellermann, Matthias Y.; Redmond, Molly C.; Andersen, Gary L.; Valentine, David L.

2017-01-01

The marine subsurface is a reservoir of the greenhouse gas methane. While microorganisms living in water column and seafloor ecosystems are known to be a major sink limiting net methane transport from the marine subsurface to the atmosphere, few studies have assessed the flow of methane-derived carbon through the benthic mat communities that line the seafloor on the continental shelf where methane is emitted. We analyzed the abundance and isotope composition of fatty acids in microbial mats grown in the shallow Coal Oil Point seep field off Santa Barbara, CA, USA, where seep gas is a mixture of methane and CO2. We further used stable isotope probing (SIP) to track methane incorporation into mat biomass. We found evidence that multiple allochthonous substrates supported the rich growth of these mats, with notable contributions from bacterial methanotrophs and sulfur-oxidizers as well as eukaryotic phototrophs. Fatty acids characteristic of methanotrophs were shown to be abundant and 13C-enriched in SIP samples, and DNA-SIP identified members of the methanotrophic family Methylococcaceae as major 13CH4 consumers. Members of Sulfuricurvaceae, Sulfurospirillaceae, and Sulfurovumaceae are implicated in fixation of seep CO2. The mats’ autotrophs support a diverse assemblage of co-occurring bacteria and protozoa, with Methylophaga as key consumers of methane-derived organic matter. This study identifies the taxa contributing to the flow of seep-derived carbon through microbial mat biomass, revealing the bacterial and eukaryotic diversity of these remarkable ecosystems. PMID:28289403

Measuring Habitat Quality for Deep-Sea Corals and Sponges to Add Conservation Value to Telepresence-Enabled Science and Technology

NASA Astrophysics Data System (ADS)

Etnoyer, P. J.; Hourigan, T. F.; Reser, B.; Monaco, M.

2016-02-01

The growing fleet of telepresence-enabled research vessels equipped with deep-sea imaging technology provides a new opportunity to catalyze and coordinate research efforts among ships. This development is particularly useful for studying the distribution and diversity of deep-sea corals, which occur worldwide from 50 to 8600 m depth. Marine managers around the world seek to conserve these habitats, but require a clear consensus on what types of information are most important and most relevant for marine conservation. The National Oceanic and Atmospheric Administration (NOAA) seeks to develop a reproducible, non-invasive set of ROV methods designed to measure conservation value, or habitat quality, for deep-sea corals and sponges. New tools and methods will be proposed to inform ocean resource management, as well as facilitate research, outreach, and education. A new database schema will be presented, building upon the Ocean Biogeographic Information System (OBIS) and efforts of submersible and ROV teams over the years. Visual information about corals and sponges has proven paramount, particularly high-quality images with standard attributes for marine geology and marine biology, including scientific names, colony size, health, abundance, and density. Improved habitat suitability models can be developed from these data if presence and absence are measured. Recent efforts to incorporate physical sampling into telepresence protocols further increase the value of such information. It is possible for systematic observations with small file sizes to be distributed as geo-referenced, time-stamped still images with environmental variables for water chemistry and a standardized habitat classification. The technique is common among researchers, but a distributed network for this information is still in its infancy. One goal of this presentation is to make progress towards a more integrated network of these measured observations of habitat quality to better facilitate research, education, and conservation of deep-sea corals.

First quantification of subtidal community structure at Tristan da Cunha Islands in the remote South Atlantic: from kelp forests to the deep sea

PubMed Central

Hamilton, Scott L.; Davis, Kathryn; Thompson, Christopher D. H.; Turchik, Alan; Jenkinson, Ryan; Simpson, Doug; Sala, Enric

2018-01-01

Tristan da Cunha Islands, an archipelago of four rocky volcanic islands situated in the South Atlantic Ocean and part of the United Kingdom Overseas Territories (UKOTs), present a rare example of a relatively unimpacted temperate marine ecosystem. We conducted the first quantitative surveys of nearshore kelp forests, offshore pelagic waters and deep sea habitats. Kelp forests had very low biodiversity and species richness, but high biomass and abundance of those species present. Spatial variation in assemblage structure for both nearshore fish and invertebrates/algae was greatest between the three northern islands and the southern island of Gough, where sea temperatures were on average 3-4o colder. Despite a lobster fishery that provides the bulk of the income to the Tristan islands, lobster abundance and biomass are comparable to or greater than many Marine Protected Areas in other parts of the world. Pelagic camera surveys documented a rich biodiversity offshore, including large numbers of juvenile blue sharks, Prionace glauca. Species richness and abundance in the deep sea is positively related to hard rocky substrate and biogenic habitats such as sea pens, crinoids, whip corals, and gorgonians were present at 40% of the deep camera deployments. We observed distinct differences in the deep fish community above and below ~750 m depth. Concurrent oceanographic sampling showed a discontinuity in temperature and salinity at this depth. While currently healthy, Tristan’s marine ecosystem is not without potential threats: shipping traffic leading to wrecks and species introductions, pressure to increase fishing effort beyond sustainable levels and the impacts of climate change all could potentially increase in the coming years. The United Kingdom has committed to protection of marine environments across the UKOTs, including Tristan da Cunha and these results can be used to inform future management decisions as well as provide a baseline against which future monitoring can be based. PMID:29596484

First quantification of subtidal community structure at Tristan da Cunha Islands in the remote South Atlantic: from kelp forests to the deep sea.

PubMed

Caselle, Jennifer E; Hamilton, Scott L; Davis, Kathryn; Thompson, Christopher D H; Turchik, Alan; Jenkinson, Ryan; Simpson, Doug; Sala, Enric

2018-01-01

Tristan da Cunha Islands, an archipelago of four rocky volcanic islands situated in the South Atlantic Ocean and part of the United Kingdom Overseas Territories (UKOTs), present a rare example of a relatively unimpacted temperate marine ecosystem. We conducted the first quantitative surveys of nearshore kelp forests, offshore pelagic waters and deep sea habitats. Kelp forests had very low biodiversity and species richness, but high biomass and abundance of those species present. Spatial variation in assemblage structure for both nearshore fish and invertebrates/algae was greatest between the three northern islands and the southern island of Gough, where sea temperatures were on average 3-4o colder. Despite a lobster fishery that provides the bulk of the income to the Tristan islands, lobster abundance and biomass are comparable to or greater than many Marine Protected Areas in other parts of the world. Pelagic camera surveys documented a rich biodiversity offshore, including large numbers of juvenile blue sharks, Prionace glauca. Species richness and abundance in the deep sea is positively related to hard rocky substrate and biogenic habitats such as sea pens, crinoids, whip corals, and gorgonians were present at 40% of the deep camera deployments. We observed distinct differences in the deep fish community above and below ~750 m depth. Concurrent oceanographic sampling showed a discontinuity in temperature and salinity at this depth. While currently healthy, Tristan's marine ecosystem is not without potential threats: shipping traffic leading to wrecks and species introductions, pressure to increase fishing effort beyond sustainable levels and the impacts of climate change all could potentially increase in the coming years. The United Kingdom has committed to protection of marine environments across the UKOTs, including Tristan da Cunha and these results can be used to inform future management decisions as well as provide a baseline against which future monitoring can be based.

Magnetic and gravity constraints on forearc upper crustal structure and composition, offshore northeast Japan

USGS Publications Warehouse

Finn, C.

1994-01-01

Marine magnetic and gravity data from the northeast Japan forearc offer insight to the subsurface structure, density and magnetization from which geologic interpretations and tectonic reconstructions can be made. Positive marine magnetic anomalies, on-land geology, drill hole data, and 2-1/2-dimensional models reveal that Kitakami plutons and possibly their associated volcanic rocks constitute part of the modern forearc basement and lie 100-150 km further east than previously thought. A method to create magnetization and density contrast maps was employed to produce a three-dimensional picture of the forearc basement rock properties averaged over a 14-km thickness. -Author

DOE Office of Scientific and Technical Information (OSTI.GOV)

Short, J.W.; Harris, P.M.

We sampled 32 locations during each of three sampling periods between 31 March through 8 May 1989 in Prince William Sound, Alaska, for hydrocarbons in seawater at depths of 1-m and 5-m following the grounding of the T/V Exxon Valdez on 24 March 1989. Samples were analyzed for 22 alkane and 43 polynuclear aromatic hydrocarbon (PAH) analytes. The results show that Exxon Valdez crude oil PAHs were available to subsurface marine fauna the first few weeks following grounding of the T/V Exxon Valdez, especially in near-shore, near-surface waters that are biologically productive. Measured PAH concentrations, however, were well below thosemore » acutely toxic to marine fauna.« less

Meta-Analysis of Quantification Methods Shows that Archaea and Bacteria Have Similar Abundances in the Subseafloor

PubMed Central

May, Megan K.; Kevorkian, Richard T.; Steen, Andrew D.

2013-01-01

There is no universally accepted method to quantify bacteria and archaea in seawater and marine sediments, and different methods have produced conflicting results with the same samples. To identify best practices, we compiled data from 65 studies, plus our own measurements, in which bacteria and archaea were quantified with fluorescent in situ hybridization (FISH), catalyzed reporter deposition FISH (CARD-FISH), polyribonucleotide FISH, or quantitative PCR (qPCR). To estimate efficiency, we defined “yield” to be the sum of bacteria and archaea counted by these techniques divided by the total number of cells. In seawater, the yield was high (median, 71%) and was similar for FISH, CARD-FISH, and polyribonucleotide FISH. In sediments, only measurements by CARD-FISH in which archaeal cells were permeabilized with proteinase K showed high yields (median, 84%). Therefore, the majority of cells in both environments appear to be alive, since they contain intact ribosomes. In sediments, the sum of bacterial and archaeal 16S rRNA gene qPCR counts was not closely related to cell counts, even after accounting for variations in copy numbers per genome. However, qPCR measurements were precise relative to other qPCR measurements made on the same samples. qPCR is therefore a reliable relative quantification method. Inconsistent results for the relative abundance of bacteria versus archaea in deep subsurface sediments were resolved by the removal of CARD-FISH measurements in which lysozyme was used to permeabilize archaeal cells and qPCR measurements which used ARCH516 as an archaeal primer or TaqMan probe. Data from best-practice methods showed that archaea and bacteria decreased as the depth in seawater and marine sediments increased, although archaea decreased more slowly. PMID:24096423

Microbial community stratification controlled by the subseafloor fluid flow and geothermal gradient at the Iheya North hydrothermal field in the Mid-Okinawa Trough (Integrated Ocean Drilling Program Expedition 331).

PubMed

Yanagawa, Katsunori; Breuker, Anja; Schippers, Axel; Nishizawa, Manabu; Ijiri, Akira; Hirai, Miho; Takaki, Yoshihiro; Sunamura, Michinari; Urabe, Tetsuro; Nunoura, Takuro; Takai, Ken

2014-10-01

The impacts of lithologic structure and geothermal gradient on subseafloor microbial communities were investigated at a marginal site of the Iheya North hydrothermal field in the Mid-Okinawa Trough. Subsurface marine sediments composed of hemipelagic muds and volcaniclastic deposits were recovered through a depth of 151 m below the seafloor at site C0017 during Integrated Ocean Drilling Program Expedition 331. Microbial communities inferred from 16S rRNA gene clone sequencing in low-temperature hemipelagic sediments were mainly composed of members of the Chloroflexi and deep-sea archaeal group. In contrast, 16S rRNA gene sequences of marine group I Thaumarchaeota dominated the microbial phylotype communities in the coarse-grained pumiceous gravels interbedded between the hemipelagic sediments. Based on the physical properties of sediments such as temperature and permeability, the porewater chemistry, and the microbial phylotype compositions, the shift in the physical properties of the sediments is suggested to induce a potential subseafloor recharging flow of oxygenated seawater in the permeable zone, leading to the generation of variable chemical environments and microbial communities in the subseafloor habitats. In addition, the deepest section of sediments under high-temperature conditions (∼90°C) harbored the sequences of an uncultivated archaeal lineage of hot water crenarchaeotic group IV that may be associated with the high-temperature hydrothermal fluid flow. These results indicate that the subseafloor microbial community compositions and functions at the marginal site of the hydrothermal field are highly affected by the complex fluid flow structure, such as recharging seawater and underlying hydrothermal fluids, coupled with the lithologic transition of sediments. Copyright © 2014, American Society for Microbiology. All Rights Reserved.

Ocean as the main driver of Antarctic ice sheet retreat during the Holocene

NASA Astrophysics Data System (ADS)

Crosta, Xavier; Crespin, Julien; Swingedouw, Didier; Marti, Olivier; Masson-Delmotte, Valérie; Etourneau, Johan; Goosse, Hugues; Braconnot, Pascale; Yam, Ruth; Brailovski, Irena; Shemesh, Aldo

2018-07-01

Ocean-driven basal melting has been shown to be the main ablation process responsible for the recession of many Antarctic ice shelves and marine-terminating glaciers over the last decades. However, much less is known about the drivers of ice shelf melt prior to the short instrumental era. Based on diatom oxygen isotope (δ18Odiatom; a proxy for glacial ice discharge in solid or liquid form) records from western Antarctic Peninsula (West Antarctica) and Adélie Land (East Antarctica), higher ocean temperatures were suggested to have been the main driver of enhanced ice melt during the Early-to-Mid Holocene while atmosphere temperatures were proposed to have been the main driver during the Late Holocene. Here, we present a new Holocene δ18Odiatom record from Prydz Bay, East Antarctica, also suggesting an increase in glacial ice discharge since 4500 years before present ( 4.5 kyr BP) as previously observed in Antarctic Peninsula and Adélie Land. Similar results from three different regions around Antarctica thus suggest common driving mechanisms. Combining marine and ice core records along with new transient accelerated simulations from the IPSL-CM5A-LR climate model, we rule out changes in air temperatures during the last 4.5 kyr as the main driver of enhanced glacial ice discharge. Conversely, our simulations evidence the potential for significant warmer subsurface waters in the Southern Ocean during the last 6 kyr in response to enhanced summer insolation south of 60°S and enhanced upwelling of Circumpolar Deep Water towards the Antarctic shelf. We conclude that ice front and basal melting may have played a dominant role in glacial discharge during the Late Holocene.

Microbial Community Stratification Controlled by the Subseafloor Fluid Flow and Geothermal Gradient at the Iheya North Hydrothermal Field in the Mid-Okinawa Trough (Integrated Ocean Drilling Program Expedition 331)

PubMed Central

Breuker, Anja; Schippers, Axel; Nishizawa, Manabu; Ijiri, Akira; Hirai, Miho; Takaki, Yoshihiro; Sunamura, Michinari; Urabe, Tetsuro; Nunoura, Takuro; Takai, Ken

2014-01-01

The impacts of lithologic structure and geothermal gradient on subseafloor microbial communities were investigated at a marginal site of the Iheya North hydrothermal field in the Mid-Okinawa Trough. Subsurface marine sediments composed of hemipelagic muds and volcaniclastic deposits were recovered through a depth of 151 m below the seafloor at site C0017 during Integrated Ocean Drilling Program Expedition 331. Microbial communities inferred from 16S rRNA gene clone sequencing in low-temperature hemipelagic sediments were mainly composed of members of the Chloroflexi and deep-sea archaeal group. In contrast, 16S rRNA gene sequences of marine group I Thaumarchaeota dominated the microbial phylotype communities in the coarse-grained pumiceous gravels interbedded between the hemipelagic sediments. Based on the physical properties of sediments such as temperature and permeability, the porewater chemistry, and the microbial phylotype compositions, the shift in the physical properties of the sediments is suggested to induce a potential subseafloor recharging flow of oxygenated seawater in the permeable zone, leading to the generation of variable chemical environments and microbial communities in the subseafloor habitats. In addition, the deepest section of sediments under high-temperature conditions (∼90°C) harbored the sequences of an uncultivated archaeal lineage of hot water crenarchaeotic group IV that may be associated with the high-temperature hydrothermal fluid flow. These results indicate that the subseafloor microbial community compositions and functions at the marginal site of the hydrothermal field are highly affected by the complex fluid flow structure, such as recharging seawater and underlying hydrothermal fluids, coupled with the lithologic transition of sediments. PMID:25063666

Exploring the Deep Biosphere in Ophiolite-hosted Systems: What Can Metabolic Processes in Surface Seeps Tell Us About Subsurface Ecosystems in Serpentinizing Fluids?

NASA Astrophysics Data System (ADS)

Meyer-Dombard, D. R.; Cardace, D.; Woycheese, K. M.; Vallalar, B.; Casar, C.; Simon, A.; Arcilla, C. A.

2016-12-01

Serpentinization in the subsurface produces highly reduced, high pH fluids that provide microbial habitats. It is assumed that these deep subsurface fluids contain copious H2 and CH4 gas, little/no inorganic carbon, and limited electron acceptors. As serpentinized fluids reach the oxygenated surface environment, microbial biomes shift and organisms capable of metabolizing O2 thrive (Woycheese et al., 2015). However, the relationship of microbial communities found in surface expressions of serpentinizing fluids to the subsurface biosphere is still a target of exploration. Our work in the Zambales ophiolite (Philippines) defines surface microbial habitats with geochemistry, targeted culturing efforts, and community analysis (Cardace et al., 2015; Woycheese et al., 2015). Springs range from pH 9-11.5, and contain 0.06-2 ppm DO, 0-3.7 ppm sulfide, 30-800 ppm silica. Gases include H2 and CH4 > 10uM, CO2 > 1 mM, and trace amounts of CO. These surface data allow prediction of the subsurface metabolic landscape. For example, Cardace et al., (2015) predicted that metabolism of iron is important in both biospheres. Growth media were designed to target iron reduction yielding heterotrophic and autotrophic iron reducers at high pH. Reduced iron minerals were produced in several cultures (Casar et al., sub.), and isolation efforts are underway. Shotgun metagenomic analysis shows the metabolic capacity for methanogenesis, suggesting microbial origins for some CH4 present. The enzymes methyl coenzyme M reductase, and formylmethanofuran dehydrogenase were detected, and relative abundance increased near the near-anoxic spring source. The metagenomes indicate carbon cycling at these sites is reliant on methanogenesis, acetogenesis, sulfate reduction, and H2 and CH4 oxidation. In this tropical climate, cellulose is also a likely carbon source; cellulose degrading isolates have been obtained. These results indicate a metabolically flexible community at the surface where serpentinizing fluids are expressed. The next step is to understand what these surface systems might tell us about the subsurface biosphere. References: Cardace et al., 2015 Frontiers in Extreme Microbiology 6: doi: 10.3389/fmicb.2015.00010 Woycheese et al., 2015 Frontiers in Extreme Microbiology 6: doi: 10.3389/fmicb.2015.00044

Effects of Mars Regolith Analogs, UVC radiation, Temperature, Pressure, and pH on the Growth and Survivability of Methanogenic Archaea and Stable Carbon Isotope Fractionation: Implications for Surface and Subsurface Life on Mars

NASA Astrophysics Data System (ADS)

Sinha, Navita

Mars is one of the suitable bodies in our solar system that can accommodate extraterrestrial life. The detection of plumes of methane in the Martian atmosphere, geochemical evidence, indication of flow of intermittent liquid water on the Martian surface, and geomorphologies of Mars have bolstered the plausibility of finding extant or evidence of extinct life on its surface and/or subsurface. However, contemporary Mars has been considered as an inhospitable planet for several reasons, such as low atmospheric surface pressure, low surface temperature, and intense DNA damaging radiation. Despite the hostile conditions of Mars, a few strains of methanogenic archaea have shown survivability in limited surface and subsurface conditions of Mars. Methanogens, which are chemolithoautotrophic non-photosynthetic anaerobic archaea, have been considered ideal models for possible Martian life forms for a long time. The search for biosignatures in the Martian atmosphere and possibility of life on the Martian surface under UVC radiation and deep subsurface under high pressure, temperature, and various pHs are the motivations of this research. Analogous to Earth, Martian atmospheric methane could be biological in origin. Chapter 1 provides relevant information about Mars' habitability, methane on Mars, and different strains of methanogens used in this study. Chapter 2 describes the interpretation of the carbon isotopic data of biogenic methane produced by methanogens grown on various Mars analogs and the results provide clues to determine ambiguous sources of methane on Mars. Chapter 3 illustrates the sensitivity of hydrated and desiccated cultures of halophilic and non-halophilic methanogens to DNA-damaging ultraviolet radiations, and the results imply that UVC radiation may not be an enormous constraint for methanogenic life forms on the surface of Mars. Chapters 4, 5, and 6 discuss the data for the survivability, growth, and morphology of methanogens in presumed deep subsurface physicochemical conditions such as temperature, pressure, hydrogen concentration, and pH of Mars. Finally, chapter 7 provides conclusions, limitations of the experiments, and future perspective of the work. Overall, the quantitative measurements obtained in the various sections of this novel work provide insights to atmospheric biosignatures and survivability of methanogenic organisms on the surface and subsurface of Mars.

Using Passive and Active Acoustics to Examine Relationships of Cetacean and Prey Densities

DTIC Science & Technology

2015-09-30

modulation or production to the marine soundscape with daily, lunar, and seasonal patterns. We aim to document how presence and intensity of certain...sounds relate to spatio-temporal variability of active acoustic backscatter strength. Additionally, several marine mammal species are predators of deep...scattering layer (DSL) species as well as krill. We intend to investigate if passive acoustic marine mammal detections are related to increased

Subsurface Hybrid Power Options for Oil & Gas Production at Deep Ocean Sites

DOE Office of Scientific and Technical Information (OSTI.GOV)

Farmer, J C; Haut, R; Jahn, G

2010-02-19

An investment in deep-sea (deep-ocean) hybrid power systems may enable certain off-shore oil and gas exploration and production. Advanced deep-ocean drilling and production operations, locally powered, may provide commercial access to oil and gas reserves otherwise inaccessible. Further, subsea generation of electrical power has the potential of featuring a low carbon output resulting in improved environmental conditions. Such technology therefore, enhances the energy security of the United States in a green and environmentally friendly manner. The objective of this study is to evaluate alternatives and recommend equipment to develop into hybrid energy conversion and storage systems for deep ocean operations.more » Such power systems will be located on the ocean floor and will be used to power offshore oil and gas exploration and production operations. Such power systems will be located on the oceans floor, and will be used to supply oil and gas exploration activities, as well as drilling operations required to harvest petroleum reserves. The following conceptual hybrid systems have been identified as candidates for powering sub-surface oil and gas production operations: (1) PWR = Pressurized-Water Nuclear Reactor + Lead-Acid Battery; (2) FC1 = Line for Surface O{sub 2} + Well Head Gas + Reformer + PEMFC + Lead-Acid & Li-Ion Batteries; (3) FC2 = Stored O2 + Well Head Gas + Reformer + Fuel Cell + Lead-Acid & Li-Ion Batteries; (4) SV1 = Submersible Vehicle + Stored O{sub 2} + Fuel Cell + Lead-Acid & Li-Ion Batteries; (5) SV2 = Submersible Vehicle + Stored O{sub 2} + Engine or Turbine + Lead-Acid & Li-Ion Batteries; (6) SV3 = Submersible Vehicle + Charge at Docking Station + ZEBRA & Li-Ion Batteries; (7) PWR TEG = PWR + Thermoelectric Generator + Lead-Acid Battery; (8) WELL TEG = Thermoelectric Generator + Well Head Waste Heat + Lead-Acid Battery; (9) GRID = Ocean Floor Electrical Grid + Lead-Acid Battery; and (10) DOC = Deep Ocean Current + Lead-Acid Battery.« less

Synchronous deglacial thermocline and deep-water ventilation in the eastern equatorial Pacific

PubMed Central

Umling, Natalie E.; Thunell, Robert C.

2017-01-01

The deep ocean is most likely the primary source of the radiocarbon-depleted CO2 released to the atmosphere during the last deglaciation. While there are well-documented millennial scale Δ14C changes during the most recent deglaciation, most marine records lack the resolution needed to identify more rapid ventilation events. Furthermore, potential age model problems with marine Δ14C records may obscure our understanding of the phase relationship between inter-ocean ventilation changes. Here we reconstruct changes in deep water and thermocline radiocarbon content over the last deglaciation in the eastern equatorial Pacific (EEP) using benthic and planktonic foraminiferal 14C. Our records demonstrate that ventilation of EEP thermocline and deep waters occurred synchronously during the last deglaciation. In addition, both gradual and rapid deglacial radiocarbon changes in these Pacific records are coeval with changes in the Atlantic records. This in-phase behaviour suggests that the Southern Ocean overturning was the dominant driver of changes in the Atlantic and Pacific ventilation during deglaciation. PMID:28112161

Marine litter on deep Arctic seafloor continues to increase and spreads to the North at the HAUSGARTEN observatory

NASA Astrophysics Data System (ADS)

Tekman, Mine B.; Krumpen, Thomas; Bergmann, Melanie

2017-02-01

The increased global production of plastics has been mirrored by greater accumulations of plastic litter in marine environments worldwide. Global plastic litter estimates based on field observations account only for 1% of the total volumes of plastic assumed to enter the marine ecosystem from land, raising again the question 'Where is all the plastic? '. Scant information exists on temporal trends on litter transport and litter accumulation on the deep seafloor. Here, we present the results of photographic time-series surveys indicating a strong increase in marine litter over the period of 2002-2014 at two stations of the HAUSGARTEN observatory in the Arctic (2500 m depth). Plastic accounted for the highest proportion (47%) of litter recorded at HAUSGARTEN for the whole study period. When the most southern station was considered separately, the proportion of plastic items was even higher (65%). Increasing quantities of small plastics raise concerns about fragmentation and future microplastic contamination. Analysis of litter types and sizes indicate temporal and spatial differences in the transport pathways to the deep sea for different categories of litter. Litter densities were positively correlated with the counts of ship entering harbour at Longyearbyen, the number of active fishing vessels and extent of summer sea ice. Sea ice may act as a transport vehicle for entrained litter, being released during periods of melting. The receding sea ice coverage associated with global change has opened hitherto largely inaccessible environments to humans and the impacts of tourism, industrial activities including shipping and fisheries, all of which are potential sources of marine litter.

Deep Boreholes Seals Subjected to High P, T conditions – Preliminary Experimental Studies

DOE Office of Scientific and Technical Information (OSTI.GOV)

Caporuscio, Florie Andre; Norskog, Katherine Elizabeth; Maner, James Lavada

The objective of this planned experimental work is to evaluate physio-chemical processes for ‘seal’ components and materials relevant to deep borehole disposal. These evaluations will encompass multi-laboratory efforts for the development of seals concepts and application of Thermal-Mechanical-Chemical (TMC) modeling work to assess barrier material interactions with subsurface fluids, their stability at high temperatures, and the implications of these processes to the evaluation of thermal limits. Deep borehole experimental work will constrain the Pressure, Temperature (P, T) conditions which “seal” material will experience in deep borehole crystalline rock repositories. The rocks of interest to this study include the silicic (graniticmore » gneiss) end members. The experiments will systematically add components to capture discrete changes in both water and EBS component chemistries.« less