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

Science.gov (United States)

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.

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

Science.gov (United States)

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.

Deep percolation in greenhouse-cultivated celery using the technique of subsurface film strips placement

Directory of Open Access Journals (Sweden)

Zhida Du

2014-05-01

Full Text Available To reduce the deep percolation during greenhouse vegetable cultivation, the technique of subsurface film strips placement was tested. Four treatments with two kinds of cross-sections (flat and U-shaped and two different spacings (10 cm and 40 cm of subsurface film strips were arranged in a greenhouse before planting celery. At the same time, a non-film treatment was arranged for comparison. Soil water content was measured and irrigation time was adjusted according to the soil water content. Evapotranspiration of celery during growth was calculated by the method of energy balance and the deep percolation was calculated by the equation of water balance. Deep percolation was reduced in all experimental treatments. Greater reduction in deep percolation was observed when using U-shaped cross-section strips compared with that using the flat cross-section strips. In addition, greater reduction in deep percolation was observed when the spacing between the film strips was smaller. The results of this test showed that the technique of subsurface film strips placement can reduce deep percolation and conserve irrigation water for greenhouse vegetables cultivation. However, the optimal layout variables for the use of the technique of subsurface film strips placement need further experimental and numerical analysis.

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

Science.gov (United States)

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.

Is the genetic landscape of the deep subsurface biosphere affected by viruses?

Science.gov (United States)

Anderson, Rika E; Brazelton, William J; Baross, John A

2011-01-01

Viruses are powerful manipulators of microbial diversity, biogeochemistry, and evolution in the marine environment. Viruses can directly influence the genetic capabilities and the fitness of their hosts through the use of fitness factors and through horizontal gene transfer. However, the impact of viruses on microbial ecology and evolution is often overlooked in studies of the deep subsurface biosphere. Subsurface habitats connected to hydrothermal vent systems are characterized by constant fluid flux, dynamic environmental variability, and high microbial diversity. In such conditions, high adaptability would be an evolutionary asset, and the potential for frequent host-virus interactions would be high, increasing the likelihood that cellular hosts could acquire novel functions. Here, we review evidence supporting this hypothesis, including data indicating that microbial communities in subsurface hydrothermal fluids are exposed to a high rate of viral infection, as well as viral metagenomic data suggesting that the vent viral assemblage is particularly enriched in genes that facilitate horizontal gene transfer and host adaptability. Therefore, viruses are likely to play a crucial role in facilitating adaptability to the extreme conditions of these regions of the deep subsurface biosphere. We also discuss how these results might apply to other regions of the deep subsurface, where the nature of virus-host interactions would be altered, but possibly no less important, compared to more energetic hydrothermal systems.

Starvation-survival of subsurface bacteria

International Nuclear Information System (INIS)

Magill, N.G.

1988-01-01

The ability of four subsurface isolates to survive starvation was examined and the results were compared to survival curves obtained for Escherichia coli B and Serratia marcescens. To examine the starvation-survival phenomenon further, several experimental parameters including nutritional history, initial cell density, growth phase, temperature of growth and starvation, and aeration. Nutritional history, initial cell density, and growth phases of the cells had some effect on the ability of these bacteria to survive whereas temperature and limited aeration had no effect under the conditions tested. No conditions were found where E. coli B or Serratia marcescens died rapidly or where less than 10% of the original cell number of viable cells remained. Because the apparent survival of these bacteria may be due to cryptic growth, cross-feeding experiments with 14 C-labeled cells and unlabeled cells were carried out with E. coli B and Pseudomonas Lula V. Leaked extracellular 14 C-compounds were not used for growth or maintenance energy, and were not taken up by either bacterium. Cryptic growth did not occur; the cells were truly starving under the experimental conditions used

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

OpenAIRE

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 w...

Nematoda from the terrestrial deep subsurface of South Africa

NARCIS (Netherlands)

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

2011-01-01

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 biosphere1–4. The constraints of temperature, energy,

U.V. repair in deep-sea bacteria

International Nuclear Information System (INIS)

Lutz, L.; Yayanos, A.A.

1986-01-01

Exposure of cells to light of less than 320 nanometers wavelengths may lead to lethal lesions and perhaps carcinogenesis. Many organisms have evolved mechanisms to repair U.V. light-induced damage. Organisms such as deep-sea bacteria are presumably never exposed to U.V. light and perhaps occasionally to visible from bioluminescence. Thus, the repair of U.V. damage in deep-sea bacterial DNA might be inefficient and repair by photoreactivation unlikely. The bacteria utilized in this investigation are temperature sensitive and barophilic. Four deep-sea isolates were chosen for this study: PE-36 from 3584 m, CNPT-3 from 5782 m, HS-34 from 5682 m, and MT-41 from 10,476 m, all are from the North Pacific ocean. The deep-sea extends from 1100 m to depths greater than 7000 m. It is a region of relatively uniform conditions. The temperature ranges from 5 to -1 0 C. There is no solar light in the deep-sea. Deep-sea bacteria are sensitive to U.V. light; in fact more sensitive than a variety of terrestrial and sea-surface bacteria. All four isolates demonstrate thymine dimer repair. Photoreactivation was observed in only MT-41. The other strains from shallower depths displayed no photoreactivation. The presence of DNA sequences homologous to the rec A, uvr A, B, and C and phr genes of E. coli have been examined by Southern hybridization techniques

Impact disruption and recovery of the deep subsurface biosphere

Science.gov (United States)

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.

Development of anomaly detection models for deep subsurface monitoring

Science.gov (United States)

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.

On using rational enzyme redesign to improve enzyme-mediated microbial dehalogenation of recalcitrant substances in deep-subsurface environments

International Nuclear Information System (INIS)

Ornstein, R.L.

1993-06-01

Heavily halogenated hydrocarbons are one of the most prevalent classes of man-made recalcitrant environmental contaminants and often make their way into subsurface environments. Biodegradation of heavily chlorinated compounds in the deep subsurface often occurs at extremely slow rates because native enzymes of indigenous microbes are unable to efficiently metabolize such synthetic substances. Cost-effective engineering solutions do not exist for dealing with disperse and recalcitrant pollutants in the deep subsurface (i.e., ground water, soils, and sediments). Timely biodegradation of heavily chlorinated compounds in the deep subsurface may be best accomplished by rational redesign of appropriate enzymes that enhance the ability of indigenous microbes to metabolize these substances. The isozyme family cytochromes P450 are catalytically very robust and are found in all aerobic life forms and may be active in may anaerobes as well. The author is attempting to demonstrate proof-of-principle rational enzyme redesign of cytochromes P450 to enhance biodehalogenation

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

Science.gov (United States)

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

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

Directory of Open Access Journals (Sweden)

Katja eFichtel

2015-10-01

Full Text Available 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 five meters 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.

Active microbial community structure of deep subsurface sediments within Baltic Sea Basin

Science.gov (United States)

Reese, B. K.; Zinke, L.; Carvalho, G.; Lloyd, K. G.; Marshall, I.; Shumaker, A.; Amend, J.

2014-12-01

The Baltic Sea Basin (BSB) is a unique depositional setting that has experienced periods of glaciation and deglaciation as a result of climatic fluctuations over past tens of thousands of years. This has resulted in laminated sediments formed during periods with strong permanent salinity stratification. The high sedimentation rates make this an ideal setting to understand the microbial structure of a deep biosphere community in a relatively high carbon, and thus high-energy environment, compared to other deep subsurface sites. 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 active microbial community structure in the BSB is diverse and reflective of the unique changes in the geochemical profile. These data further refine our understanding of the existence life in the deep subsurface and the survival mechanisms required for this extreme environment.

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

Science.gov (United States)

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.

Impact disruption and recovery of the deep subsurface biosphere

DEFF Research Database (Denmark)

Cockell, Charles S.; Voytek, Mary A.; Gronstal, Aaaron L

2012-01-01

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......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...

Denitrifying bacteria from the genus Rhodanobacter dominate bacterial communities in the highly contaminated subsurface of a nuclear legacy waste site.

Science.gov (United States)

Green, Stefan J; Prakash, Om; Jasrotia, Puja; Overholt, Will A; Cardenas, Erick; Hubbard, Daniela; Tiedje, James M; Watson, David B; Schadt, Christopher W; Brooks, Scott C; Kostka, Joel E

2012-02-01

The effect of long-term mixed-waste contamination, particularly uranium and nitrate, on the microbial community in the terrestrial subsurface was investigated at the field scale at the Oak Ridge Integrated Field Research Challenge (ORIFRC) site in Oak Ridge, TN. The abundance, community composition, and distribution of groundwater microorganisms were examined across the site during two seasonal sampling events. At representative locations, subsurface sediment was also examined from two boreholes, one sampled from the most heavily contaminated area of the site and another from an area with low contamination. A suite of DNA- and RNA-based molecular tools were employed for community characterization, including quantitative PCR of rRNA and nitrite reductase genes, community composition fingerprinting analysis, and high-throughput pyrotag sequencing of rRNA genes. The results demonstrate that pH is a major driver of the subsurface microbial community structure and that denitrifying bacteria from the genus Rhodanobacter (class Gammaproteobacteria) dominate at low pH. The relative abundance of bacteria from this genus was positively correlated with lower-pH conditions, and these bacteria were abundant and active in the most highly contaminated areas. Other factors, such as the concentration of nitrogen species, oxygen level, and sampling season, did not appear to strongly influence the distribution of Rhodanobacter bacteria. The results indicate that these organisms are acid-tolerant denitrifiers, well suited to the acidic, nitrate-rich subsurface conditions, and pH is confirmed as a dominant driver of bacterial community structure in this contaminated subsurface environment.

Single cell genomics indicates horizontal gene transfer and viral infections in a deep subsurface Firmicutes population

Directory of Open Access Journals (Sweden)

Jessica eLabonté

2015-04-01

Full Text Available A major fraction of Earth's prokaryotic biomass dwells in the deep subsurface, where cellular abundances per volume of sample are lower, metabolism is slower, and generation times are longer than those in surface terrestrial and marine environments. How these conditions impact biotic interactions and evolutionary processes is largely unknown. Here we employed single cell genomics to analyze cell-to-cell genome content variability and signatures of horizontal gene transfer (HGT and viral infections in five cells of Candidatus Desulforudis audaxviator, which were collected from a three km-deep fracture water in the 2.9 Ga-old Witwatersrand Basin of South Africa. Between 0 and 32 % of genes recovered from single cells were not present in the original, metagenomic assembly of Desulforudis, which was obtained from a neighboring subsurface fracture. We found a transposable prophage, a retron, multiple clustered regularly interspaced short palindromic repeats (CRISPRs and restriction-modification systems, and an unusually high frequency of transposases in the analyzed single cell genomes. This indicates that recombination, HGT and viral infections are prevalent evolutionary events in the studied population of microorganisms inhabiting a highly stable deep subsurface environment.

Stable and Variable Parts of Microbial Community in Siberian Deep Subsurface Thermal Aquifer System Revealed in a Long-Term Monitoring Study

OpenAIRE

Frank, Yulia A.; Kadnikov, Vitaly V.; Gavrilov, Sergey N.; Banks, David; Gerasimchuk, Anna L.; Podosokorskaya, Olga A.; Merkel, Alexander Y.; Chernyh, Nikolai A.; Mardanov, Andrey V.; Ravin, Nikolai V.; Karnachuk, Olga V.; Bonch-Osmolovskaya, Elizaveta A.

2016-01-01

The goal of this work was to study the diversity of microorganisms inhabiting a deep subsurface aquifer system in order to understand their functional roles and interspecies relations formed in the course of buried organic matter degradation. A microbial community of a deep subsurface thermal aquifer in the Tomsk Region, Western Siberia was monitored over the course of five years via a 2.7 km deep borehole 3P, drilled down to a Palaeozoic basement. The borehole water discharges with a tempera...

Deep subsurface structure modeling and site amplification factor estimation in Niigata plain for broadband strong motion prediction

International Nuclear Information System (INIS)

Sato, Hiroaki

2009-01-01

This report addresses a methodology of deep subsurface structure modeling in Niigata plain, Japan to estimate site amplification factor in the broadband frequency range for broadband strong motion prediction. In order to investigate deep S-wave velocity structures, we conduct microtremor array measurements at nine sites in Niigata plain, which are important to estimate both long- and short-period ground motion. The estimated depths of the top of the basement layer agree well with those of the Green tuff formation as well as the Bouguer anomaly distribution. Dispersion characteristics derived from the observed long-period ground motion records are well explained by the theoretical dispersion curves of Love wave group velocities calculated from the estimated subsurface structures. These results demonstrate the deep subsurface structures from microtremor array measurements make it possible to estimate long-period ground motions in Niigata plain. Moreover an applicability of microtremor array exploration for inclined basement structure like a folding structure is shown from the two dimensional finite difference numerical simulations. The short-period site amplification factors in Niigata plain are empirically estimated by the spectral inversion analysis from S-wave parts of strong motion data. The resultant characteristics of site amplification are relative large in the frequency range of about 1.5-5 Hz, and decay significantly with the frequency increasing over about 5 Hz. However, these features can't be explained by the calculations from the deep subsurface structures. The estimation of site amplification factors in the frequency range of about 1.5-5 Hz are improved by introducing a shallow detailed structure down to GL-20m depth at a site. We also propose to consider random fluctuation in a modeling of deep S-wave velocity structure for broadband site amplification factor estimation. The Site amplification in the frequency range higher than about 5 Hz are filtered

Denitrifying bacteria from the genus Rhodanobacter dominate bacterial communities in the highly contaminated subsurface of a nuclear legacy waste site

Energy Technology Data Exchange (ETDEWEB)

Green, Stefan [Florida State University; Prakash, Om [Florida State University; Jasrotia, Puja [Florida State University; Overholt, Will [Florida State University; Cardenas, Erick [Michigan State University, East Lansing; Hubbard, Daniela [Florida State University; Tiedje, James M. [Michigan State University, East Lansing; Watson, David B [ORNL; Schadt, Christopher Warren [ORNL; Brooks, Scott C [ORNL; Kostka, Joel [Florida State University

2011-01-01

The effect of long-term mixed-waste contamination, particularly uranium and nitrate, on the microbial community in the terrestrial subsurface was investigated at the field scale at the Oak Ridge Integrated Field Research Challenge (ORIFRC) site in Oak Ridge, TN. The abundance, community composition, and distribution of groundwater microorganisms were examined across the site during two seasonal sampling events. At representative locations, subsurface sediment was also examined from two boreholes, one sampled from the most heavily contaminated area of the site and another from an area with low contamination. A suite of DNA- and RNA-based molecular tools were employed for community characterization, including quantitative PCR of ribosomal RNA and nitrite reductase genes, community composition fingerprinting analysis, and high-throughput pyrotag sequencing of rRNA genes. The results demonstrate that pH is a major driver of the subsurface microbial community structure, and denitrifying bacteria from the genus Rhodanobacter (class Gammaproteobacteria) dominate at low pH. The relative abundance of bacteria from this genus was positively correlated with lower pH conditions, and these bacteria were abundant and active in the most highly contaminated areas. Other factors, such as concentration of nitrogen species, oxygen and sampling season did not appear to strongly influence the distribution of Rhodanobacter. Results indicate that these organisms are acid-tolerant denitrifiers, well suited to the acidic, nitrate-rich subsurface conditions, and pH is confirmed as a dominant driver of bacterial community structure in this contaminated subsurface environment.

Deep sequencing of subseafloor eukaryotic rRNA reveals active Fungi across marine subsurface provinces.

Directory of Open Access Journals (Sweden)

William Orsi

Full Text Available The deep marine subsurface is a vast habitat for microbial life where cells may live on geologic timescales. Because DNA in sediments may be preserved on long timescales, ribosomal RNA (rRNA is suggested to be a proxy for the active fraction of a microbial community in the subsurface. During an investigation of eukaryotic 18S rRNA by amplicon pyrosequencing, unique profiles of Fungi were found across a range of marine subsurface provinces including ridge flanks, continental margins, and abyssal plains. Subseafloor fungal populations exhibit statistically significant correlations with total organic carbon (TOC, nitrate, sulfide, and dissolved inorganic carbon (DIC. These correlations are supported by terminal restriction length polymorphism (TRFLP analyses of fungal rRNA. Geochemical correlations with fungal pyrosequencing and TRFLP data from this geographically broad sample set suggests environmental selection of active Fungi in the marine subsurface. Within the same dataset, ancient rRNA signatures were recovered from plants and diatoms in marine sediments ranging from 0.03 to 2.7 million years old, suggesting that rRNA from some eukaryotic taxa may be much more stable than previously considered in the marine subsurface.

Rapid Reactivation of Deep Subsurface Microbes in the Presence of C-1 Compounds

Directory of Open Access Journals (Sweden)

Pauliina Rajala

2015-02-01

Full Text Available Microorganisms in the deep biosphere are believed to conduct little metabolic activity due to low nutrient availability in these environments. However, destructive penetration to long-isolated bedrock environments during construction of underground waste repositories can lead to increased nutrient availability and potentially affect the long-term stability of the repository systems, Here, we studied how microorganisms present in fracture fluid from a depth of 500 m in Outokumpu, Finland, respond to simple carbon compounds (C-1 compounds in the presence or absence of sulphate as an electron acceptor. C-1 compounds such as methane and methanol are important intermediates in the deep subsurface carbon cycle, and electron acceptors such as sulphate are critical components of oxidation processes. Fracture fluid samples were incubated in vitro with either methane or methanol in the presence or absence of sulphate as an electron acceptor. Metabolic response was measured by staining the microbial cells with fluorescent dyes that indicate metabolic activity and transcriptional response with RT-qPCR. Our results show that deep subsurface microbes exist in dormant states but rapidly reactivate their transcription and respiration systems in the presence of C-1 substrates, particularly methane. Microbial activity was further enhanced by the addition of sulphate as an electron acceptor. Sulphate- and nitrate-reducing microbes were particularly responsive to the addition of C-1 compounds and sulphate. These taxa are common in deep biosphere environments and may be affected by conditions disturbed by bedrock intrusion, as from drilling and excavation for long-term storage of hazardous waste.

Subsurface Endospore-Forming Bacteria Possess Bio-Sealant Properties.

Science.gov (United States)

Basha, Sreenivasulu; Lingamgunta, Lakshman Kumar; Kannali, Jayakumar; Gajula, Swarna Kumari; Bandikari, Ramesh; Dasari, Sreenivasulu; Dalavai, Veena; Chinthala, Paramageetham; Gundala, Prasada Babu; Kutagolla, Peera; Balaji, Vinodh Kumar

2018-04-24

Concrete is a strong and fairly inexpensive building substance, but has several disadvantages like cracking that allows corrosion, thus reducing its lifespan. To mitigate these complications, long-lasting microbial self-healing cement is an alternative that is eco-friendly and also actively repairs cracks. The present paper describes the detailed experimental investigation on compressive strength of cement mortars, mixed with six alkaliphilic bacteria, isolated from subsurface mica mines of high alkalinity. The experiments showed that the addition of alkaliphilic isolates at different cell concentrations (10 4 and 10 6 cells/ml) enhanced the compressive strength of cement mortar, because the rapid growth of bacteria at high alkalinity precipitates calcite crystals that lead to filling of pores and densifying the concrete mix. Thus, Bacillus subtilis (SVUNM4) showed the highest compressive strength (28.61%) of cement mortar at 10 4 cells/ml compared to those of other five alkaliphilic isolates (Brevibacillus sp., SVUNM15-22.1%; P. dendritiformis, SVUNM11-19.9%; B. methylotrophicus, SVUNM9-16%; B. licheniformis, SVUNM14-12.7% and S. maltophilia, SVUNM13-9.6%) and controlled cement mortar as well. This method resulted in the filling of cracks in concrete with calcite (CaCO 3 ), which was observed by scanning electron microscopy (SEM). Our results showed that the alkaliphilic bacterial isolates used in the study are effective in self-healing and repair of concrete cracks.

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

Science.gov (United States)

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.

Immobilization of cobalt by sulfate-reducing bacteria in subsurface sediments

Science.gov (United States)

Krumholz, Lee R.; Elias, Dwayne A.; Suflita, Joseph M.

2003-01-01

We investigated the impact of sulfate-reduction on immobilization of metals in subsurface aquifers. Co 2+ was used as a model for heavy metals. Factors limiting sulfate-reduction dependent Co 2+ immobilization were tested on pure cultures of sulfate-reducing bacteria, and in sediment columns from a landfill leachate contaminated aquifer. In the presence of 1 mM Co 2+ , the growth of pure cultures of sulfate-reducing bacteria was not impacted. Cultures of Desulfovibrio desulfuricans, Desulfotomaculum gibsoniae , and Desulfomicrobium hypogeia removed greater than 99.99% of the soluble Co 2+ when CoCl 2 was used with no chelators. The above cultures and Desulfoarcula baarsi removed 98-99.94% of the soluble Co(II) when the metal was complexed with the model ligand nitrilotriacetate (Co-NTA). Factors controlling the rate of sulfate-reduction based Co 2+ precipitation were investigated in sediment-cobalt mixtures. Several electron donors were tested and all but toluene accelerated soluble Co 2+ loss. Ethanol and formate showed the greatest stimulation. All complex nitrogen sources tested slowed and decreased the extent of Co 2+ removal from solution relative to formate-amended sediment incubations. A range of pH values were tested (6.35-7.81), with the more alkaline incubations exhibiting the largest precipitation of Co 2+ . The immobilization of Co 2+ in sediments was also investigated with cores to monitor the flow of Co 2+ through undisturbed sediments. An increase in the amount of Co 2+ immobilized as CoS was observed as sulfate reduction activity was stimulated in flow through columns. Both pure culture and sediment incubation data indicate that stimulation of sulfate reduction is a viable strategy in the immobilization of contaminating metals in subsurface systems.

Integrated geomechanical modelling for deep subsurface damage

NARCIS (Netherlands)

Wees, J.D. van; Orlic, B.; Zijl, W.; Jongerius, P.; Schreppers, G.J.; Hendriks, M.

2001-01-01

Government, E&P and mining industry increasingly demand fundamental insight and accurate predictions on subsurface and surface deformation and damage due to exploitation of subsurface natural resources, and subsurface storage of energy residues (e.g. CO2). At this moment deformation is difficult to

Isolation and Characterization of Surface and Subsurface Bacteria in Seawater of Mantanani Island, Kota Belud, Sabah by Direct and Enrichment Techniques

International Nuclear Information System (INIS)

Benard, L D; Tuah, P M; Suadin, E G; Jamian, N

2015-01-01

The distribution of hydrocarbon-utilizing bacterial may vary between surface and subsurface of the seawater. One of the identified contributors is the Total Petroleum Hydrocarbon. The isolation and characterization of bacteria using Direct and Enrichment techniques helps in identifying dominant bacterial populations in seawater of Mantanani Island, Kota Belud, Sabah, potential of further investigation as hydrocarbon degrader. Crude oil (5% v/v) was added as the carbon source for bacteria in Enrichment technique. For surface seawater, the highest population of bacteria identified for both Direct and Enrichment technique were 2.60 × 10 7 CFU/mL and 3.84 × 10 6 CFU/mL respectively. Meanwhile, for subsurface seawater, the highest population of bacteria identified for both Direct and Enrichment technique were 5.21 × 10 6 CFU/mL and 8.99 × 10 7 CFU/mL respectively. Dominant species in surface seawater were characterized as Marinobacter hydrocarbonoclasticus-RMSF-C1 and RMSF-C2 and Alcanivorax borkumensis-RMSF-C3, RMSF-C4 and RMSF-C5. As for subsurface seawater, dominant species were characterized as Pseudomonas luteola-SSBR-W1, Burkholderia cepacia-SSBR-C1, Rhizobium radiobacter- SSBR-C3 and Leuconostoc-cremois -SSBR-C4. (paper)

Application of seismic interferometry to an exploration of subsurface structure by using microtremors. Estimation of deep ground structures in the Wakasa bay region

International Nuclear Information System (INIS)

Sato, Hiroaki; Kuriyama, Masayuki; Higashi, Sadanori; Shiba, Yoshiaki; Okazaki, Atsushi

2015-01-01

We carried out continuous measurements of microtremors to synthesize Green's function based on seismic interferometry in order to estimate deep subsurface structures of the Ohshima peninsula (OSM) and the Otomi peninsula (OTM) in the Wakasa bay region. Using more than 80 days of data, dispersive waveforms in the cross correlations were identified as a Green's function based on seismic interferometry. Rayleigh-wave phase velocities at OSM and OTM were estimated by two different method using microtremors: first, by analyzing microtremor array data, and second, by applying the f-k spectral analysis to synthesized Green's functions derived from cross-correlation with a common observation station. Relatively longer period of phase velocities were estimated by the f-k spectral analysis using the synthesized Green's functions with a common observation station. This suggests that the synthesized Green's functions from seismic interferometry can provide a valuable data for phase velocity inversion to estimate a deep subsurface structure. By identifying deep subsurface structures at OSM and OTM based on an inversion of phase velocity from both methods, the depth of S wave velocity of about 3.5 km/s, considered as a top of seismogenic layer, were determined to be 3.8 - 4.0 km at OSM and 4.4 - 4.6 km at OTM, respectively. Love- and Rayleigh-wave group velocities were estimated from the multiple filtering analysis of the synthesized Green's functions. From the comparison of observed surface wave group velocities and theoretical group velocities of OSM and OTM, we demonstrated that the observed group velocities were in good agreement with the average of theoretical group velocities calculated by identified deep subsurface structures at OSM and OTM. It is suggested that the deep subsurface structure of the shallow sea region between two peninsulas is continuous structure from OSM to OTM and that Love- and Rayleigh-wave group velocities using

Subsurface microbial habitats on Mars

Science.gov (United States)

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.

Microbial activity in the terrestrial subsurface

International Nuclear Information System (INIS)

Kaiser, J.P.; Bollag, J.M.

1990-01-01

Little is known about the layers under the earth's crust. Only in recent years have techniques for sampling the deeper subsurface been developed to permit investigation of the subsurface environment. Prevailing conditions in the subsurface habitat such as nutrient availability, soil composition, redox potential, permeability and a variety of other factors can influence the microflora that flourish in a given environment. Microbial diversity varies between geological formations, but in general sandy soils support growth better than soils rich in clay. Bacteria predominate in subsurface sediments, while eukaryotes constitute only 1-2% of the microorganisms. Recent investigations revealed that most uncontaminated subsurface soils support the growth of aerobic heteroorganotrophic bacteria, but obviously anaerobic microorganisms also exist in the deeper subsurface habitat. The microorganisms residing below the surface of the earth are capable of degrading both natural and xenobiotic contaminants and can thereby adapt to growth under polluted conditions. (author) 4 tabs, 77 refs

Microbial diversity in the deep-subsurface hydrothermal aquifer feeding the giant gypsum crystal-bearing Naica mine, Mexico

Directory of Open Access Journals (Sweden)

Marie eRagon

2013-03-01

Full Text Available The Naica mine in Northern Mexico is famous for its giant gypsum crystals, which may reach up to 11 m long and contain fluid inclusions that might have captured microorganisms during their formation. These crystals formed under particularly stable geochemical conditions in cavities filled by low salinity hydrothermal water at 54-58°C. We have explored the microbial diversity associated to these deep, saline hydrothermal waters collected in the deepest (ca. 700-760 m mineshafts by amplifying, cloning and sequencing small-subunit ribosomal RNA genes using primers specific for archaea, bacteria and eukaryotes. Eukaryotes were not detectable in the samples and the prokaryotic diversity identified was very low. Two archaeal operational taxonomic units (OTUs were detected in one sample. They clustered with, respectively, basal Thaumarchaeota lineages and with a large clade of environmental sequences branching at the base of the Thermoplasmatales within the Euryarchaeota. Bacterial sequences belonged to the Candidate Division OP3, Firmicutes and the Alpha- and Beta-Proteobacteria. Most of the lineages detected appear autochthonous to the Naica system, since they had as closest representatives environmental sequences retrieved from deep sediments or the deep subsurface. In addition, the high GC content of 16S rRNA gene sequences belonging to the archaea and to some OP3 OTUs suggests that at least these lineages are thermophilic. Attempts to amplify diagnostic functional genes for methanogenesis (mcrA and sulfate reduction (dsrAB were unsuccessful, suggesting that those activities, if present, are not important in the aquifer. By contrast, genes encoding archaeal ammonium monooxygenase (AamoA were amplified, suggesting that Naica Thaumarchaeota are involved in nitrification. These organisms are likely thermophilic chemolithoautotrophs adapted to thrive in an extremely energy-limited environment.

Microbial diversity in the deep-subsurface hydrothermal aquifer feeding the giant gypsum crystal-bearing Naica Mine, Mexico

Science.gov (United States)

Ragon, Marie; Van Driessche, Alexander E. S.; García-Ruíz, Juan M.; Moreira, David; López-García, Purificación

2013-01-01

The Naica Mine in northern Mexico is famous for its giant gypsum crystals, which may reach up to 11 m long and contain fluid inclusions that might have captured microorganisms during their formation. These crystals formed under particularly stable geochemical conditions in cavities filled by low salinity hydrothermal water at 54–58°C. We have explored the microbial diversity associated to these deep, saline hydrothermal waters collected in the deepest (ca. 700–760 m) mineshafts by amplifying, cloning and sequencing small-subunit ribosomal RNA genes using primers specific for archaea, bacteria, and eukaryotes. Eukaryotes were not detectable in the samples and the prokaryotic diversity identified was very low. Two archaeal operational taxonomic units (OTUs) were detected in one sample. They clustered with, respectively, basal Thaumarchaeota lineages and with a large clade of environmental sequences branching at the base of the Thermoplasmatales within the Euryarchaeota. Bacterial sequences belonged to the Candidate Division OP3, Firmicutes and the Alpha- and Beta-proteobacteria. Most of the lineages detected appear autochthonous to the Naica system, since they had as closest representatives environmental sequences retrieved from deep sediments or the deep subsurface. In addition, the high GC content of 16S rRNA gene sequences belonging to the archaea and to some OP3 OTUs suggests that at least these lineages are thermophilic. Attempts to amplify diagnostic functional genes for methanogenesis (mcrA) and sulfate reduction (dsrAB) were unsuccessful, suggesting that those activities, if present, are not important in the aquifer. By contrast, genes encoding archaeal ammonium monooxygenase (AamoA) were amplified, suggesting that Naica Thaumarchaeota are involved in nitrification. These organisms are likely thermophilic chemolithoautotrophs adapted to thrive in an extremely energy-limited environment. PMID:23508882

Final report - Microbial pathways for the reduction of mercury in saturated subsurface sediments

Energy Technology Data Exchange (ETDEWEB)

Tamar barkay; Lily Young; Gerben Zylstra

2009-08-25

Mercury is a component of mixed wastes that have contaminated vast areas of the deep subsurface as a result of nuclear weapon and energy production. While this mercury is mostly bound to soil constituents episodes of groundwater contamination are known in some cases resulting in potable water super saturated with Hg(0). Microbial processes that reduce Hg(II) to the elemental form Hg(0) in the saturated subsurface sediments may contribute to this problem. When we started the project, only one microbial pathway for the reduction of Hg(II), the one mediated by the mer operon in mercury resistant bacteria was known. As we had previously demonstrated that the mer mediated process occurred in highly contaminated environments (Schaefer et al., 2004), and mercury concentrations in the subsurface were reported to be low (Krabbenhoft and Babiarz, 1992), we hypothesized that other microbial processes might be active in reducing Hg(II) to Hg(0) in saturated subsurface environments. The specific goals of our projects were: (1) Investigating the potential for Hg(II) reduction under varying electron accepting conditions in subsurface sediments and relating these potential to mer gene distribution; and (2) Examining the physiological and biochemical characteristics of the interactions of anaerobic bacteria with mercury. The results are briefly summarized with references to published papers and manuscripts in preparation where details about our research can be found. Additional information may be found in copies of our published manuscripts and conference proceedings, and our yearly reports that were submitted through the RIMS system.

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

Science.gov (United States)

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.

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

Science.gov (United States)

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

Microbial redox processes in deep subsurface environments and the potential application of (perchlorate in oil reservoirs

Directory of Open Access Journals (Sweden)

Martin G Liebensteiner

2014-09-01

Full Text Available 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 (perchlorate] reduction in oil reservoirs will be discussed. Special attention is given to elevated temperatures that are predominant in the deep subsurface. Microbial reduction of (perchlorate is a thermodynamically favorable redox process, also at high temperature. However, knowledge about (perchlorate 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 (metagenome databases and combining this knowledge with extrapolations to earlier-made physiological observations we speculate on the potential of (perchlorate reduction in the subsurface and more precisely oil fields. In addition, the application of (perchlorate for bioremediation, souring control and microbial enhanced oil recovery are addressed.

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

Science.gov (United States)

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 86% coverage. The populations were dominated by Proteobacteria, Candidate divisions, unclassified archaea and unclassified bacteria. The estimated genome sizes of the biosphere. The data were finally used to create a combined metabolic model of the deep terrestrial biosphere microbial community.

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

Energy Technology Data Exchange (ETDEWEB)

Moser, Duane P.; Bruckner, Jim; Fisher, Jen; Czerwinski, Ken; Russell, Charles E.; Zavarin, Mavrik

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 and 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.

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

Energy Technology Data Exchange (ETDEWEB)

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

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 and 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.

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

International Nuclear Information System (INIS)

Moser, Duane P.; Bruckner, Jim; Fisher, Jen; Czerwinski, Ken; Russell, Charles E.; Zavarin, Mavrik

2010-01-01

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 and 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 H 2 and SO 4 2- 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.

Deep subsurface drip irrigation using coal-bed sodic water: part II. geochemistry

Science.gov (United States)

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.

Microbial colonisation in diverse surface soil types in Surtsey and diversity analysis of its subsurface microbiota

Science.gov (United States)

Marteinsson, V.; Klonowski, A.; Reynisson, E.; Vannier, P.; Sigurdsson, B. D.; Ólafsson, M.

2014-09-01

Colonisation of life on Surtsey has been observed systematically since the formation of the island 50 years ago. Although the first colonisers were prokaryotes, such as bacteria and blue-green algae, most studies have been focusing on settlement of plants and animals but less on microbial succession. To explore microbial colonization in diverse soils and the influence of associate vegetation and birds on numbers of environmental bacteria, we collected 45 samples from different soils types on the surface of the island. Total viable bacterial counts were performed with plate count at 22, 30 and 37 °C for all soils samples and the amount of organic matter and nitrogen (N) was measured. Selected samples were also tested for coliforms, faecal coliforms aerobic and anaerobic bacteria. The deep subsurface biosphere was investigated by collecting liquid subsurface samples from a 182 m borehole with a special sampler. Diversity analysis of uncultivated biota in samples was performed by 16S rRNA gene sequences analysis and cultivation. Correlation was observed between N deficits and the number of microorganisms in surface soils samples. The lowest number of bacteria (1 × 104-1 × 105 g-1) was detected in almost pure pumice but the count was significant higher (1 × 106-1 × 109 g-1) in vegetated soil or pumice with bird droppings. The number of faecal bacteria correlated also to the total number of bacteria and type of soil. Bacteria belonging to Enterobacteriaceae were only detected in vegetated and samples containing bird droppings. The human pathogens Salmonella, Campylobacter and Listeria were not in any sample. Both thermophilic bacteria and archaea 16S rDNA sequences were found in the subsurface samples collected at 145 m and 172 m depth at 80 °C and 54 °C, respectively, but no growth was observed in enrichments. The microbiota sequences generally showed low affiliation to any known 16S rRNA gene sequences.

The diversity of PAH-degrading bacteria in a deep-sea water column above the Southwest Indian Ridge

Science.gov (United States)

Yuan, Jun; Lai, Qiliang; Sun, Fengqin; Zheng, Tianling; Shao, Zongze

2015-01-01

The bacteria involved in organic pollutant degradation in pelagic deep-sea environments are largely unknown. In this report, the diversity of polycyclic aromatic hydrocarbon (PAH)-degrading bacteria was analyzed in deep-sea water on the Southwest Indian Ridge (SWIR). After enrichment with a PAH mixture (phenanthrene, anthracene, fluoranthene, and pyrene), nine bacterial consortia were obtained from depths of 3946–4746 m. While the consortia degraded all four PAHs when supplied in a mixture, when PAHs were tested individually, only phenanthrene supported growth. Thus, degradation of the PAH mixture reflected a cometabolism of anthracene, fluoranthene, and pyrene with phenanthrene. Further, both culture-dependent and independent methods revealed many new bacteria involved in PAH degradation. Specifically, the alpha and gamma subclasses of Proteobacteria were confirmed as the major groups within the communities. Additionally, Actinobacteria, the CFB group and Firmicutes were detected. Denaturing Gradient Gel Electrophoresis (DGGE) analysis showed that bacteria closely affiliated with Alcanivorax, Novosphingobium, and Rhodovulum occurred most frequently in different PAH-degrading consortia. By using general heterotrophic media, 51 bacteria were isolated from the consortia and of these 34 grew with the PAH mixture as a sole carbon source. Of these, isolates most closely related to Alterierythrobacter, Citricella, Erythrobacter, Idiomarina, Lutibacterium, Maricaulis, Marinobacter, Martelella, Pseudidiomarina, Rhodobacter, Roseovarius, Salipiger, Sphingopyxis, and Stappia were found to be PAH degraders. To the best of our knowledge, this is the first time these bacteria have been identified in this context. In summary, this report revealed significant diversity among the PAH-degrading bacteria in the deep-sea water column. These bacteria may play a role in PAH removal in deep-sea environments. PMID:26379634

The diversity of PAH-degrading bacteria in a deep-sea water column above the Southwest Indian Ridge.

Science.gov (United States)

Yuan, Jun; Lai, Qiliang; Sun, Fengqin; Zheng, Tianling; Shao, Zongze

2015-01-01

The bacteria involved in organic pollutant degradation in pelagic deep-sea environments are largely unknown. In this report, the diversity of polycyclic aromatic hydrocarbon (PAH)-degrading bacteria was analyzed in deep-sea water on the Southwest Indian Ridge (SWIR). After enrichment with a PAH mixture (phenanthrene, anthracene, fluoranthene, and pyrene), nine bacterial consortia were obtained from depths of 3946-4746 m. While the consortia degraded all four PAHs when supplied in a mixture, when PAHs were tested individually, only phenanthrene supported growth. Thus, degradation of the PAH mixture reflected a cometabolism of anthracene, fluoranthene, and pyrene with phenanthrene. Further, both culture-dependent and independent methods revealed many new bacteria involved in PAH degradation. Specifically, the alpha and gamma subclasses of Proteobacteria were confirmed as the major groups within the communities. Additionally, Actinobacteria, the CFB group and Firmicutes were detected. Denaturing Gradient Gel Electrophoresis (DGGE) analysis showed that bacteria closely affiliated with Alcanivorax, Novosphingobium, and Rhodovulum occurred most frequently in different PAH-degrading consortia. By using general heterotrophic media, 51 bacteria were isolated from the consortia and of these 34 grew with the PAH mixture as a sole carbon source. Of these, isolates most closely related to Alterierythrobacter, Citricella, Erythrobacter, Idiomarina, Lutibacterium, Maricaulis, Marinobacter, Martelella, Pseudidiomarina, Rhodobacter, Roseovarius, Salipiger, Sphingopyxis, and Stappia were found to be PAH degraders. To the best of our knowledge, this is the first time these bacteria have been identified in this context. In summary, this report revealed significant diversity among the PAH-degrading bacteria in the deep-sea water column. These bacteria may play a role in PAH removal in deep-sea environments.

Coupling genetic and chemical microbiome profiling reveals heterogeneity of archaeome and bacteriome in subsurface biofilms that are dominated by the same archaeal species.

Directory of Open Access Journals (Sweden)

Alexander J Probst

Full Text Available 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.

Subsurface Hybrid Power Options for Oil & Gas Production at Deep Ocean Sites

Energy Technology Data Exchange (ETDEWEB)

Farmer, J C; Haut, R; Jahn, G; Goldman, J; Colvin, J; Karpinski, A; Dobley, A; Halfinger, J; Nagley, S; Wolf, K; Shapiro, A; Doucette, P; Hansen, P; Oke, A; Compton, D; Cobb, M; Kopps, R; Chitwood, J; Spence, W; Remacle, P; Noel, C; Vicic, J; Dee, R

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. 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.

Isolation and identification of bacteria able to form biofilms from deep subsurface environments

International Nuclear Information System (INIS)

Sakurai, Kenta; Yoshikawa, Hideki

2012-01-01

Migration radionuclides in an underground environment are one of the major concerns in the safety assessment of a geological repository. Biofilms can have an impact on the transport of radionuclides in several ways: (1) by acting as a barrier to radionuclide sorption onto geological surfaces, or (2) by providing a sorption site for radionuclides, or (3) by trapping many things, including radionuclides. Little is known about bacterial effects on the biofilm formation deep underground. In this study, we isolated bacterial strains from deep groundwater and evaluated the biofilm formation abilities of these strains by crystal violet assay. Bacterial strains were isolated from ground-water collected at -140 m in the 07-V140-M01 borehole at the Horonobe Underground Research Center, Japan. The crystal violet assay showed that 98% of the isolated strains had biofilm formation abilities under tested conditions. This result suggested that biofilm formation must not be neglected in the study of migration radionuclides in nuclear waste repositories. The isolated strains produced differential amounts of biofilm, although they were identified as the same Pseudomonas species, suggesting that biofilm formation abilities varied at different strain levels. These results support the conclusion that the assessment of biofilm impact on the transport of radionuclides in a geological repository must consider the variation in biofilm formation as a function of strain level. (author)

A nanovehicle developed for treating deep-seated bacteria using low-dose X-ray.

Science.gov (United States)

Pan, Chien-Lin; Chen, Ming-Hong; Tung, Fu-I; Liu, Tse-Ying

2017-01-01

Many non-antibiotic strategies, such as photocatalysis and photodynamic therapy, have been proposed to inhibit and/or kill bacteria. However, these approaches still have drawbacks such as insufficient bacterial specificity and the limited penetration depth of ultraviolet and near-infrared light. To overcome these limitations, we developed a bacteria-specific anti-bacterial technique via using low-dose X-ray. Graphene oxide quantum dots (GQDs, a multifunctional vehicle) conjugated with vancomycin (Van, a bacteria-targeting ligand) were assembled with Protoporphyrin IX (PpIX, a photo/radiation sensitizer) to yield a novel Van-GQDs/PpIX complex that specifically attached to Escherichia coli and efficiently generated intracellular reactive oxygen species following X-ray activation. Delivery using GQDs increased the PpIX/Van ratio in the target bacterial cell, damaged bacterial cell wall, and enhanced X-ray-induced PpIX activation. Hence, this approach allowed for the use of a low-dose X-ray to efficiently activate the Van-GQDs/PpIX complex to exert its bactericidal effects on Escherichia coli without damaging normal cells. Furthermore, the E. coli did not develop resistance to the proposed approach for at least 7 rounds of repeated administration during one week. Thus, this proposed vehicle exhibiting bacteria-specific X-ray-triggered toxicity is a promising alternative to antibiotics for treating serious bacterial infections occurring in deep-seated tissues/organs (e.g., osteomyelitis and peritonitis). Administration of antibiotics is the most common treatment modality for bacterial infections. However, in some cases, patient attributes such as age, health, tolerance to antibiotics do not allow for the use of high-dose antibiotics. In addition, some bacteria develop resistance to antibiotics because of improper and long-term use of these agents. Therefore, non-antibiotic strategies to treat deeply situated bacterial infections, such as osteomyelitis, are urgently

The Serpentinite Subsurface Microbiome

Science.gov (United States)

Schrenk, M. O.; Nelson, B. Y.; Brazelton, W. J.

2011-12-01

Microbial habitats hosted in ultramafic rocks constitute substantial, globally-distributed portions of the subsurface biosphere, occurring both on the continents and beneath the seafloor. The aqueous alteration of ultramafics, in a process known as serpentinization, creates energy rich, high pH conditions, with low concentrations of inorganic carbon which place fundamental constraints upon microbial metabolism and physiology. Despite their importance, very few studies have attempted to directly access and quantify microbial activities and distributions in the serpentinite subsurface microbiome. We have initiated microbiological studies of subsurface seeps and rocks at three separate continental sites of serpentinization in Newfoundland, Italy, and California and compared these results to previous analyses of the Lost City field, near the Mid-Atlantic Ridge. In all cases, microbial cell densities in seep fluids are extremely low, ranging from approximately 100,000 to less than 1,000 cells per milliliter. Culture-independent analyses of 16S rRNA genes revealed low-diversity microbial communities related to Gram-positive Firmicutes and hydrogen-oxidizing bacteria. Interestingly, unlike Lost City, there has been little evidence for significant archaeal populations in the continental subsurface to date. Culturing studies at the sites yielded numerous alkaliphilic isolates on nutrient-rich agar and putative iron-reducing bacteria in anaerobic incubations, many of which are related to known alkaliphilic and subsurface isolates. Finally, metagenomic data reinforce the culturing results, indicating the presence of genes associated with organotrophy, hydrogen oxidation, and iron reduction in seep fluid samples. Our data provide insight into the lifestyles of serpentinite subsurface microbial populations and targets for future quantitative exploration using both biochemical and geochemical approaches.

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

Science.gov (United States)

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

Archaeal Viruses Contribute to the Novel Viral Assemblage Inhabiting Oceanic, Basalt-Hosted Deep Subsurface Crustal Fluids

Science.gov (United States)

Nigro, O. D.; Rappe, M. S.; Jungbluth, S.; Lin, H. T.; Steward, G.

2015-12-01

Fluids contained in the basalt-hosted deep subsurface of the world's oceans represent one of the most inaccessible and understudied biospheres on earth. Recent improvements in sampling infrastructure have allowed us to collect large volumes of crustal fluids (~104 L) from Circulation Obviation Retrofit Kits (CORKs) placed in boreholes located on the eastern flank of the Juan de Fuca Ridge (JdFR). We detected viruses within these fluids by TEM and epifluorescence microscopy in samples collected from 2010 to 2014. Viral abundance, determined by epifluorescence counts, indicated that concentrations of viruses in subsurface basement fluids (~105 ml-1) are lower than the overlying seawater, but are higher in abundance than microbial cells in the same samples. Analysis of TEM images revealed distinct viral morphologies (rod and spindle-shaped) that resemble the morphologies of viral families infecting archaea. There are very few, if any, direct observations of these viral morphologies in marine samples, although they have been observed in enrichment cultures and their signature genes detected in metagenomic studies from hydrothermal vents and marine sediments. Analysis of metagenomes from the JdFR crustal fluids revealed sequences with homology to archaeal viruses from the rudiviridae, bicaudaviridae and fuselloviridae. Prokaryotic communities in fluids percolating through the basaltic basement rock of the JdFR flank are distinct from those inhabiting the overlying sediments and seawater. Similarly, our data support the idea that the viral assemblage in these fluids is distinct from viral assemblages in other marine and terrestrial aquatic environments. Our data also suggest that viruses contribute to the mortality of deep subsurface prokaryotes through cell lysis, and viruses may alter the genetic potential of their hosts through the processes of lysogenic conversion and horizontal gene transfer.

Molecular diversity of bacterial communities from subseafloor rock samples in a deep-water production basin in Brazil.

Science.gov (United States)

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.

Deep Subsurface Microbial Communities Shaped by the Chicxulub Impactor

Science.gov (United States)

Cockell, C. S.; Coolen, M.; Schaefer, B.; Grice, K.; Gulick, S. P. S.; Morgan, J. V.; Kring, D. A.; Osinski, G.

2017-12-01

. These data show that the deep biosphere can preserve the imprint of catastrophe long after these events. In this case, the distribution of deep subsurface microbial communities reflects the lithological sequence established during the substantial impact-induced geological rearrangements that occurred in the first hours of the Cenozoic.

Integrated geomechanical modelling at TNO for assessement of deep subsurface risks

NARCIS (Netherlands)

Orlic, B.; Fokker, P.; Zijl, W.; Scheffers, B.

2001-01-01

Public authorities, E & P and the mining industry increasingly demand fundamental insight and accurate predictions on subsurface and surface deformation and damage due to exploitation of subsurface natural resources, and subsurface storage of energy residues (e.g. CO2). At this moment deformation is

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

Science.gov (United States)

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

Microbiological characterization of deep geological compartments

International Nuclear Information System (INIS)

Barsotti, V.; Sergeant, C.; Vesvres, M.H.; Coulon, S.; Joulian, C.; Garrido, F.; Ollivier, B.

2012-01-01

Document available in extended abstract form only. Microbial life in deep sediments and Earth's crust is now acknowledged by the scientific world. The deep subsurface biosphere contributes significantly to fundamental biogeochemical processes. However, despite great advances in geo-microbiological studies, deep terrestrial ecosystems are microbiologically poorly understood, mainly due to their inaccessibility. The drilling down to the base of the Triassic (1980 meters deep) in the geological formations of the eastern Paris Basin performed by ANDRA (EST433) in 2008 provides us a good opportunity to explore the deep biosphere. We conditioned the samples on the coring site, in as aseptic conditions as possible. In addition to storage at atmospheric pressure, a portion of the four Triassic samples was placed in a 190 bars pressurized chamber to investigate the influence of the conservation pressure factor on the found microflora. In parallel, in order to evaluate a potential bacterial contamination of the cores by the drilling fluids, samples of mud just before each sample drilling were taken and analyzed. The microbial exploration can be divided in two parts: - A cultural approach in different culture media for metabolic groups as methanogens, fermenters and sulphate reducing bacteria to stimulate their growth and to isolate microbial cells still viable. - A molecular approach by direct extraction of genomic DNA from the geological samples to explore a larger biodiversity. The limits are here the difficulties to extract DNA from these low biomass containing rocks. After comparison and optimization of several DNA extraction methods, the bacterial diversity present in rock cores was analyzed using DGGE (Denaturating Gel Gradient Electrophoresis) and cloning. The detailed results of all these investigations will be presented: - Despite all 400 cultural conditions experimented (with various media, salinities, temperatures, conservation pressure, agitation), no viable and

Genomic and Phylogenetic Characterization of Luminous Bacteria Symbiotic with the Deep-Sea Fish Chlorophthalmus albatrossis (Aulopiformes: Chlorophthalmidae)

OpenAIRE

Dunlap, Paul V.; Ast, Jennifer C.

2005-01-01

Bacteria forming light-organ symbiosis with deep-sea chlorophthalmid fishes (Aulopiformes: Chlorophthalmidae) are considered to belong to the species Photobacterium phosphoreum. The identification of these bacteria as P. phosphoreum, however, was based exclusively on phenotypic traits, which may not discriminate between phenetically similar but evolutionarily distinct luminous bacteria. Therefore, to test the species identification of chlorophthalmid symbionts, we carried out a genomotypic (r...

Contaminated environments in the subsurface and bioremediation: organic contaminants

OpenAIRE

Holliger, Christof; Gaspard, Sarra; Glod, Guy; Heijman, Cornelis; Schumacher, Wolfram; Schwarzenbach, René P.; Vazquez, Francisco

2017-01-01

Due to leakages, spills, improper disposal and accidents during transport, organic compounds have become subsurface contaminants that threaten important drinking water resources. One strategy to remediate such polluted subsurface environments is to make use of the degradative capacity of bacteria. It is often sufficient to supply the subsurface with nutrients such as nitrogen and phosphorus, and aerobic treatments are still dominating. However, anaerobic processes have advantages such as low ...

Characterization and genome analysis of the first facultatively alkaliphilic Thermodesulfovibrio isolated from the deep terrestrial subsurface

Directory of Open Access Journals (Sweden)

Yulia Frank

2016-12-01

Full Text Available Members of the genus Thermodesulfovibrio belong to the Nitrospirae phylum and all isolates characterized to date are neutrophiles. They have been isolated from terrestrial hot springs and thermophilic methanogenic anaerobic sludges. Their molecular signatures have, however, also been detected in deep subsurface. The purpose of this study was to characterize and analyze the genome of a newly isolated, moderately alkaliphilic Thermodesulfovibrio from a 2 km deep aquifer system in Western Siberia, Russia. The new isolate, designated N1, grows optimally at pH 8.5-9.0 and at 65 ºC. It is able to reduce sulfate, thiosulfate or sulfite with a limited range of electron donors such as formate, pyruvate and lactate. Analysis of the 1.93 Mb draft genome of strain N1 revealed that it contains a set of genes for dissimilatory sulfate reduction, including sulfate adenyltransferase, adenosine-5'-phosphosulfate reductase AprAB, membrane-bound electron transfer complex QmoABC, dissimilatory sulfite reductase DsrABC and sulfite reductase-associated electron transfer complex DsrMKJOP. Hydrogen turnover is enabled by soluble cytoplasmic, membrane-linked, and soluble periplasmic hydrogenases and a periplasmic formate dehydrogenase. The use of thiosulfate as an electron acceptor is enabled by a membrane-linked molybdopterin oxidoreductase. The N1 requirement for organic carbon sources corresponds to the lack of the autotrophic C1-fixation pathways. Comparative analysis of the genomes of Thermodesulfovibrio (T. yellowstonii, T. islandicus, T. аggregans, T. thiophilus, and strain N1 revealed a low overall genetic diversity and several adaptive traits. Consistent with an alkaliphilic lifestyle, a multisubunit Na+/H+ antiporter of the Mnh family is encoded in the Thermodesulfovibrio strain N1 genome. Nitrogenase genes were found in T. yellowstonii, T. aggregans, and T. islandicus, nitrate reductase in T. islandicus, and cellulose synthetase in T. aggregans and strain N

Subsurface Science Program Bibliography, 1985--1992

International Nuclear Information System (INIS)

1992-08-01

The Subsurface Science Program sponsors long-term basic research on (1) the fundamental physical, chemical, and biological mechanisms that control the reactivity, mobilization, stability, and transport of chemical mixtures in subsoils and ground water; (2) hydrogeology, including the hydraulic, microbiological, and geochemical properties of the vadose and saturated zones that control contaminant mobility and stability, including predictive modeling of coupled hydraulic-geochemical-microbial processes; and (3) the microbiology of deep sediments and ground water. TWs research, focused as it is on the natural subsurface environments that are most significantly affected by the more than 40 years of waste generation and disposal at DOE sites, is making important contributions to cleanup of DOE sites. Past DOE waste-disposal practices have resulted in subsurface contamination at DOE sites by unique combinations of radioactive materials and organic and inorganic chemicals (including heavy metals), which make site cleanup particularly difficult. The long- term (10- to 30-year) goal of the Subsurface Science Program is to provide a foundation of fundamental knowledge that can be used to reduce environmental risks and to provide a sound scientific basis for cost-effective cleanup strategies. The Subsurface Science Program is organized into nine interdisciplinary subprograms, or areas of basic research emphasis. The subprograms currently cover the areas of Co-Contaminant Chemistry, Colloids/Biocolloids, Multiphase Fluid Flow, Biodegradation/ Microbial Physiology, Deep Microbiology, Coupled Processes, Field-Scale (Natural Heterogeneity and Scale), and Environmental Science Research Center

Archaea, Bacteria, and Sulfur-Cycling in a Shallow-Sea Hydrothermal Ecosystem

Science.gov (United States)

Amend, J. P.; Huang, C.; Amann, R.; Bach, W.; Meyerdierks, A.; Price, R. E.; Schubotz, F.; Summons, R. E.; Wenzhoefer, F.

2009-12-01

Deep-sea hydrothermal systems are windows to the marine subsurface biosphere. It often is overlooked, however, that their far more accessible shallow-sea counterparts can serve the same purpose. To characterize the extent, diversity, and activity of the subsurface microbial community in the shallow vent ecosystem near Panarea Island (Italy), sediment cores were analyzed with a broad array of analytical techniques. Vent fluid and sediment temperatures reached up to 135 °C, with pHs in porewaters generally measuring 5-6. Microsensor profiles marked a very sharp oxic-anoxic transition, and when coupled to pH and H2S profiles, pointed to aerobic sulfide oxidation. With increasing depth from the sediment-water interface, porewater analyses showed a decrease in sulfate levels from ~30 mM to thermophilic sulfate reducing and acidophilic sulfide oxidizing bacteria. Results from several sites also showed that with increasing depth and temperature, biomass abundance of archaea generally increased relative to that of bacteria. Lastly, DGGE fingerprinting and 16S rRNA clone libraries from several depths at Hot Lake revealed a moderate diversity of bacteria, dominated by Epsilonproteobacteria; this class is known to catalyze both sulfur reduction and oxidation reactions, and to mediate the formation of iron-sulfides, including framboidal pyrite. Archaeal sequences at Hot Lake are dominated by uncultured Thermoplasmatales, plus several sequences in the Korarchaeota.

Remediation of contaminated subsurface materials by a metal-reducing bacterium

International Nuclear Information System (INIS)

Gorby, Y.A.; Amonette, J.E.; Fruchter, J.S.

1994-11-01

A biotic approach for remediating subsurface sediments and groundwater contaminated with carbon tetrachloride (CT) and chromium was evaluated. Cells of the Fe(iii)-reducing bacterium strain BrY were added to sealed, anoxic flasks containing Hanford groundwater, natural subsurface sediments, and either carbon tetrachloride, CT, or oxidized chromium, Cr(VI). With lactate as the electron donor, BrY transformed CT to chloroform (CF), which accumulated to about 1 0 % of the initial concentration of CT. The remainder of the CT was transformed to unidentified, nonvolatile compounds. Transformation of CT by BrY was an indirect process Cells reduced solid phase Fe(ill) to chemically reactive FE(II) that chemically transformed the chlorinated contaminant. Cr(VI), in contrast, was reduced by a direct enzymatic reaction in the presence or absence of Fe(III)-bearing sediments. These results demonstrate that Fe(ill)-reducing bacteria provide potential for transforming CT and for reducing CR(VI) to less toxic Cr(III). Technologies for stimulating indigenous populations of metal-reducing bacteria or for introducing specific metal-reducing bacteria to the subsurface are being investigated

Augmented In Situ Subsurface Bioremediation Process™BIO-REM, Inc. - Demonstration Bulletin

Science.gov (United States)

The Augmented In Situ Subsurface Bioremediation Process™ developed by BIO-REM, Inc., uses microaerophilic bacteria and micronutrients (H-10) and surface tension depressants/penetrants for the treatment of hydrocarbon contaminated soils and groundwater. The bacteria utilize hydroc...

Parametric study on the behavior of an innovative subsurface tension leg platform in ultra-deep water

Science.gov (United States)

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.

Bioremediation potential of toxics by manipulation of deep terrestrial subsurface ecosystems

International Nuclear Information System (INIS)

Phelps, T.J.

1990-01-01

Mixed physiological types of bacteria in consortia recovered from subsurface contaminated sediments degrade mixed organic wastes containing carbon-rich (benzene, xylene, toluene) and halogenated hydrocarbon substrates (chlorobenzene, trichloroethylene, dichloroethylenes, vinyl chloride) in column bioreactors when provided with oxygen and methane and/or propane substrates. In expanded bed bioreactors degradation proceeds to 99% completion for several organic and chlorocarbon contaminants (60% for tetrachloroethylene) to carbon dioxide on repeated cycles in 21 days with little loss of volatiles in the control bioreactor except for a 70% loss of vinyl chloride in the control. Biodegradation is most efficient when the microbial consortia is maintained in a suboptimal nutritional state which can be monitored by ratios of endogenous storage lipid (poly beta-hydroxy alkanoic acid, PHA) to total phospholipid ester-linked fatty acids (PLFA). Under the best conditions the efficiency of biodegradation was 50-65 moles substrate (propane or propane + methane)/mole of TEC degraded. The microbial communities showed a rich diversity of microbes based on PLFA biomarkers. The effects of adding methane and/or propane in inducing specific subsets of the microbial community can readily be detected in the PLFA biomarker. Despite the presence of carbon rich substrates (benzene, toluene, xylene) in the mixed wastes, no evidence of plugging of interstitial spaces by exopolysaccharide was detected

Understanding the subsurface thermal structure of deep sedimentary basins in Denmark - measurements and modelling results

DEFF Research Database (Denmark)

Balling, N.; Poulsen, Søren Erbs; Bording, Thue Sylvester

2015-01-01

Most of the Danish area is characterized by deep sedimentary basins with a great potential for exploitation of geothermal energy. Geothermal reservoirs are present at various depths and temperatures. Currently, three geothermal plants are operating producing warm water for district heating purposes...... of different conductivity. Mean geothermal gradients from surface to depths of 1000 to 3000 m are generally between 20 and 35 °C/km. The subsurface thermal structure is clearly dominated by conduction. Advection by groundwater migration is generally insignificant. Heat flow increases significantly with depth...... due to perturbation from long-term palaeoclimatic surface temperature variations. Examples of modelled temperature distribution for selected geothermal reservoir are shown. In the Gassum Formation, which is present in most of the Danish area, temperatures are largely between 35 and 90 °C for depths...

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

Science.gov (United States)

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

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

Directory of Open Access Journals (Sweden)

Paula Lindgren

2010-07-01

Full Text Available 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

Using GNSS-R techniques to investigate the near sub-surface of Mars with the Deep Space Network

Science.gov (United States)

Elliott, H. M.; Bell, D. J.; Jin, C.; Decrossas, E.; Asmar, S.; Lazio, J.; Preston, R. A.; Ruf, C. S.; Renno, N. O.

2017-12-01

Global Navigation Satellite Systems Reflectometry (GNSS-R) has shown that passive measurements using separate active sources can infer the soil moisture, snow pack depth and other quantities of scientific interest. Here, we expand upon this method and propose that a passive measurement of the sub-surface dielectric profile of Mars can be made by using multipath interference between reflections off the surface and subsurface dielectric discontinuities. This measurement has the ability to reveal changes in the soil water content, the depth of a layer of sand, thickness of a layer of ice, and even identify centimeter-scale layering which may indicate the presence of a sedimentary bed. We have created a numerical ray tracing model to understand the potential of using multipath interference techniques to investigate the sub-surface dielectric properties and structure of Mars. We have further verified this model using layered beds of sand and concrete in laboratory experiments and then used the model to extrapolate how this technique may be applied to future Mars missions. We will present new results demonstrating how to characterize a multipath interference patterns as a function of frequency and/or incidence angle to measure the thickness of a dielectric layer of sand or ice. Our results demonstrate that dielectric discontinuities in the subsurface can be measured using this passive sensing technique and it could be used to effectively measure the thickness of a dielectric layer in the proximity of a landed spacecraft. In the case of an orbiter, we believe this technique would be effective at measuring the seasonal thickness of CO2 ice in the Polar Regions. This is exciting because our method can produce similar results to traditional ground penetrating radars without the need to have an active radar transmitter in-situ. Therefore, it is possible that future telecommunications systems can serve as both a radio and a scientific instrument when used in conjunction with

Physiologically anaerobic microorganisms of the deep subsurface

Energy Technology Data Exchange (ETDEWEB)

Stevens, S.E. Jr.; Chung, K.T.

1991-06-01

This study seeks to determine numbers, diversity, and morphology of anaerobic microorganisms in 15 samples of subsurface material from the Idaho National Engineering Laboratory, in 18 samples from the Hanford Reservation and in 1 rock sample from the Nevada Test Site; set up long term experiments on the chemical activities of anaerobic microorganisms based on these same samples; work to improve methods for the micro-scale determination of in situ anaerobic microbial activity;and to begin to isolate anaerobes from these samples into axenic culture with identification of the axenic isolates.

Relevance of deep-subsurface microbiology for underground gas storage and geothermal energy production.

Science.gov (United States)

Gniese, Claudia; Bombach, Petra; Rakoczy, Jana; Hoth, Nils; Schlömann, Michael; Richnow, Hans-Hermann; Krüger, Martin

2014-01-01

This chapter gives the reader an introduction into the microbiology of deep geological systems with a special focus on potential geobiotechnological applications and respective risk assessments. It has been known for decades that microbial activity is responsible for the degradation or conversion of hydrocarbons in oil, gas, and coal reservoirs. These processes occur in the absence of oxygen, a typical characteristic of such deep ecosystems. The understanding of the responsible microbial processes and their environmental regulation is not only of great scientific interest. It also has substantial economic and social relevance, inasmuch as these processes directly or indirectly affect the quantity and quality of the stored oil or gas. As outlined in the following chapter, in addition to the conventional hydrocarbons, new interest in such deep subsurface systems is rising for different technological developments. These are introduced together with related geomicrobiological topics. The capture and long-termed storage of large amounts of carbon dioxide, carbon capture and storage (CCS), for example, in depleted oil and gas reservoirs, is considered to be an important options to mitigate greenhouse gas emissions and global warming. On the other hand, the increasing contribution of energy from natural and renewable sources, such as wind, solar, geothermal energy, or biogas production leads to an increasing interest in underground storage of renewable energies. Energy carriers, that is, biogas, methane, or hydrogen, are often produced in a nonconstant manner and renewable energy may be produced at some distance from the place where it is needed. Therefore, storing the energy after its conversion to methane or hydrogen in porous reservoirs or salt caverns is extensively discussed. All these developments create new research fields and challenges for microbiologists and geobiotechnologists. As a basis for respective future work, we introduce the three major topics, that is

Subsurface transport program: Research summary

International Nuclear Information System (INIS)

1987-01-01

DOE's research program in subsurface transport is designed to provide a base of fundamental scientific information so that the geochemical, hydrological, and biological mechanisms that contribute to the transport and long term fate of energy related contaminants in subsurface ecosystems can be understood. Understanding the physical and chemical mechanisms that control the transport of single and co-contaminants is the underlying concern of the program. Particular attention is given to interdisciplinary research and to geosphere-biosphere interactions. The scientific results of the program will contribute to resolving Departmental questions related to the disposal of energy-producing and defense wastes. The background papers prepared in support of this document contain additional information on the relevance of the research in the long term to energy-producing technologies. Detailed scientific plans and other research documents are available for high priority research areas, for example, in subsurface transport of organic chemicals and mixtures and in the microbiology of deep aquifers. 5 figs., 1 tab

Scenario simulation based assessment of subsurface energy storage

Science.gov (United States)

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

Microbial Diversity in Hydrothermal Surface to Sub-surface Environment of Suiyo Seamount

Science.gov (United States)

Higashi, Y.; Sunamura, M.; Kitamura, K.; Kurusu, Y.; Nakamura, K.; Maruyama, A.

2002-12-01

After excavation trials to a hydrothermal subsurface biosphere of the Suiyo Seamount, Izu-Bonin Arc, microbial diversity was examined using samples collected from drilled boreholes and natural vents with an catheter-type in situ microbial entrapment/incubator. This instrument consisted of a heat-tolerant cylindrical pipe with entrapment of a titanium-mesh capsule, containing sterilized inorganic porous grains, on the tip. After 3-10 day deployment in venting fluids with the maximum temperatures from 156 to 305degC, Microbial DNA was extracted from the grains and a 16S rDNA region was amplified and sequenced. Through the phylogenetic analysis of total 72 Bacteria and 30 Archaea clones, we found three novel phylogenetic groups in this hydrothermal surface to subsurface biosphere. Some new clades within the epsilon-Proteobacteria, which seemed to be microaerophilic, moderate thermophilic, and/or sulfur oxidizing, were detected. Clones related to moderate thermophilic and photosynthetic microbes were found in grain-attached samples at collapsed borehole and natural vent sites. We also detected a new clade closely related to a hyperthermophilic Archaea, Methanococcus jannashii, which has the capability of growing autotrophically on hydrogen and producing methane. However, the later two phylogroups were estimated as below a detection limit in microscopic cell counting, i.e., fluorescence in situ hybridization and direct counting. Most of microbes in venting fluids were assigned to be Bacteria, but difficult in specifying them using any known probes. The environment must be notable in microbial and genetic resources, while the ecosystem seems to be mainly supported by chemosynthetic products through the microbial sulfur oxidation, as in most deep-sea hydrothermal systems.

Microbial Dark Matter: Unusual intervening sequences in 16S rRNA genes of candidate phyla from the deep subsurface

Energy Technology Data Exchange (ETDEWEB)

Jarett, Jessica; Stepanauskas, Ramunas; Kieft, Thomas; Onstott, Tullis; Woyke, Tanja

2014-03-17

The Microbial Dark Matter project has sequenced genomes from over 200 single cells from candidate phyla, greatly expanding our knowledge of the ecology, inferred metabolism, and evolution of these widely distributed, yet poorly understood lineages. The second phase of this project aims to sequence an additional 800 single cells from known as well as potentially novel candidate phyla derived from a variety of environments. In order to identify whole genome amplified single cells, screening based on phylogenetic placement of 16S rRNA gene sequences is being conducted. Briefly, derived 16S rRNA gene sequences are aligned to a custom version of the Greengenes reference database and added to a reference tree in ARB using parsimony. In multiple samples from deep subsurface habitats but not from other habitats, a large number of sequences proved difficult to align and therefore to place in the tree. Based on comparisons to reference sequences and structural alignments using SSU-ALIGN, many of these ?difficult? sequences appear to originate from candidate phyla, and contain intervening sequences (IVSs) within the 16S rRNA genes. These IVSs are short (39 - 79 nt) and do not appear to be self-splicing or to contain open reading frames. IVSs were found in the loop regions of stem-loop structures in several different taxonomic groups. Phylogenetic placement of sequences is strongly affected by IVSs; two out of three groups investigated were classified as different phyla after their removal. Based on data from samples screened in this project, IVSs appear to be more common in microbes occurring in deep subsurface habitats, although the reasons for this remain elusive.

Methods and Techniques of Sampling, Culturing and Identifying of Subsurface Bacteria

International Nuclear Information System (INIS)

Lee, Seung Yeop; Baik, Min Hoon

2010-11-01

This report described sampling, culturing and identifying of KURT underground bacteria, which existed as iron-, manganese-, and sulfate-reducing bacteria. The methods of culturing and media preparation were different by bacteria species affecting bacteria growth-rates. It will be possible for the cultured bacteria to be used for various applied experiments and researches in the future

A minimalistic microbial food web in an excavated deep subsurface clay rock.

Science.gov (United States)

Bagnoud, Alexandre; de Bruijn, Ino; Andersson, Anders F; Diomidis, Nikitas; Leupin, Olivier X; Schwyn, Bernhard; Bernier-Latmani, Rizlan

2016-01-01

Clay rocks are being considered for radioactive waste disposal, but relatively little is known about the impact of microbes on the long-term safety of geological repositories. Thus, a more complete understanding of microbial community structure and function in these environments would provide further detail for the evaluation of the safety of geological disposal of radioactive waste in clay rocks. It would also provide a unique glimpse into a poorly studied deep subsurface microbial ecosystem. Previous studies concluded that microorganisms were present in pristine Opalinus Clay, but inactive. In this work, we describe the microbial community and assess the metabolic activities taking place within borehole water. Metagenomic sequencing and genome-binning of a porewater sample containing suspended clay particles revealed a remarkably simple heterotrophic microbial community, fueled by sedimentary organic carbon, mainly composed of two organisms: a Pseudomonas sp. fermenting bacterium growing on organic macromolecules and releasing organic acids and H2, and a sulfate-reducing Peptococcaceae able to oxidize organic molecules to CO(2). In Opalinus Clay, this microbial system likely thrives where pore space allows it. In a repository, this may occur where the clay rock has been locally damaged by excavation or in engineered backfills. © FEMS 2015. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Hydraulic fracturing offers view of microbial life in the deep terrestrial subsurface.

Science.gov (United States)

Mouser, Paula J; Borton, Mikayla; Darrah, Thomas H; Hartsock, Angela; Wrighton, Kelly C

2016-11-01

Horizontal drilling and hydraulic fracturing are increasingly used for recovering energy resources in black shales across the globe. Although newly drilled wells are providing access to rocks and fluids from kilometer depths to study the deep biosphere, we have much to learn about microbial ecology of shales before and after 'fracking'. Recent studies provide a framework for considering how engineering activities alter this rock-hosted ecosystem. We first provide data on the geochemical environment and microbial habitability in pristine shales. Next, we summarize data showing the same pattern across fractured shales: diverse assemblages of microbes are introduced into the subsurface, eventually converging to a low diversity, halotolerant, bacterial and archaeal community. Data we synthesized show that the shale microbial community predictably shifts in response to temporal changes in geochemistry, favoring conservation of key microorganisms regardless of inputs, shale location or operators. We identified factors that constrain diversity in the shale and inhibit biodegradation at the surface, including salinity, biocides, substrates and redox. Continued research in this engineered ecosystem is required to assess additive biodegradability, quantify infrastructure biocorrosion, treat wastewaters that return to the surface and potentially enhance energy production through in situ methanogenesis. © FEMS 2016. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Energy Gradients Structure Microbial Communities Across Sediment Horizons in Deep Marine Sediments of the South China Sea

Science.gov (United States)

Graw, Michael F.; D'Angelo, Grace; Borchers, Matthew; Thurber, Andrew R.; Johnson, Joel E.; Zhang, Chuanlun; Liu, Haodong; Colwell, Frederick S.

2018-01-01

The deep marine subsurface is a heterogeneous environment in which the assembly of microbial communities is thought to be controlled by a combination of organic matter deposition, electron acceptor availability, and sedimentology. However, the relative importance of these factors in structuring microbial communities in marine sediments remains unclear. The South China Sea (SCS) experiences significant variability in sedimentation across the basin and features discrete changes in sedimentology as a result of episodic deposition of turbidites and volcanic ashes within lithogenic clays and siliceous or calcareous ooze deposits throughout the basin's history. Deep subsurface microbial communities were recently sampled by the International Ocean Discovery Program (IODP) at three locations in the SCS with sedimentation rates of 5, 12, and 20 cm per thousand years. Here, we used Illumina sequencing of the 16S ribosomal RNA gene to characterize deep subsurface microbial communities from distinct sediment types at these sites. Communities across all sites were dominated by several poorly characterized taxa implicated in organic matter degradation, including Atribacteria, Dehalococcoidia, and Aerophobetes. Sulfate-reducing bacteria comprised only 4% of the community across sulfate-bearing sediments from multiple cores and did not change in abundance in sediments from the methanogenic zone at the site with the lowest sedimentation rate. Microbial communities were significantly structured by sediment age and the availability of sulfate as an electron acceptor in pore waters. However, microbial communities demonstrated no partitioning based on the sediment type they inhabited. These results indicate that microbial communities in the SCS are structured by the availability of electron donors and acceptors rather than sedimentological characteristics. PMID:29696012

Genomic and phylogenetic characterization of luminous bacteria symbiotic with the deep-sea fish Chlorophthalmus albatrossis (Aulopiformes: Chlorophthalmidae).

Science.gov (United States)

Dunlap, Paul V; Ast, Jennifer C

2005-02-01

Bacteria forming light-organ symbiosis with deep-sea chlorophthalmid fishes (Aulopiformes: Chlorophthalmidae) are considered to belong to the species Photobacterium phosphoreum. The identification of these bacteria as P. phosphoreum, however, was based exclusively on phenotypic traits, which may not discriminate between phenetically similar but evolutionarily distinct luminous bacteria. Therefore, to test the species identification of chlorophthalmid symbionts, we carried out a genomotypic (repetitive element palindromic PCR genomic profiling) and phylogenetic analysis on strains isolated from the perirectal light organ of Chlorophthalmus albatrossis. Sequence analysis of the 16S rRNA gene of 10 strains from 5 fish specimens placed these bacteria in a cluster related to but phylogenetically distinct from the type strain of P. phosphoreum, ATCC 11040(T), and the type strain of Photobacterium iliopiscarium, ATCC 51760(T). Analysis of gyrB resolved the C. albatrossis strains as a strongly supported clade distinct from P. phosphoreum and P. iliopiscarium. Genomic profiling of 109 strains from the 5 C. albatrossis specimens revealed a high level of similarity among strains but allowed identification of genomotypically different types from each fish. Representatives of each type were then analyzed phylogenetically, using sequence of the luxABFE genes. As with gyrB, analysis of luxABFE resolved the C. albatrossis strains as a robustly supported clade distinct from P. phosphoreum. Furthermore, other strains of luminous bacteria reported as P. phosphoreum, i.e., NCIMB 844, from the skin of Merluccius capensis (Merlucciidae), NZ-11D, from the light organ of Nezumia aequalis (Macrouridae), and pjapo.1.1, from the light organ of Physiculus japonicus (Moridae), grouped phylogenetically by gyrB and luxABFE with the C. albatrossis strains, not with ATCC 11040(T). These results demonstrate that luminous bacteria symbiotic with C. albatrossis, together with certain other strains of

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

Science.gov (United States)

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

2017-07-03

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 H 2 , CH 4 , 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.

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

Science.gov (United States)

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.

Science.gov (United States)

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.

Metagenomic evidence for H2 oxidation and H2 production by serpentinite-hosted subsurface microbial communities

Directory of Open Access Journals (Sweden)

William J Brazelton

2012-01-01

Full Text Available 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.

Radionuclides can be mobilized by bacteria from the subsurface grown under aerobic as well as anaerobic conditions

International Nuclear Information System (INIS)

Johnsson, A.; Arlinger, J.; Pedersen, K.; Albinsson, Y.; Andlid, T.

2005-01-01

. Instead anaerobic supernatants of both species retain about 50% of the 241 Am(III) in solution and P. stutzeri also shows an ability to mobilize 147 Pm(III). The findings so far show that bacteria from the subsurface have the ability to mobilize radionuclides under aerobic and anaerobic conditions. This should be considered when planning a future nuclear waste repository. (authors)

Deep subsurface drip irrigation using coal-bed sodic water: part I. water and solute movement

Science.gov (United States)

Bern, Carleton R.; Breit, George N.; Healy, Richard W.; Zupancic, John W.; Hammack, Richard

2013-01-01

Water co-produced with coal-bed methane (CBM) in the semi-arid Powder River Basin of Wyoming and Montana commonly has relatively low salinity and high sodium adsorption ratios that can degrade soil permeability where used for irrigation. Nevertheless, a desire to derive beneficial use from the water and a need to dispose of large volumes of it have motivated the design of a deep subsurface drip irrigation (SDI) system capable of utilizing that water. Drip tubing is buried 92 cm deep and irrigates at a relatively constant rate year-round, while evapotranspiration by the alfalfa and grass crops grown is seasonal. We use field data from two sites and computer simulations of unsaturated flow to understand water and solute movements in the SDI fields. Combined irrigation and precipitation exceed potential evapotranspiration by 300-480 mm annually. Initially, excess water contributes to increased storage in the unsaturated zone, and then drainage causes cyclical rises in the water table beneath the fields. Native chloride and nitrate below 200 cm depth are leached by the drainage. Some CBM water moves upward from the drip tubing, drawn by drier conditions above. Chloride from CBM water accumulates there as root uptake removes the water. Year over year accumulations indicated by computer simulations illustrate that infiltration of precipitation water from the surface only partially leaches such accumulations away. Field data show that 7% and 27% of added chloride has accumulated above the drip tubing in an alfalfa and grass field, respectively, following 6 years of irrigation. Maximum chloride concentrations in the alfalfa field are around 45 cm depth but reach the surface in parts of the grass field, illustrating differences driven by crop physiology. Deep SDI offers a means of utilizing marginal quality irrigation waters and managing the accumulation of their associated solutes in the crop rooting zone.

Trends and Future Challenges in Sampling the Deep Terrestrial Biosphere

Directory of Open Access Journals (Sweden)

Michael J Wilkins

2014-09-01

Full Text Available 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.

Trends and future challenges in sampling the deep terrestrial biosphere.

Science.gov (United States)

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.

Uranium Biomineralization by Natural Microbial Phosphatase Activities in the Subsurface

Energy Technology Data Exchange (ETDEWEB)

Sobecky, Patricia A. [Univ. of Alabama, Tuscaloosa, AL (United States)

2015-04-06

In this project, inter-disciplinary research activities were conducted in collaboration among investigators at The University of Alabama (UA), Georgia Institute of Technology (GT), Lawrence Berkeley National Laboratory (LBNL), Brookhaven National Laboratory (BNL), the DOE Joint Genome Institute (JGI), and the Stanford Synchrotron Radiation Light source (SSRL) to: (i) confirm that phosphatase activities of subsurface bacteria in Area 2 and 3 from the Oak Ridge Field Research Center result in solid U-phosphate precipitation in aerobic and anaerobic conditions; (ii) investigate the eventual competition between uranium biomineralization via U-phosphate precipitation and uranium bioreduction; (iii) determine subsurface microbial community structure changes of Area 2 soils following organophosphate amendments; (iv) obtain the complete genome sequences of the Rahnella sp. Y9-602 and the type-strain Rahnella aquatilis ATCC 33071 isolated from these soils; (v) determine if polyphosphate accumulation and phytate hydrolysis can be used to promote U(VI) biomineralization in subsurface sediments; (vi) characterize the effect of uranium on phytate hydrolysis by a new microorganism isolated from uranium-contaminated sediments; (vii) utilize positron-emission tomography to label and track metabolically-active bacteria in soil columns, and (viii) study the stability of the uranium phosphate mineral product. Microarray analyses and mineral precipitation characterizations were conducted in collaboration with DOE SBR-funded investigators at LBNL. Thus, microbial phosphorus metabolism has been shown to have a contributing role to uranium immobilization in the subsurface.

Uranium Biomineralization by Natural Microbial Phosphatase Activities in the Subsurface

International Nuclear Information System (INIS)

Sobecky, Patricia A.

2015-01-01

In this project, inter-disciplinary research activities were conducted in collaboration among investigators at The University of Alabama (UA), Georgia Institute of Technology (GT), Lawrence Berkeley National Laboratory (LBNL), Brookhaven National Laboratory (BNL), the DOE Joint Genome Institute (JGI), and the Stanford Synchrotron Radiation Light source (SSRL) to: (i) confirm that phosphatase activities of subsurface bacteria in Area 2 and 3 from the Oak Ridge Field Research Center result in solid U-phosphate precipitation in aerobic and anaerobic conditions; (ii) investigate the eventual competition between uranium biomineralization via U-phosphate precipitation and uranium bioreduction; (iii) determine subsurface microbial community structure changes of Area 2 soils following organophosphate amendments; (iv) obtain the complete genome sequences of the Rahnella sp. Y9-602 and the type-strain Rahnella aquatilis ATCC 33071 isolated from these soils; (v) determine if polyphosphate accumulation and phytate hydrolysis can be used to promote U(VI) biomineralization in subsurface sediments; (vi) characterize the effect of uranium on phytate hydrolysis by a new microorganism isolated from uranium-contaminated sediments; (vii) utilize positron-emission tomography to label and track metabolically-active bacteria in soil columns, and (viii) study the stability of the uranium phosphate mineral product. Microarray analyses and mineral precipitation characterizations were conducted in collaboration with DOE SBR-funded investigators at LBNL. Thus, microbial phosphorus metabolism has been shown to have a contributing role to uranium immobilization in the subsurface.

The Diversity of PAH-degrading bacteria in a deep-sea water column above the Southwest Indian Ridge

Directory of Open Access Journals (Sweden)

Zongze eShao

2015-08-01

Full Text Available The bacteria involved in organic pollutant degradation in pelagic deep-sea environments are largely unknown. In this report, the diversity of polycyclic aromatic hydrocarbon ( PAH-degrading bacteria was analyzed in deep-sea water on the Southwest Indian Ridge (SWIR. After enrichment with a PAH mixture (phenanthrene, anthracene, fluoranthene and pyrene, 9 nine bacterial consortia were obtained from depths of 3946 m to 4746 m. PAH degradation occurred to all components of the mixture, but when using a single PAH as the sole carbon and energy source, only phenanthrene can be degraded obviously. This indicates the cometabolism of anthracene, fluoranthene and pyrene with phenanthreneWhile the consortia degraded all four PAHs when supplied in a mixture, when PAHs were tested individually, only phenanthrene supported growth. Thus, degradation of the PAH mixture reflected a cometabolism of anthracene, fluoranthene and pyrene with phenanthrene. Further, both culture-dependent and independent methods revealed many new bacteria involved in PAH degradation. Specifically, the alpha and gamma subclasses of Proteobacteria were confirmed as the major groups within the communities. Additionally, Actinobacteria, the CFB group and Firmicutes were detected. Denaturing Gradient Gel Electrophoresis (DGGE analysis showed that bacteria closely affiliated with Alcanivorax, Novosphingobium and Rhodovulum occurred most frequently in different PAH-degrading consortia. More than half of the isolates (34 of 51 isolates were confirmed to have the ability to grow with the PAH mixture By using general heterotrophic media, 51 bacteria were isolated from the consortia and of these 34 grew with the PAH mixture as a sole carbon source. Of these, isolates most closely related to Alterierythrobacter, Citricella, Erythrobacter, Idiomarina, Lutibacterium, Maricaulis, Marinobacter, Martelella, Pseudidiomarina, Rhodobacter, Roseovarius, Salipiger, Sphingopyxis and Stappia were found to

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

Science.gov (United States)

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.

STRUCTURE AND FUNCTION OF SUBSURFACE MICROBIAL COMMUNITIES AFFECTING RADIONUCLIDE TRANSPORT AND BIOIMMOBILIZATION

Energy Technology Data Exchange (ETDEWEB)

Joel E. Kostka; Lee Kerkhof; Kuk-Jeong Chin; Martin Keller; Joseph W. Stucki

2011-06-15

The objectives of this project were to: (1) isolate and characterize novel anaerobic prokaryotes from subsurface environments exposed to high levels of mixed contaminants (U(VI), nitrate, sulfate), (2) elucidate the diversity and distribution of metabolically active metal- and nitrate-reducing prokaryotes in subsurface sediments, and (3) determine the biotic and abiotic mechanisms linking electron transport processes (nitrate, Fe(III), and sulfate reduction) to radionuclide reduction and immobilization. Mechanisms of electron transport and U(VI) transformation were examined under near in situ conditions in sediment microcosms and in field investigations at the Oak Ridge Field Research Center (ORFRC), in Oak Ridge, Tennessee, where the subsurface is exposed to mixed contamination predominated by uranium and nitrate. A total of 20 publications (16 published or 'in press' and 4 in review), 10 invited talks, and 43 contributed seminars/ meeting presentations were completed during the past four years of the project. PI Kostka served on one proposal review panel each year for the U.S. DOE Office of Science during the four year project period. The PI leveraged funds from the state of Florida to purchase new instrumentation that aided the project. Support was also leveraged by the PI from the Joint Genome Institute in the form of two successful proposals for genome sequencing. Draft genomes are now available for two novel species isolated during our studies and 5 more genomes are in the pipeline. We effectively addressed each of the three project objectives and research highlights are provided. Task I - Isolation and characterization of novel anaerobes: (1) A wide range of pure cultures of metal-reducing bacteria, sulfate-reducing bacteria, and denitrifying bacteria (32 strains) were isolated from subsurface sediments of the Oak Ridge Field Research Center (ORFRC), where the subsurface is exposed to mixed contamination of uranium and nitrate. These isolates which

Microbial community responses to organophosphate substrate additions in contaminated subsurface sediments.

Directory of Open Access Journals (Sweden)

Robert J Martinez

Full Text Available BACKGROUND: Radionuclide- and heavy metal-contaminated subsurface sediments remain a legacy of Cold War nuclear weapons research and recent nuclear power plant failures. Within such contaminated sediments, remediation activities are necessary to mitigate groundwater contamination. A promising approach makes use of extant microbial communities capable of hydrolyzing organophosphate substrates to promote mineralization of soluble contaminants within deep subsurface environments. METHODOLOGY/PRINCIPAL FINDINGS: Uranium-contaminated sediments from the U.S. Department of Energy Oak Ridge Field Research Center (ORFRC Area 2 site were used in slurry experiments to identify microbial communities involved in hydrolysis of 10 mM organophosphate amendments [i.e., glycerol-2-phosphate (G2P or glycerol-3-phosphate (G3P] in synthetic groundwater at pH 5.5 and pH 6.8. Following 36 day (G2P and 20 day (G3P amended treatments, maximum phosphate (PO4(3- concentrations of 4.8 mM and 8.9 mM were measured, respectively. Use of the PhyloChip 16S rRNA microarray identified 2,120 archaeal and bacterial taxa representing 46 phyla, 66 classes, 110 orders, and 186 families among all treatments. Measures of archaeal and bacterial richness were lowest under G2P (pH 5.5 treatments and greatest with G3P (pH 6.8 treatments. Members of the phyla Crenarchaeota, Euryarchaeota, Bacteroidetes, and Proteobacteria demonstrated the greatest enrichment in response to organophosphate amendments and the OTUs that increased in relative abundance by 2-fold or greater accounted for 9%-50% and 3%-17% of total detected Archaea and Bacteria, respectively. CONCLUSIONS/SIGNIFICANCE: This work provided a characterization of the distinct ORFRC subsurface microbial communities that contributed to increased concentrations of extracellular phosphate via hydrolysis of organophosphate substrate amendments. Within subsurface environments that are not ideal for reductive precipitation of uranium

Energy Gradients Structure Microbial Communities Across Sediment Horizons in Deep Marine Sediments of the South China Sea

Directory of Open Access Journals (Sweden)

Michael F. Graw

2018-04-01

Full Text Available The deep marine subsurface is a heterogeneous environment in which the assembly of microbial communities is thought to be controlled by a combination of organic matter deposition, electron acceptor availability, and sedimentology. However, the relative importance of these factors in structuring microbial communities in marine sediments remains unclear. The South China Sea (SCS experiences significant variability in sedimentation across the basin and features discrete changes in sedimentology as a result of episodic deposition of turbidites and volcanic ashes within lithogenic clays and siliceous or calcareous ooze deposits throughout the basin's history. Deep subsurface microbial communities were recently sampled by the International Ocean Discovery Program (IODP at three locations in the SCS with sedimentation rates of 5, 12, and 20 cm per thousand years. Here, we used Illumina sequencing of the 16S ribosomal RNA gene to characterize deep subsurface microbial communities from distinct sediment types at these sites. Communities across all sites were dominated by several poorly characterized taxa implicated in organic matter degradation, including Atribacteria, Dehalococcoidia, and Aerophobetes. Sulfate-reducing bacteria comprised only 4% of the community across sulfate-bearing sediments from multiple cores and did not change in abundance in sediments from the methanogenic zone at the site with the lowest sedimentation rate. Microbial communities were significantly structured by sediment age and the availability of sulfate as an electron acceptor in pore waters. However, microbial communities demonstrated no partitioning based on the sediment type they inhabited. These results indicate that microbial communities in the SCS are structured by the availability of electron donors and acceptors rather than sedimentological characteristics.

System and method for earth probing with deep subsurface penetration using low frequency electromagnetic signals

International Nuclear Information System (INIS)

Etten, P. van; Brown, R.D.

1996-01-01

An earth probing system uses deep penetration of electromagnetic waves into soil and other media. Advantage is taken of lower attenuation of radar in soil by frequencies of about three megahertz or less. Bursts of electromagnetic energy of various frequencies in this range are consecutively transmitted. The transmitting antenna is continuously tuned, so as to maintain resonance during each burst, allowing large circulating currents and high power output. In a receiving antenna system, a dual antenna arrangement is providing for obtaining improved reception. A corresponding dual antenna circuit employs 'a spatial notch filtering', automatic adjustment of antenna gain-frequency variations, as well as compensation for transmitter gain variation. The system may be implemented in a totally analog, totally digital, or hybrid manner. Preferably, a signal processing method detected and digitally samples signal reflected from subsurface layers and buried objects. The invention provides means for removing system distortions and interfering signals, for compensating for aliasing errors and frequency-dependent antenna gain and phase variations, and for avoiding masking errors introduced by strong reflections. (author)

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

Science.gov (United States)

Zafrir, Hovav; Benhorin, Yochy; Malik, Uri; Chemo, Chaim

2016-04-01

An enhanced radon monitoring system was designed in order to study shallow versus deep subsurface processes affecting the appearance of radon anomalies. The method is based on the assumption that the climatic influence is limited since its energy decreases with the decrease in thickness of the geological cover whereby its effect is reduced to a negligible value at depth. Hence, lowering gamma and alpha detectors into deep boreholes and monitoring their temporal variations relative to a reference couple at shallow depths of 10-40 m eliminates the ambient thermal and pressure-induced contribution from the total radon time series. It allows highlighting the residual portion of the radon signals that might be associated with the geodynamic processes. The primary technological key is the higher sensitivity of the gamma detectors - in comparison to the solid-state alpha detectors, which are also suitable for threading into narrow boreholes in parallel to the narrow gamma detector (Zafrir et al., 2013*). The unique achievements of the novel system that was installed at the Sde Eliezer site close to the Hula Valley western border fault (HWBF) in northern Israel 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 per hour on average; b) Distinguishing between the diurnal periodical effect of the ambient temperature and the semi-diurnal effect of the ambient pressure on the radon temporal spectrum; c) Identification of a radon random pre-seismic anomaly preceding the Nuweiba, M 5.5 earthquake of 27 June 2015 that occurred within Dead Sea Fault Zone. * Zafrir, H., Barbosa, S.M. and Malik, U., 2013. Differentiation between the effect of temperature and pressure on radon within the subsurface geological media, Radiat. Meas., 49, 39-56. doi:10.1016/j.radmeas.2012.11.019.

Surface and subsurface conditions in permafrost areas - a literature review

International Nuclear Information System (INIS)

Vidstrand, Patrik

2003-02-01

This report contains a summary of some of the information within existing technical and scientific literature on permafrost. Permafrost is viewed as one of the future climate driven process domains that may exist in Scandinavia, and that may give rise to significantly different surface and subsurface conditions than the present. Except for changes in the biosphere, permafrost may impact hydraulic, mechanical, and chemical subsurface processes and conditions. Permafrost and its influences on the subsurface conditions are thus of interest for the performance and safety assessments of deep geological waste repositories. The definition of permafrost is 'ground that stays at or below 0 deg C for at least two consecutive years'. Permafrost will effect the geological subsurface to some depth. How deep the permafrost may grow is a function of the heat balance, thermal conditions at the surface and within the ground, and the geothermal heat flux from the Earth's inner parts. The main chapters of the report summaries the knowledge on permafrost evolution, occurrence and distribution, and extracts information concerning hydrology and mechanical and chemical impacts due to permafrost related conditions. The results of a literature review are always dependent on the available literature. Concerning permafrost there is some literature available from investigations in the field of long-term repositories and some from mining industries. However, reports of these investigations are few and the bulk of permafrost literature comes from the science departments concerned with surficial processes (e.g. geomorphology, hydrology, agriculture, etc) and from engineering concerns, such as foundation of constructions and pipeline design. This focus within the permafrost research inevitably yields a biased but also an abundant amount of information on localised surficial processes and a limited amount on regional and deep permafrost characteristics. Possible conclusions are that there is

Surface and subsurface conditions in permafrost areas - a literature review

Energy Technology Data Exchange (ETDEWEB)

Vidstrand, Patrik [Bergab, Goeteborg (Sweden)

2003-02-01

This report contains a summary of some of the information within existing technical and scientific literature on permafrost. Permafrost is viewed as one of the future climate driven process domains that may exist in Scandinavia, and that may give rise to significantly different surface and subsurface conditions than the present. Except for changes in the biosphere, permafrost may impact hydraulic, mechanical, and chemical subsurface processes and conditions. Permafrost and its influences on the subsurface conditions are thus of interest for the performance and safety assessments of deep geological waste repositories. The definition of permafrost is 'ground that stays at or below 0 deg C for at least two consecutive years'. Permafrost will effect the geological subsurface to some depth. How deep the permafrost may grow is a function of the heat balance, thermal conditions at the surface and within the ground, and the geothermal heat flux from the Earth's inner parts. The main chapters of the report summaries the knowledge on permafrost evolution, occurrence and distribution, and extracts information concerning hydrology and mechanical and chemical impacts due to permafrost related conditions. The results of a literature review are always dependent on the available literature. Concerning permafrost there is some literature available from investigations in the field of long-term repositories and some from mining industries. However, reports of these investigations are few and the bulk of permafrost literature comes from the science departments concerned with surficial processes (e.g. geomorphology, hydrology, agriculture, etc) and from engineering concerns, such as foundation of constructions and pipeline design. This focus within the permafrost research inevitably yields a biased but also an abundant amount of information on localised surficial processes and a limited amount on regional and deep permafrost characteristics. Possible conclusions are that

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

Science.gov (United States)

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

Diversity, metal resistance and uranium sequestration abilities of bacteria from uranium ore deposit in deep earth stratum.

Science.gov (United States)

Islam, Ekramul; Sar, Pinaki

2016-05-01

Metal resistance and uranium (U) sequestration abilities of bacteria residing in subsurface U ore was investigated using 122 pure culture strains isolated through enrichment. The cumulative frequencies of isolates resistant to each metal tested were as follows: As(V), 74%; Zn, 58%; Ni, 53%; Cd, 47%; Cr(VI), 41%; Co, 40%; Cu, 20%; and Hg, 4%. 16S rRNA gene analysis revealed that isolated bacteria belonged to 14 genera with abundance of Arthrobacter, Microbacterium, Acinetobacter and Stenotrophomonas. Cobalt did not interfere with the growth of most of the bacterial isolates belonging to different groups while U allowed growth of four different genera of which Stenotrophomonas and Microbacterium showed high U tolerance. Interestingly, tolerance to Ni, Zn, Cu, and Hg was observed only in Microbacterium, Arthrobacter, Paenibacillus¸ and Acinetobacter, respectively. However, Microbacterium was found to be dominant when isolated from other five different metal enrichments including U. Uranium removal study showed that 84% of the test bacteria could remove more than 50mgUg(-1) dry weight from 80 or 160mgL(-1) U within 48h. In general, Microbacterium, Arthrobacter and Acinetobacter could remove a higher amount of U. High resolution transmission electron microscopy (HRTEM) study of U exposed cells revealed that accumulated U sequestered mostly around the cell periphery. The study highlights that indigenous U ore deposit bacteria have the potential to interact with U, and thus could be applied for bioremediation of U contaminated sites or wastes. Copyright © 2016 Elsevier Inc. All rights reserved.

subsurface sequence delineation and saline water mapping of lagos

African Journals Online (AJOL)

A subsurface sequence delineation and saline water mapping of Lagos State was carried out. Ten (10) deep boreholes with average depth of 300 m were drilled within the sedimentary basin. The boreholes were lithologically and geophysically logged. The driller's lithological logs aided by gamma and resistivity logs, ...

Subsurface barrier verification technologies, informal report

International Nuclear Information System (INIS)

Heiser, J.H.

1994-06-01

One of the more promising remediation options available to the DOE waste management community is subsurface barriers. Some of the uses of subsurface barriers include surrounding and/or containing buried waste, as secondary confinement of underground storage tanks, to direct or contain subsurface contaminant plumes and to restrict remediation methods, such as vacuum extraction, to a limited area. To be most effective the barriers should be continuous and depending on use, have few or no breaches. A breach may be formed through numerous pathways including: discontinuous grout application, from joints between panels and from cracking due to grout curing or wet-dry cycling. The ability to verify barrier integrity is valuable to the DOE, EPA, and commercial sector and will be required to gain full public acceptance of subsurface barriers as either primary or secondary confinement at waste sites. It is recognized that no suitable method exists for the verification of an emplaced barrier's integrity. The large size and deep placement of subsurface barriers makes detection of leaks challenging. This becomes magnified if the permissible leakage from the site is low. Detection of small cracks (fractions of an inch) at depths of 100 feet or more has not been possible using existing surface geophysical techniques. Compounding the problem of locating flaws in a barrier is the fact that no placement technology can guarantee the completeness or integrity of the emplaced barrier. This report summarizes several commonly used or promising technologies that have been or may be applied to in-situ barrier continuity verification

Deep carbon storage potential of buried floodplain soils.

Science.gov (United States)

D'Elia, Amanda H; Liles, Garrett C; Viers, Joshua H; Smart, David R

2017-08-15

Soils account for the largest terrestrial pool of carbon and have the potential for even greater quantities of carbon sequestration. Typical soil carbon (C) stocks used in global carbon models only account for the upper 1 meter of soil. Previously unaccounted for deep carbon pools (>1 m) were generally considered to provide a negligible input to total C contents and represent less dynamic C pools. Here we assess deep soil C pools associated with an alluvial floodplain ecosystem transitioning from agricultural production to restoration of native vegetation. We analyzed the soil organic carbon (SOC) concentrations of 87 surface soil samples (0-15 cm) and 23 subsurface boreholes (0-3 m). We evaluated the quantitative importance of the burial process in the sequestration of subsurface C and found our subsurface soils (0-3 m) contained considerably more C than typical C stocks of 0-1 m. This deep unaccounted soil C could have considerable implications for global C accounting. We compared differences in surface soil C related to vegetation and land use history and determined that flooding restoration could promote greater C accumulation in surface soils. We conclude deep floodplain soils may store substantial quantities of C and floodplain restoration should promote active C sequestration.

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

Science.gov (United States)

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

Electrode Cultivation and Interfacial Electron Transport in Subsurface Microorganisms

Science.gov (United States)

Karbelkar, A. A.; Jangir, Y.; Reese, B. K.; Wanger, G.; Anderson, C.; El-Naggar, M.; Amend, J.

2016-12-01

Continental subsurface environments can present significant energetic challenges to the resident microorganisms. While these environments are geologically diverse, potentially allowing energy harvesting by microorganisms that catalyze redox reactions, many of the abundant electron donors and acceptors are insoluble and therefore not directly bioavailable. Microbes can use extracellular electron transfer (EET) as a metabolic strategy to interact with redox active surfaces. This process can be mimicked on electrode surfaces and hence can lead to enrichment and quantification of subsurface microorganisms A primary bioelectrochemical enrichment with different oxidizing and reducing potentials set up in a single bioreactor was applied in situ to subsurface microorganisms residing in iron oxide rich deposits in the Sanford Underground Research Facility. Secondary enrichment revealed a plethora of classified and unclassified subsurface microbiota on both oxidizing and reducing potentials. From this enrichment, we have isolated a Gram-positive Bacillus along with Gram-negative Cupriavidus and Anaerospora strains (as electrode reducers) and Comamonas (as an electrode oxidizer). The Bacillus and Comamonas isolates were subjected to a detailed electrochemical characterization in half-reactors at anodic and cathodic potentials, respectively. An increase in cathodic current upon inoculation and cyclic voltammetry measurements confirm the hypothesis that Comamonas is capable of electron uptake from electrodes. In addition, measurements of Bacillus on anodes hint towards novel mechanisms that allow EET from Gram-positive bacteria. This study suggests that electrochemical approaches are well positioned to dissect such extracellular interactions that may be prevalent in the subsurface, while using physical electrodes to emulate the microhabitats, redox and geochemical gradients, and the spatially dependent interspecies interactions encountered in the subsurface. Electrochemical

Confocal examination of subsurface cracking in ceramic materials.

Science.gov (United States)

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) in crack depth within the same ceramic material with different surface finishes. The ceramic materials with different microstructures showed different patterns of subsurface cracking.

Mineralizing Filamentous Bacteria from the Prony Bay Hydrothermal Field Give New Insights into the Functioning of Serpentinization-Based Subseafloor Ecosystems.

Science.gov (United States)

Pisapia, Céline; Gérard, Emmanuelle; Gérard, Martine; Lecourt, Léna; Lang, Susan Q; Pelletier, Bernard; Payri, Claude E; Monnin, Christophe; Guentas, Linda; Postec, Anne; Quéméneur, Marianne; Erauso, Gaël; Ménez, Bénédicte

2017-01-01

Despite their potential importance as analogs of primitive microbial metabolisms, the knowledge of the structure and functioning of the deep ecosystems associated with serpentinizing environments is hampered by the lack of accessibility to relevant systems. These hyperalkaline environments are depleted in dissolved inorganic carbon (DIC), making the carbon sources and assimilation pathways in the associated ecosystems highly enigmatic. The Prony Bay Hydrothermal Field (PHF) is an active serpentinization site where, similar to Lost City (Mid-Atlantic Ridge), high-pH fluids rich in H 2 and CH 4 are discharged from carbonate chimneys at the seafloor, but in a shallower lagoonal environment. This study aimed to characterize the subsurface microbial ecology of this environment by focusing on the earliest stages of chimney construction, dominated by the discharge of hydrothermal fluids of subseafloor origin. By jointly examining the mineralogy and the microbial diversity of the conduits of juvenile edifices at the micrometric scale, we find a central role of uncultivated bacteria belonging to the Firmicutes in the ecology of the PHF. These bacteria, along with members of the phyla Acetothermia and Omnitrophica , are identified as the first chimneys inhabitants before archaeal Methanosarcinales . They are involved in the construction and early consolidation of the carbonate structures via organomineralization processes. Their predominance in the most juvenile and nascent hydrothermal chimneys, and their affiliation with environmental subsurface microorganisms, indicate that they are likely discharged with hydrothermal fluids from the subseafloor. They may thus be representative of endolithic serpentinization-based ecosystems, in an environment where DIC is limited. In contrast, heterotrophic and fermentative microorganisms may consume organic compounds from the abiotic by-products of serpentinization processes and/or from life in the deeper subsurface. We thus propose

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

Science.gov (United States)

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.

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

Science.gov (United States)

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.

In situ detection of anaerobic alkane metabolites in subsurface environments

Directory of Open Access Journals (Sweden)

Lisa eGieg

2013-06-01

Full Text Available Alkanes comprise a substantial fraction of crude oil and refined fuels. As such, they are prevalent within deep subsurface fossil fuel deposits and in shallow subsurface environments such as aquifers that are contaminated with hydrocarbons. These environments are typically anaerobic, and host diverse microbial communities that can potentially use alkanes as substrates. Anaerobic alkane biodegradation has been reported to occur under nitrate-reducing, sulfate-reducing, and methanogenic conditions. Elucidating the pathways of anaerobic alkane metabolism has been of interest in order to understand how microbes can be used to remediate contaminated sites. Alkane activation primarily occurs by addition to fumarate, yielding alkylsuccinates, unique anaerobic metabolites that can be used to indicate in situ anaerobic alkane metabolism. These metabolites have been detected in hydrocarbon-contaminated shallow aquifers, offering strong evidence for intrinsic anaerobic bioremediation. Recently, studies have also revealed that alkylsuccinates are present in oil and coal seam production waters, indicating that anaerobic microbial communities can utilize alkanes in these deeper subsurface environments. In many crude oil reservoirs, the in situ anaerobic metabolism of hydrocarbons such as alkanes may be contibuting to modern-day detrimental effects such as oilfield souring, or may lead to more benefical technologies such as enhanced energy recovery from mature oilfields. In this review, we briefly describe the key metabolic pathways for anaerobic alkane (including n-alkanes, isoalkanes, and cyclic alkanes metabolism and highlight several field reports wherein alkylsuccinates have provided evidence for anaerobic in situ alkane metabolism in shallow and deep subsurface environments.

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

KAUST Repository

Wang, Yong

2015-10-20

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.

Directory of Open Access Journals (Sweden)

Yong Wang

Full Text Available 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)

KAUST Repository

Wang, Yong; Li, Jiang Tao; He, Li Sheng; Yang, Bo; Gao, Zhao Ming; Cao, Hui Luo; Batang, Zenon B.; Al-Suwailem, Abdulaziz M.; 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.

A microbial oasis in the hypersaline Atacama subsurface discovered by a life detector chip: implications for the search for life on Mars.

Science.gov (United States)

Parro, Victor; de Diego-Castilla, Graciela; Moreno-Paz, Mercedes; Blanco, Yolanda; Cruz-Gil, Patricia; Rodríguez-Manfredi, José A; Fernández-Remolar, David; Gómez, Felipe; Gómez, Manuel J; Rivas, Luis A; Demergasso, Cecilia; Echeverría, Alex; Urtuvia, Viviana N; Ruiz-Bermejo, Marta; García-Villadangos, Miriam; Postigo, Marina; Sánchez-Román, Mónica; Chong-Díaz, Guillermo; Gómez-Elvira, Javier

2011-12-01

The Atacama Desert has long been considered a good Mars analogue for testing instrumentation for planetary exploration, but very few data (if any) have been reported about the geomicrobiology of its salt-rich subsurface. We performed a Mars analogue drilling campaign next to the Salar Grande (Atacama, Chile) in July 2009, and several cores and powder samples from up to 5 m deep were analyzed in situ with LDChip300 (a Life Detector Chip containing 300 antibodies). Here, we show the discovery of a hypersaline subsurface microbial habitat associated with halite-, nitrate-, and perchlorate-containing salts at 2 m deep. LDChip300 detected bacteria, archaea, and other biological material (DNA, exopolysaccharides, some peptides) from the analysis of less than 0.5 g of ground core sample. The results were supported by oligonucleotide microarray hybridization in the field and finally confirmed by molecular phylogenetic analysis and direct visualization of microbial cells bound to halite crystals in the laboratory. Geochemical analyses revealed a habitat with abundant hygroscopic salts like halite (up to 260 g kg(-1)) and perchlorate (41.13 μg g(-1) maximum), which allow deliquescence events at low relative humidity. Thin liquid water films would permit microbes to proliferate by using detected organic acids like acetate (19.14 μg g(-1)) or formate (76.06 μg g(-1)) as electron donors, and sulfate (15875 μg g(-1)), nitrate (13490 μg g(-1)), or perchlorate as acceptors. Our results correlate with the discovery of similar hygroscopic salts and possible deliquescence processes on Mars, and open new search strategies for subsurface martian biota. The performance demonstrated by our LDChip300 validates this technology for planetary exploration, particularly for the search for life on Mars.

Biogenic Carbon on Mars: A Subsurface Chauvinistic Viewpoint

Science.gov (United States)

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.

Improvement of geological subsurface structure models for Kanto area, Japan, based on records of microtremor array and earthquake observations

Science.gov (United States)

Wakai, A.; Senna, S.; Jin, K.; Cho, I.; Matsuyama, H.; Fujiwara, H.

2017-12-01

To estimate damage caused by strong ground motions from a large earthquake, it is important to accurately evaluate broadband ground-motion characteristics in wide area. For realizing that, it is one of the important issues to model detailed subsurface structure from top surface of seismic bedrock to ground surface.Here, we focus on Kanto area, including Tokyo, where there are thicker sedimentary layers. We, first, have ever collected deep bore-hole data, soil physical properties obtained by some geophysical explorations, geological information and existing models for deep ground from top surface of seismic bedrock to that of engineering bedrock, and have collected a great number of bore-hole data and surficial geological ones for shallow ground from top surface of engineering bedrock to ground surface. Using them, we modeled initial geological subsurface structure for each of deep ground and shallow one. By connecting them appropriately, we constructed initial geological subsurface structure models from top surface of seismic bedrock to ground surface.In this study, we first collected a lot of records obtained by dense microtremor observations and earthquake ones in the whole Kanto area. About microtremor observations, we conducted measurements from large array with the size of hundreds of meters to miniature array with the size of 60 centimeters to cover both of deep ground and shallow one. And then, using ground motion characteristics such as disperse curves and H/V(R/V) spectral ratios obtained from these records, the initial geological subsurface structure models were improved in terms of velocity structure from top surface of seismic bedrock to ground surface in the area.We will report outlines on microtremor array observations, analysis methods and improved subsurface structure models.

Two-dimensional joint inversion of Magnetotelluric and local earthquake data: Discussion on the contribution to the solution of deep subsurface structures

Science.gov (United States)

Demirci, İsmail; Dikmen, Ünal; Candansayar, M. Emin

2018-02-01

Joint inversion of data sets collected by using several geophysical exploration methods has gained importance and associated algorithms have been developed. To explore the deep subsurface structures, Magnetotelluric and local earthquake tomography algorithms are generally used individually. Due to the usage of natural resources in both methods, it is not possible to increase data quality and resolution of model parameters. For this reason, the solution of the deep structures with the individual usage of the methods cannot be fully attained. In this paper, we firstly focused on the effects of both Magnetotelluric and local earthquake data sets on the solution of deep structures and discussed the results on the basis of the resolving power of the methods. The presence of deep-focus seismic sources increase the resolution of deep structures. Moreover, conductivity distribution of relatively shallow structures can be solved with high resolution by using MT algorithm. Therefore, we developed a new joint inversion algorithm based on the cross gradient function in order to jointly invert Magnetotelluric and local earthquake data sets. In the study, we added a new regularization parameter into the second term of the parameter correction vector of Gallardo and Meju (2003). The new regularization parameter is enhancing the stability of the algorithm and controls the contribution of the cross gradient term in the solution. The results show that even in cases where resistivity and velocity boundaries are different, both methods influence each other positively. In addition, the region of common structural boundaries of the models are clearly mapped compared with original models. Furthermore, deep structures are identified satisfactorily even with using the minimum number of seismic sources. In this paper, in order to understand the future studies, we discussed joint inversion of Magnetotelluric and local earthquake data sets only in two-dimensional space. In the light of these

Microbial colonization in diverse surface soil types in Surtsey and diversity analysis of its subsurface microbiota

Science.gov (United States)

Marteinsson, V.; Klonowski, A.; Reynisson, E.; Vannier, P.; Sigurdsson, B. D.; Ólafsson, M.

2015-02-01

Colonization of life on Surtsey has been observed systematically since the formation of the island 50 years ago. Although the first colonisers were prokaryotes, such as bacteria and blue-green algae, most studies have been focused on the settlement of plants and animals but less on microbial succession. To explore microbial colonization in diverse soils and the influence of associated vegetation and birds on numbers of environmental bacteria, we collected 45 samples from different soil types on the surface of the island. Total viable bacterial counts were performed with the plate count method at 22, 30 and 37 °C for all soil samples, and the amount of organic matter and nitrogen (N) was measured. Selected samples were also tested for coliforms, faecal coliforms and aerobic and anaerobic bacteria. The subsurface biosphere was investigated by collecting liquid subsurface samples from a 181 m borehole with a special sampler. Diversity analysis of uncultivated biota in samples was performed by 16S rRNA gene sequences analysis and cultivation. Correlation was observed between nutrient deficits and the number of microorganisms in surface soil samples. The lowest number of bacteria (1 × 104-1 × 105 cells g-1) was detected in almost pure pumice but the count was significantly higher (1 × 106-1 × 109 cells g-1) in vegetated soil or pumice with bird droppings. The number of faecal bacteria correlated also to the total number of bacteria and type of soil. Bacteria belonging to Enterobacteriaceae were only detected in vegetated samples and samples containing bird droppings. The human pathogens Salmonella, Campylobacter and Listeria were not in any sample. Both thermophilic bacteria and archaea 16S rDNA sequences were found in the subsurface samples collected at 145 and 172 m depth at 80 and 54 °C, respectively, but no growth was observed in enrichments. The microbiota sequences generally showed low affiliation to any known 16S rRNA gene sequences.

Electrochemical impedance spectroscopy and Surface Studies of Steel Corrosion by Sulphate-Reducing Bacteria

International Nuclear Information System (INIS)

Fathul Karim Sahrani; Zaharah Ibrahim; Madzlan Aziz; Adibah Yahya

2009-01-01

Sulphate-reducing bacteria (SRB), implicated in microbiologically influenced corrosion were isolated from the deep subsurface at the vicinity of Pasir Gudang, Johor, Malaysia. Electrochemical impedance spectroscopic (EIS) study was carried out to determine the polarization resistance in various types of culturing solutions, with SRB1, SRB2, combination of SRB1 and SRB2 and without SRBs inoculated (control). EIS results showed that in the presence of SRB1, SRB2 and mixed culture SRB1 and SRB2, polarisation resistance values were 7170, 6370 and 7190 ohms respectively compared to that of control, 92400 ohm. X-ray analysis (EDS) of the specimens indicated high sulphur content in the medium containing SRBs. Localized corrosion was observed on the metal surface which was associated with the SRB activity. (author)

Manipulation of natural subsurface processes: Field research and validation. Interim report

International Nuclear Information System (INIS)

Fruchter, J.S.; Spane, F.A.; Amonette, J.E.

1994-11-01

Often the only alternative for treating deep subsurface contamination is in situ manipulation of natural processes to change the mobility or form of contaminants. However, the complex interactions of natural subsurface physical, chemical, and microbial processes limit the predictability of the system-wide impact of manipulation based on current knowledge. This report is a summary of research conducted to examine the feasibility of controlling the oxidation-reduction (redox) potential of the unconfined aquifer at the Hanford Site in southeastern Washington State by introducing chemical reagents and microbial nutrients. The experiment would allow the testing of concepts and hypotheses developed from fundamental research in the US Department of Energy's (DOE's) Subsurface Science Program. Furthermore, the achievement of such control is expected to have implications for in situ remediation of dispersed aqueous contaminants in the subsurface environment at DOE sites nationwide, and particularly at the Hanford Site. This interim report summarizes initial research that was conducted between July 1990 and October 1991

WATSON: Detecting organic material in subsurface ice using deep-UV fluorescence and Raman spectroscopy

Science.gov (United States)

Eshelman, E.; Wanger, G.; Manatt, K.; Malaska, M.; Willis, M.; Abbey, W.; Doloboff, I.; Beegle, L. W.; DeFlores, L. P.; Priscu, J. C.; Lane, A. L.; Carrier, B. L.; Mellerowicz, B.; Kim, D.; Paulsen, G.; Zacny, K.; Bhartia, R.

2017-12-01

Future astrobiological missions to Europa and other ocean worlds may benefit from next-generation instrumentation capable of in situ organic and life detection in subsurface ice environments. WATSON (Wireline Analysis Tool for in Situ Observation of Northern ice sheets) is an instrument under development at NASA's Jet Propulsion Laboratory. WATSON contains high-TRL instrumentation developed for SHERLOC, the Mars 2020 deep-UV fluorescence and Raman spectrometer, including a 248.6 nm NeCu hollow cathode laser as an excitation source. In WATSON, these technologies provide spectroscopic capabilities highly sensitive to many organic compounds, including microbes, in an instrument package approximately 1.2 m long with a 101.6 mm diameter, designed to accommodate a 108 mm ice borehole. Interrogation into the ice wall with a laser allows for a non-destructive in situ measurement that preserves the spatial distribution of material within the ice. We report on a successful deployment of WATSON to Kangerlussuaq, Greenland, where the instrument was lowered to a 4.5 m depth in a hand-cored hole on the Kangerlussuaq sector of the Greenland ice sheet. Motorized stages within the instrument were used to raster a laser across cm-scale regions of the interior surface of the borehole, obtaining fluorescence spectral maps with a 200 µm spatial resolution and a spectral range from 265 nm to 440 nm. This region includes the UV emission bands of many aromatic compounds and microbes, and includes the water and ice Raman O-H stretching modes. We additionally report on experiments designed to inform an early-2018 deployment to Kangerlussuaq where WATSON will be incorporated into a Honeybee Robotics planetary deep drill, with a goal of drilling to a depth of 100 m and investigating the distribution of organic material within the ice sheet. These experiments include laboratory calibrations to determine the sensitivity to organic compounds embedded in ice at various depths, as well as

A deep gold mine metagenome as a source of novel esterases ...

African Journals Online (AJOL)

New sources of enzymes for biotechnological applications are continually being sought for. While diverse microbial ecosysyems have been demonstrated in the deep subsurfaces, deep mines provide easy access to these specialist communities. Therefore, the aim of this study was to assess a deep mine biofilm as a source ...

Isolation and Characterization of Electrochemically Active Subsurface Delftia and Azonexus Species

Science.gov (United States)

Jangir, Yamini; French, Sarah; Momper, Lily M.; Moser, Duane P.; Amend, Jan P.; El-Naggar, Mohamed Y.

2016-01-01

Continental subsurface environments can present significant energetic challenges to the resident microorganisms. While these environments are geologically diverse, potentially allowing energy harvesting by microorganisms that catalyze redox reactions, many of the abundant electron donors and acceptors are insoluble and therefore not directly bioavailable. Extracellular electron transfer (EET) is a metabolic strategy that microorganisms can deploy to meet the challenges of interacting with redox-active surfaces. Though mechanistically characterized in a few metal-reducing bacteria, the role, extent, and diversity of EET in subsurface ecosystems remains unclear. Since this process can be mimicked on electrode surfaces, it opens the door to electrochemical techniques to enrich for and quantify the activities of environmental microorganisms in situ. Here, we report the electrochemical enrichment of microorganisms from a deep fractured-rock aquifer in Death Valley, CA, USA. In experiments performed in mesocosms containing a synthetic medium based on aquifer chemistry, four working electrodes (WEs) were poised at different redox potentials (272, 373, 472, 572 mV vs. SHE) to serve as electron acceptors, resulting in anodic currents coupled to the oxidation of acetate during enrichment. The anodes were dominated by Betaproteobacteria from the families Comamonadaceae and Rhodocyclaceae. A representative of each dominant family was subsequently isolated from electrode-associated biomass. The EET abilities of the isolated Delftia strain (designated WE1-13) and Azonexus strain (designated WE2-4) were confirmed in electrochemical reactors using WEs poised at 522 mV vs. SHE. The rise in anodic current upon inoculation was correlated with a modest increase in total protein content. Both genera have been previously observed in mixed communities of microbial fuel cell enrichments, but this is the first direct measurement of their electrochemical activity. While alternate

Isolation and characterization of electrochemically active subsurface Delftia and Azonexus species

Directory of Open Access Journals (Sweden)

Yamini eJangir

2016-05-01

Full Text Available Continental subsurface environments can present significant energetic challenges to the resident microorganisms. While these environments are geologically diverse, potentially allowing energy harvesting by microorganisms that catalyze redox reactions, many of the abundant electron donors and acceptors are insoluble and therefore not directly bioavailable. Extracellular electron transfer (EET is a metabolic strategy that microorganisms can deploy to meet the challenges of interacting with redox-active surfaces. Though mechanistically characterized in a few metal-reducing bacteria, the role, extent, and diversity of EET in subsurface ecosystems remains unclear. Since this process can be mimicked on electrode surfaces, it opens the door to electrochemical techniques to enrich for and quantify the activities of environmental microorganisms in situ. Here, we report the electrochemical enrichment of microorganisms from a deep fractured-rock aquifer in Death Valley, California, USA. In experiments performed in mesocosms containing a synthetic medium based on aquifer chemistry, four working electrodes were poised at different redox potentials (272, 373, 472, 572 mV vs. SHE to serve as electron acceptors, resulting in anodic currents coupled to the oxidation of acetate during enrichment. The anodes were dominated by Betaproteobacteria from the families Comamonadaceae and Rhodocyclaceae. A representative of each dominant family was subsequently isolated from electrode-associated biomass. The EET abilities of the isolated Delftia strain (designated WE1-13 and Azonexus strain (designated WE2-4 were confirmed in electrochemical reactors using working electrodes poised at 522 mV vs. SHE. The rise in anodic current upon inoculation was correlated with a modest increase in total protein content. Both genera have been previously observed in mixed communities of microbial fuel cell enrichments, but this is the first direct measurement of their electrochemical

The detection of magnetotactic bacteria in deep sea sediments from the east Pacific Manganese Nodule Province.

Science.gov (United States)

Dong, Yi; Li, Jinhua; Zhang, Wuchang; Zhang, Wenyan; Zhao, Yuan; Xiao, Tian; Wu, Long-Fei; Pan, Hongmiao

2016-04-01

Magnetotactic bacteria (MTB) are distributed ubiquitously in sediments from coastal environments to the deep sea. The Pacific Manganese Nodule Province contains numerous polymetallic nodules mainly composed of manganese, iron, cobalt, copper and nickel. In the present study we used Illumina MiSeq sequencing technology to assess the communities of putative MTB in deep sea surface sediments at nine stations in the east Pacific Manganese Nodule Province. A total of 402 sequence reads from MTB were classified into six operational taxonomic units (OTUs). Among these, OTU113 and OTU759 were affiliated with the genus Magnetospira, OTU2224 and OTU2794 were affiliated with the genus Magnetococcus and Magnetovibrio, respectively, OTU3017 had no known genus affiliation, and OTU2556 was most similar to Candidatus Magnetananas. Interestingly, OTU759 was widely distributed, occurring at all study sites. Magnetism measurements revealed that all sediments were dominated by low coercivity, non-interacting single domain magnetic minerals. Transmission electron microscopy confirmed that the magnetic minerals were magnetosomes. Our data suggest that diverse putative MTB are widely distributed in deep sea surface sediments from the east Pacific Manganese Nodule Province. © 2016 Society for Applied Microbiology and John Wiley & Sons Ltd.

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

Science.gov (United States)

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

Contaminated environments in the subsurface and bioremediation: organic contaminants.

Science.gov (United States)

Holliger, C; Gaspard, S; Glod, G; Heijman, C; Schumacher, W; Schwarzenbach, R P; Vazquez, F

1997-07-01

Due to leakages, spills, improper disposal and accidents during transport, organic compounds have become subsurface contaminants that threaten important drinking water resources. One strategy to remediate such polluted subsurface environments is to make use of the degradative capacity of bacteria. It is often sufficient to supply the subsurface with nutrients such as nitrogen and phosphorus, and aerobic treatments are still dominating. However, anaerobic processes have advantages such as low biomass production and good electron acceptor availability, and they are sometimes the only possible solution. This review will focus on three important groups of environmental organic contaminants: hydrocarbons, chlorinated and nitroaromatic compounds. Whereas hydrocarbons are oxidized and completely mineralized under anaerobic conditions in the presence of electron acceptors such as nitrate, iron, sulfate and carbon dioxide, chlorinated and nitroaromatic compounds are reductively transformed. For the aerobic often persistent polychlorinated compounds, reductive dechlorination leads to harmless products or to compounds that are aerobically degradable. The nitroaromatic compounds are first reductively transformed to the corresponding amines and can subsequently be bound to the humic fraction in an aerobic process. Such new findings and developments give hope that in the near future contaminated aquifers can efficiently be remediated, a prerequisite for a sustainable use of the precious-subsurface drinking water resources.

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

Science.gov (United States)

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

Hydrologic Monitoring in the Deep Subsurface to Support Repository Performance

Science.gov (United States)

Hubbell, J. M.; Heath, G. L.; Scott, C. L.

2007-12-01

The INL has installed and operated several vadose and ground water monitoring systems in arid and humid sites to depths of about 200m. Some of these systems have been in continuous operation for over 12 years. It is important that the systems be physically robust, simple, yet versatile enough that it can operate for extended time periods with little or no maintenance. Monitoring instruments are frequently installed and run to characterize the site, collect data during site operation, and continue to run for long-term stewardship, necessitating sensors that can be maintained or serviced. Sensors are carefully chosen based on the perceived data requirements over the life of the site. An emphasis is given on direct measurements such as tensiometers (portable and advanced), neutron probe, drain gauge, temperature, wells or sampling for fluids and gases. Other complementary data can include using TDR/capacitance, radiation detectors, and larger scale geophysical techniques (3-d resistivity and EM) for volumetric measurements. Commercially available instruments may have to be modified for their use at greater depths, to allow multiple instruments in a single borehole or to perform the intended monitoring function. Access tubes (some open at the bottom) can be placed to allow insertion of multiple sensors (radiation, neutron and portable sensors/samplers), future drilling/sampling and to install new instruments at a later time. The installation techniques and backfill materials must be chosen and the measurement technique tested to ensure representative data collection for the parameters of interest. The data collection system can be linked to climatic data (precipitation, barometric pressure, snow depth, runoff, surface water sources) that may influence the site's subsurface hydrology. The instruments are then connected to a real-time automated data collection system that collect, stores, and provides access to the data. These systems have been developed that allow easy

The interaction of Plutonium with Bacteria in the Repository Environment

International Nuclear Information System (INIS)

Gillow, J. B.; Francis, A. J.; Lucero, D. A.; Papenguth, H. W.

2000-01-01

Microorganisms in the nuclear waste repository environment may interact with plutonium through (1) sorption, (2) intracellular accumulation, and (3) transformation speciation. These interactions may retard or enhance the mobility of Pu by precipitation reactions, biocolloid formation, or production of more soluble species. Current and planned radioactive waste repository environments, such as deep subsurface halite and granite formations, are considered extreme relative to life processes in the near-surface terrestrial environment. There is a paucity of information on the biotransformation of radionuclides by microorganisms present in such extreme environments. In order to gain a better understanding of the interaction of plutonium with microorganisms present in the waste repository sites we investigated a pure culture (Halomonas sp.) and a mixed culture of bacteria (Haloarcula sinaiiensis, Marinobacter hydrocarbonoclasticus, Altermonas sp., and a γ-proteobacterium) isolated from the Waste Isolation Pilot Plant (WIPP) site and an Acetobacterium sp. from alkaline groundwater at the Grimsel Test Site in Switzerland

Deep Ground Penetrating Radar (GPR) WIPL-D Models of Buried Sub-Surface Radiators

National Research Council Canada - National Science Library

Norgard, John D; Wicks, Michael C; Musselman, Randy L

2005-01-01

.... A new Ground Penetrating Radar (GPR) concept is proposed in this paper to use subsurface radiators, delivered as earth penetrating non-explosive, electronic e-bombs, as the source of strong radiated transmissions for GPR experiments...

Search for and characterization of microorganisms in deep geological compartments

International Nuclear Information System (INIS)

Barsotti, Vanessa

2011-01-01

Over the past 50 years, the scientific community has shown a growing interest for deep geological compartments. However, these ecosystems remain largely unknown due to their inaccessibility. The aim of the present thesis was double; the first aim was to characterize, from a microbiological perspective, four terrestrial Triassic sedimentary formations located between 1700 and 2000 m depth in the Parisian Basin and collected by the ANDRA during a deep drilling campaign in 2008, and the second aim was to study the combined effects of temperature, pressure and salinity on the metabolic activity of anaerobic prokaryotes in order to predict their reaction to geological burial. Incubations in a large variety of media were carried out in order to stimulate the growth of the main trophic types found in such environments such as methanogens, fermenters and bacteria reducing sulphur compounds, however, no viable and cultivable microorganisms could be isolated. In parallel, a molecular approach was used to i) compare the efficacy of several DNA extractions methods and ii) analyse the bacterial diversity, using DGGE (Denaturing Gel Gradient Electrophoresis) and cloning, present in rock inner cores conserved either at atmospheric pressure or under pressure, in their initial states and following incubations in various media. The genetic exploration of these samples revealed a very low biomass and a poor diversity composed mainly of aerobic and mesophilic members of the Bacteria domain, a priori unadapted to such a deep, hot, saline and anoxic environment. This unexpected microbial community also found in many subsurface ecosystems as well as in extreme ecosystems could have partially originated from a paleo-recharge of the Trias aquifer with cold waters coming from the melting of ice formed during the last Pleistocene glaciation. The second objective was to study the combined effects of temperature (40, 55 and 70 C), pressure (1, 90 and 180 bars) and salinity (13, 50, 110, 180

Enamel subsurface damage due to tooth preparation with diamonds.

Science.gov (United States)

Xu, H H; Kelly, J R; Jahanmir, S; Thompson, V P; Rekow, E D

1997-10-01

In clinical tooth preparation with diamond burs, sharp diamond particles indent and scratch the enamel, causing material removal. Such operations may produce subsurface damage in enamel. However, little information is available on the mechanisms and the extent of subsurface damage in enamel produced during clinical tooth preparation. The aim of this study, therefore, was to investigate the mechanisms of subsurface damage produced in enamel during tooth preparation by means of diamond burs, and to examine the dependence of such damage on enamel rod orientation, diamond particle size, and removal rate. Subsurface damage was evaluated by a bonded-interface technique. Tooth preparation was carried out on two enamel rod orientations, with four clinical diamond burs (coarse, medium, fine, and superfine) used in a dental handpiece. The results of this study showed that subsurface damage in enamel took the form of median-type cracks and distributed microcracks, extending preferentially along the boundaries between the enamel rods. Microcracks within individual enamel rods were also observed. The median-type cracks were significantly longer in the direction parallel to the enamel rods than perpendicular to the rods. Preparation with the coarse diamond bur produced cracks as deep as 84 +/- 30 microns in enamel. Finishing with fine diamond burs was effective in crack removal. The crack lengths in enamel were not significantly different when the removal rate was varied. Based on these results, it is concluded that subsurface damage in enamel induced by tooth preparation takes the form of median-type cracks as well as inter- and intra-rod microcracks, and that the lengths of these cracks are sensitive to diamond particle size and enamel rod orientation, but insensitive to removal rate.

Bacteria as part of bioluminescence emission at the deep ANTARES station (North-Western Mediterranean Sea) during a one-year survey

Science.gov (United States)

Martini, S.; Michotey, V.; Casalot, L.; Bonin, P.; Guasco, S.; Garel, M.; Tamburini, C.

2016-10-01

Bioluminescent bacteria have been studied during a one-year survey in 2011 at the deep ANTARES site (Northwestern Mediterranean Sea, 2000 m depth). The neutrino underwater telescope ANTARES, located at this station, has been used to record the bioluminescence at the same depth. Together with these data, environmental variables (potential temperature, salinity, nutrients, dissolved organic carbon and oxygen) have been characterized in water samples. The year 2011 was characterized by relatively stable conditions, as revealed by minor variability in the monitored oceanographic variables, by low bioluminescence and low current speed. This suggests weak eukaryote participation and mainly non-stimulated light emission. Hence, no processes of dense water have affected the ANTARES station during this survey. Abundance of bioluminescent bacteria belonging to Photobacterium genus, measured by qPCR of the luxF gene, ranged from 1.4×102 to 7.2×102 genes mL-1. Their effective activity was confirmed through mRNA luxF quantification. Our results reveal that bioluminescent bacteria appeared more active than the total counterpart of bacteria, suggesting an ecological benefit of this feature such as favoring interaction with macro-organisms. Moreover, these results show that part of the bioluminescence, recorded at 2000 m depth over one year, could be due to bioluminescent bacteria in stable hydrological conditions.

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

Science.gov (United States)

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

Immunological techniques as tools to characterize the subsurface microbial community at a trichloroethylene contaminated site

Energy Technology Data Exchange (ETDEWEB)

Fliermans, C.B.; Dougherty, J.M.; Franck, M.M.; McKinzey, P.C.; Hazen, T.C.

1992-01-01

Effective in situ bioremediation strategies require an understanding of the effects pollutants and remediation techniques have on subsurface microbial communities. Therefore, detailed characterization of a site's microbial communities is important. Subsurface sediment borings and water samples were collected from a trichloroethylene (TCE) contaminated site, before and after horizontal well in situ air stripping and bioventing, as well as during methane injection for stimulation of methane-utilizing microorganisms. Subsamples were processed for heterotrophic plate counts, acridine orange direct counts (AODC), community diversity, direct fluorescent antibodies (DFA) enumeration for several nitrogen-transforming bacteria, and Biolog [reg sign] evaluation of enzyme activity in collected water samples. Plate counts were higher in near-surface depths than in the vadose zone sediment samples. During the in situ air stripping and bioventing, counts increased at or near the saturated zone, remained elevated throughout the aquifer, but did not change significantly after the air stripping. Sporadic increases in plate counts at different depths as well as increased diversity appeared to be linked to differing lithologies. AODCs were orders of magnitude higher than plate counts and remained relatively constant with depth except for slight increases near the surface depths and the capillary fringe. Nitrogen-transforming bacteria, as measured by serospecific DFA, were greatly affected both by the in situ air stripping and the methane injection. Biolog[reg sign] activity appeared to increase with subsurface stimulation both by air and methane. The complexity of subsurface systems makes the use of selective monitoring tools imperative.

Immunological techniques as tools to characterize the subsurface microbial community at a trichloroethylene contaminated site

Energy Technology Data Exchange (ETDEWEB)

Fliermans, C.B.; Dougherty, J.M.; Franck, M.M.; McKinzey, P.C.; Hazen, T.C.

1992-12-31

Effective in situ bioremediation strategies require an understanding of the effects pollutants and remediation techniques have on subsurface microbial communities. Therefore, detailed characterization of a site`s microbial communities is important. Subsurface sediment borings and water samples were collected from a trichloroethylene (TCE) contaminated site, before and after horizontal well in situ air stripping and bioventing, as well as during methane injection for stimulation of methane-utilizing microorganisms. Subsamples were processed for heterotrophic plate counts, acridine orange direct counts (AODC), community diversity, direct fluorescent antibodies (DFA) enumeration for several nitrogen-transforming bacteria, and Biolog {reg_sign} evaluation of enzyme activity in collected water samples. Plate counts were higher in near-surface depths than in the vadose zone sediment samples. During the in situ air stripping and bioventing, counts increased at or near the saturated zone, remained elevated throughout the aquifer, but did not change significantly after the air stripping. Sporadic increases in plate counts at different depths as well as increased diversity appeared to be linked to differing lithologies. AODCs were orders of magnitude higher than plate counts and remained relatively constant with depth except for slight increases near the surface depths and the capillary fringe. Nitrogen-transforming bacteria, as measured by serospecific DFA, were greatly affected both by the in situ air stripping and the methane injection. Biolog{reg_sign} activity appeared to increase with subsurface stimulation both by air and methane. The complexity of subsurface systems makes the use of selective monitoring tools imperative.

Labilibaculum manganireducens gen. nov., sp. nov. and Labilibaculum filiforme sp. nov., Novel Bacteroidetes Isolated from Subsurface Sediments of the Baltic Sea

Directory of Open Access Journals (Sweden)

Verona Vandieken

2018-01-01

Full Text Available Microbial communities in deep subsurface sediments are challenged by the decrease in amount and quality of organic substrates with depth. In sediments of the Baltic Sea, they might additionally have to cope with an increase in salinity from ions that have diffused downward from the overlying water during the last 9000 years. Here, we report the isolation and characterization of four novel bacteria of the Bacteroidetes from depths of 14–52 m below seafloor (mbsf of Baltic Sea sediments sampled during International Ocean Discovery Program (IODP Expedition 347. Based on physiological, chemotaxonomic and genotypic characterization, we propose that the four strains represent two new species within a new genus in the family Marinifilaceae, with the proposed names Labilibaculum manganireducens gen. nov., sp. nov. (type strain 59.10-2MT and Labilibaculum filiforme sp. nov. (type strains 59.16BT with additional strains of this species (59.10-1M and 60.6M. The draft genomes of the two type strains had sizes of 5.2 and 5.3 Mb and reflected the major physiological capabilities. The strains showed gliding motility, were psychrotolerant, neutrophilic and halotolerant. Growth by fermentation of mono- and disaccharides as well as pyruvate, lactate and glycerol was observed. During glucose fermentation, small amounts of electron equivalents were transferred to Fe(III by all strains, while one of the strains also reduced Mn(IV. Thereby, the four strains broaden the phylogenetic range of prokaryotes known to reduce metals to the group of Bacteroidetes. Halotolerance and metal reduction might both be beneficial for survival in deep subsurface sediments of the Baltic Sea.

Subsurface Biogeochemical Research FY11 Second Quarter Performance Measure

Energy Technology Data Exchange (ETDEWEB)

Scheibe, Timothy D.

2011-03-31

The Subsurface Biogeochemical Research (SBR) Long Term Measure for 2011 under the Performance Assessment Rating Tool (PART) measure is to "Refine subsurface transport models by developing computational methods to link important processes impacting contaminant transport at smaller scales to the field scale." The second quarter performance measure is to "Provide a report on computational methods linking genome-enabled understanding of microbial metabolism with reactive transport models to describe processes impacting contaminant transport in the subsurface." Microorganisms such as bacteria are by definition small (typically on the order of a micron in size), and their behavior is controlled by their local biogeochemical environment (typically within a single pore or a biofilm on a grain surface, on the order of tens of microns in size). However, their metabolic activity exerts strong influence on the transport and fate of groundwater contaminants of significant concern at DOE sites, in contaminant plumes with spatial extents of meters to kilometers. This report describes progress and key findings from research aimed at integrating models of microbial metabolism based on genomic information (small scale) with models of contaminant fate and transport in aquifers (field scale).

Desiccation-crack-induced salinization in deep clay sediment

Directory of Open Access Journals (Sweden)

S. Baram

2013-04-01

Full Text Available A study on water infiltration and solute transport in a clayey vadose zone underlying a dairy farm waste source was conducted to assess the impact of desiccation cracks on subsurface evaporation and salinization. The study is based on five years of continuous measurements of the temporal variation in the vadose zone water content and on the chemical and isotopic composition of the sediment and pore water in it. The isotopic composition of water stable isotopes (δ18O and δ2H in water and sediment samples, from the area where desiccation crack networks prevail, indicated subsurface evaporation down to ~ 3.5 m below land surface, and vertical and lateral preferential transport of water, following erratic preferential infiltration events. Chloride (Cl− concentrations in the vadose zone pore water substantially increased with depth, evidence of deep subsurface evaporation and down flushing of concentrated solutions from the evaporation zones during preferential infiltration events. These observations led to development of a desiccation-crack-induced salinization (DCIS conceptual model. DCIS suggests that thermally driven convective air flow in the desiccation cracks induces evaporation and salinization in relatively deep sections of the subsurface. This conceptual model supports previous conceptual models on vadose zone and groundwater salinization in fractured rock in arid environments and extends its validity to clayey soils in semi-arid environments.

Composition and structure of the shallow subsurface of Ceres revealed by crater morphology

Science.gov (United States)

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.

Review of potential subsurface permeable barrier emplacement and monitoring technologies

International Nuclear Information System (INIS)

Riggsbee, W.H.; Treat, R.L.; Stansfield, H.J.; Schwarz, R.M.; Cantrell, K.J.; Phillips, S.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, or 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

Biogeography and ecology of the rare and abundant microbial lineages in deep-sea hydrothermal vents.

Science.gov (United States)

Anderson, Rika E; Sogin, Mitchell L; Baross, John A

2015-01-01

Environmental gradients generate countless ecological niches in deep-sea hydrothermal vent systems, which foster diverse microbial communities. The majority of distinct microbial lineages in these communities occur in very low abundance. However, the ecological role and distribution of rare and abundant lineages, particularly in deep, hot subsurface environments, remain unclear. Here, we use 16S rRNA tag sequencing to describe biogeographic patterning and microbial community structure of both rare and abundant archaea and bacteria in hydrothermal vent systems. We show that while rare archaeal lineages and almost all bacterial lineages displayed geographically restricted community structuring patterns, the abundant lineages of archaeal communities displayed a much more cosmopolitan distribution. Finally, analysis of one high-volume, high-temperature fluid sample representative of the deep hot biosphere described a unique microbial community that differed from microbial populations in diffuse flow fluid or sulfide samples, yet the rare thermophilic archaeal groups showed similarities to those that occur in sulfides. These results suggest that while most archaeal and bacterial lineages in vents are rare and display a highly regional distribution, a small percentage of lineages, particularly within the archaeal domain, are successful at widespread dispersal and colonization. © FEMS 2014. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Direct heat resource assessment and subsurface information systems for geothermal aquifers; the Dutch perspetive

NARCIS (Netherlands)

Kramers, L.; Wees, van J.-D.; Pluymaekers, M.P.D.; Kronimus, A.; Boxem, T.

2012-01-01

A resource assessment methodology has been developed to designate prospective high permeable clastic aquifers and to assess the amount of potential geothermal energy in the Netherlands. It builds from the wealth of deep subsurface data from oil and gas exploration and production which is

Diversity of methanogens and sulfate-reducing bacteria in the interfaces of five deep-sea anoxic brines of the Red Sea

KAUST Repository

Guan, Yue

2015-11-01

Oceanic deep hypersaline anoxic basins (DHABs) are characterized by drastic changes in physico-chemical conditions in the transition from overlaying seawater to brine body. Brine-seawater interfaces (BSIs) of several DHABs across the Mediterranean Sea have been shown to possess methanogenic and sulfate-reducing activities, yet no systematic studies have been conducted to address the potential functional diversity of methanogenic and sulfate-reducing communities in the Red Sea DHABs. Here, we evaluated the relative abundance of Bacteria and Archaea using quantitative PCR and conducted phylogenetic analyses of nearly full-length 16S rRNA genes as well as functional marker genes encoding the alpha subunits of methyl-coenzyme M reductase (mcrA) and dissimilatory sulfite reductase (dsrA). Bacteria predominated over Archaea in most locations, the majority of which were affiliated with Deltaproteobacteria, while Thaumarchaeota were the most prevalent Archaea in all sampled locations. The upper convective layers of Atlantis II Deep, which bear increasingly harsh environmental conditions, were dominated by members of the class Thermoplasmata (Marine Benthic Group E and Mediterranean Sea Brine Lakes Group 1). Our study revealed unique microbial compositions, the presence of niche-specific groups, and collectively, a higher diversity of sulfate-reducing communities compared to methanogenic communities in all five studied locations. © 2015 Institut Pasteur.

Diversity of methanogens and sulfate-reducing bacteria in the interfaces of five deep-sea anoxic brines of the Red Sea

KAUST Repository

Guan, Yue; Hikmawan, Tyas; Antunes, Andre; Ngugi, David; Stingl, Ulrich

2015-01-01

Oceanic deep hypersaline anoxic basins (DHABs) are characterized by drastic changes in physico-chemical conditions in the transition from overlaying seawater to brine body. Brine-seawater interfaces (BSIs) of several DHABs across the Mediterranean Sea have been shown to possess methanogenic and sulfate-reducing activities, yet no systematic studies have been conducted to address the potential functional diversity of methanogenic and sulfate-reducing communities in the Red Sea DHABs. Here, we evaluated the relative abundance of Bacteria and Archaea using quantitative PCR and conducted phylogenetic analyses of nearly full-length 16S rRNA genes as well as functional marker genes encoding the alpha subunits of methyl-coenzyme M reductase (mcrA) and dissimilatory sulfite reductase (dsrA). Bacteria predominated over Archaea in most locations, the majority of which were affiliated with Deltaproteobacteria, while Thaumarchaeota were the most prevalent Archaea in all sampled locations. The upper convective layers of Atlantis II Deep, which bear increasingly harsh environmental conditions, were dominated by members of the class Thermoplasmata (Marine Benthic Group E and Mediterranean Sea Brine Lakes Group 1). Our study revealed unique microbial compositions, the presence of niche-specific groups, and collectively, a higher diversity of sulfate-reducing communities compared to methanogenic communities in all five studied locations. © 2015 Institut Pasteur.

Earthquakes - a danger to deep-lying repositories?

International Nuclear Information System (INIS)

2012-03-01

This booklet issued by the Swiss National Cooperative for the Disposal of Radioactive Waste NAGRA takes a look at geological factors concerning earthquakes and the safety of deep-lying repositories for nuclear waste. The geological processes involved in the occurrence of earthquakes are briefly looked at and the definitions for magnitude and intensity of earthquakes are discussed. Examples of damage caused by earthquakes are given. The earthquake situation in Switzerland is looked at and the effects of earthquakes on sub-surface structures and deep-lying repositories are discussed. Finally, the ideas proposed for deep-lying geological repositories for nuclear wastes are discussed

Investigation of isotopic and biomolecular approaches as new bio-indicators for long term natural attenuation of monoaromatic compounds in deep terrestrial aquifers by gram-positive sporulated sulfate-reducing bacteria of the genus Desulfotomaculum.

Directory of Open Access Journals (Sweden)

Thomas eAüllo

2016-02-01

Full Text Available 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 meter-deep geological gas storage aquifer was sampled and microcosms were set up to test the biodegradation potential of BTEX by indigenous microorganisms. 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.

Subsurface Ocean Tides in Enceladus and Other Icy Moons

Science.gov (United States)

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.

A multiscale fixed stress split iterative scheme for coupled flow and poromechanics in deep subsurface reservoirs

Science.gov (United States)

Dana, Saumik; Ganis, Benjamin; Wheeler, Mary F.

2018-01-01

In coupled flow and poromechanics phenomena representing hydrocarbon production or CO2 sequestration in deep subsurface reservoirs, the spatial domain in which fluid flow occurs is usually much smaller than the spatial domain over which significant deformation occurs. The typical approach is to either impose an overburden pressure directly on the reservoir thus treating it as a coupled problem domain or to model flow on a huge domain with zero permeability cells to mimic the no flow boundary condition on the interface of the reservoir and the surrounding rock. The former approach precludes a study of land subsidence or uplift and further does not mimic the true effect of the overburden on stress sensitive reservoirs whereas the latter approach has huge computational costs. In order to address these challenges, we augment the fixed-stress split iterative scheme with upscaling and downscaling operators to enable modeling flow and mechanics on overlapping nonmatching hexahedral grids. Flow is solved on a finer mesh using a multipoint flux mixed finite element method and mechanics is solved on a coarse mesh using a conforming Galerkin method. The multiscale operators are constructed using a procedure that involves singular value decompositions, a surface intersections algorithm and Delaunay triangulations. We numerically demonstrate the convergence of the augmented scheme using the classical Mandel's problem solution.

Final Technical Report. Origins of subsurface microorganisms: Relating laboratory microcosm studies to a geologic time scale; FINAL

International Nuclear Information System (INIS)

Kieft, Thomas; Amy, Penny S.; Phillips, Fred M.

1998-01-01

This project was conducted as part of the Department of Energy's Deep Subsurface Science Program. It was part of a larger effort to determine the origins of subsurface microorganisms. Two hypotheses have been suggested for the origins of subsurface microorganisms: (1) microorganisms were deposited at the time of (or shortly after) geologic deposition of rocks and sediments (the in situ survival hypothesis), and (2) microorganisms have been transported from surface environments to subsurface rocks and sediments since the time of geologic deposition (transport hypothesis). These two hypotheses are not mutually exclusive. Depending on the geological setting, either one or both of these hypotheses may best explain microbial origins. Our project focused on the in situ survival hypothesis. We tested the hypothesis that microorganisms (individuals populations and communities) can survive long-term sequestration within subsurface sediments. Other objectives were to identify geologic conditions that favor long-term survival, identify physiological traits of microorganisms that favor long-term survival, and determine which groups of microorganisms are most likely to survive long-term sequestration in subsurface sediments. We tested this hypothesis using a combination of pure culture techniques in laboratory microcosms under controlled conditions and field experiments with buried subsurface sediments

Characterization of two subsurface H2-utilizing bacteria, Desulfomicrobium hypogeium sp. nov. and Acetobacterium psammolithicum sp. nov., and their ecological roles.

Science.gov (United States)

Krumholz, L R; Harris, S H; Tay, S T; Suflita, J M

1999-06-01

We examined the relative roles of acetogenic and sulfate-reducing bacteria in H2 consumption in a previously characterized subsurface sandstone ecosystem. Enrichment cultures originally inoculated with ground sandstone material obtained from a Cretaceous formation in central New Mexico were grown with hydrogen in a mineral medium supplemented with 0.02% yeast extract. Sulfate reduction and acetogenesis occurred in these cultures, and the two most abundant organisms carrying out the reactions were isolated. Based on 16S rRNA analysis data and on substrate utilization patterns, these organisms were named Desulfomicrobium hypogeium sp. nov. and Acetobacterium psammolithicum sp. nov. The steady-state H2 concentrations measured in sandstone-sediment slurries (threshold concentration, 5 nM), in pure cultures of sulfate reducers (threshold concentration, 2 nM), and in pure cultures of acetogens (threshold concentrations 195 to 414 nM) suggest that sulfate reduction is the dominant terminal electron-accepting process in the ecosystem examined. In an experiment in which direct competition for H2 between D. hypogeium and A. psammolithicum was examined, sulfate reduction was the dominant process.

Modeling the Dutch subsurface: From paper product towards dissemination of a 3D-digital model

NARCIS (Netherlands)

Dulk, M. den; Doornenbal, J.C.; Veen, J.H. ten

2015-01-01

The Geological Survey of the Netherlands carried out several major mapping projects to construct a consistent, regional-scale petroleum geological framework for the deep subsurface of the Netherlands, both on- and offshore. In the last decade the modeling approach has developed into a fully digital

Differential staining of bacteria: acid fast stain.

Science.gov (United States)

Reynolds, Jackie; Moyes, Rita B; Breakwell, Donald P

2009-11-01

Acid-fastness is an uncommon characteristic shared by the genera Mycobacterium (Section 10A) and Nocardia. Because of this feature, this stain is extremely helpful in identification of these bacteria. Although Gram positive, acid-fast bacteria do not take the crystal violet into the wall well, appearing very light purple rather than the deep purple of normal Gram-positive bacteria. (c) 2009 by John Wiley & Sons, Inc.

Unconventional energy resources in a crowded subsurface: Reducing uncertainty and developing a separation zone concept for resource estimation and deep 3D subsurface planning using legacy mining data.

Science.gov (United States)

Monaghan, Alison A

2017-12-01

Over significant areas of the UK and western Europe, anthropogenic alteration of the subsurface by mining of coal has occurred beneath highly populated areas which are now considering a multiplicity of 'low carbon' unconventional energy resources including shale gas and oil, coal bed methane, geothermal energy and energy storage. To enable decision making on the 3D planning, licensing and extraction of these resources requires reduced uncertainty around complex geology and hydrogeological and geomechanical processes. An exemplar from the Carboniferous of central Scotland, UK, illustrates how, in areas lacking hydrocarbon well production data and 3D seismic surveys, legacy coal mine plans and associated boreholes provide valuable data that can be used to reduce the uncertainty around geometry and faulting of subsurface energy resources. However, legacy coal mines also limit unconventional resource volumes since mines and associated shafts alter the stress and hydrogeochemical state of the subsurface, commonly forming pathways to the surface. To reduce the risk of subsurface connections between energy resources, an example of an adapted methodology is described for shale gas/oil resource estimation to include a vertical separation or 'stand-off' zone between the deepest mine workings, to ensure the hydraulic fracturing required for shale resource production would not intersect legacy coal mines. Whilst the size of such separation zones requires further work, developing the concept of 3D spatial separation and planning is key to utilising the crowded subsurface energy system, whilst mitigating against resource sterilisation and environmental impacts, and could play a role in positively informing public and policy debate. Copyright © 2017 British Geological Survey, a component institute of NERC. Published by Elsevier B.V. All rights reserved.

The Microworld of Marine-Bacteria

DEFF Research Database (Denmark)

JØRGENSEN, BB

1995-01-01

Microsensor studies show that the marine environment in the size scale of bacteria is physically and chemically very different from the macroenvironment. The microbial world of the sediment-water interface is thus dominated by water viscosity and steep diffusion gradients. Because of the diverse...... metabolism types, bacteria in the mostly anoxic sea floor play an important role in the major element cycles of the ocean. The communities of giant, filamentous sulfur bacteria that live in the deep-sea hydrothermal vents or along the Pacific coast of South America are presented here as examples....

Reduction and precipitation of neptunium(V) by sulfate-reducing bacteria

International Nuclear Information System (INIS)

Banaszak, J. E.; Rittmann, B. E.; Reed, D. T.

1999-01-01

Migration of neptunium, as NpO 2 + , has been identified as a potentially important pathway for actinide release at nuclear waste repositories and existing sites of subsurface contamination. Reduction of Np(V) to Np(IV) will likely reduce its volubility, resulting in lowered subsurface migration. The ability of sulfate-reducing bacteria (SRB) to utilize Np(V) as an electron acceptor was investigated, because these bacteria are active in many anaerobic aquifers and are known to facilitate the reduction of metals and radionuclides. Pure and mixed cultures of SRB were able to precipitate neptunium during utilization of pyruvate, lactate, and hydrogen as electron donors in the presence and absence of sulfate. The neptunium in the precipitate was identified as Np(IV) using X-ray absorption near edge spectroscopy (XANES) analysis. In mixed-culture studies, the addition of hydrogen to consortia grown by pyruvate fermentation stimulated neptunium reduction and precipitation. Experiments with pure cultures of Desulfovibrio vulgaris, growing by lactate fermentation in the absence of sulfate or by sulfate reduction, confirm that the organism is active in neptunium reduction and precipitation. Based on our results, the activity of SRB in the subsurface may have a significant, and potentially beneficial, impact on actinide mobility by reducing neptunium volubility

Gene expression correlates with process rates quantified for sulfate- and Fe(III-reducing bacteria in U(VI-contaminated sediments

Directory of Open Access Journals (Sweden)

Denise M Akob

2012-08-01

Full Text Available Though iron- and sulfate-reducing bacteria are well known for mediating uranium(VI reduction in contaminated subsurface environments, quantifying the in situ activity of the microbial groups responsible remains a challenge. The objective of this study was to demonstrate the use of quantitative molecular tools that target mRNA transcripts of key genes related to Fe(III and sulfate reduction pathways in order to monitor these processes during in situ U(VI remediation in the subsurface. Expression of the Geobacteraceae-specific citrate synthase gene (gltA and the dissimilatory (bisulfite reductase gene (dsrA, were correlated with the activity of iron- or sulfate-reducing microorganisms, respectively, under stimulated bioremediation conditions in microcosms of sediments sampled from the U.S. Department of Energy’s Oak Ridge Integrated Field Research Challenge (OR-IFRC site at Oak Ridge, Tennessee. In addition, Geobacteraceae-specific gltA and dsrA transcript levels were determined in parallel with the predominant electron acceptors present in moderately and highly contaminated subsurface sediments from the OR-IFRC. Phylogenetic analysis of the cDNA generated from dsrA mRNA, sulfate-reducing bacteria-specific 16S rRNA, and gltA mRNA identified activity of specific microbial groups. Active sulfate reducers were members of the Desulfovibrio, Desulfobacterium, and Desulfotomaculum genera. Members of the subsurface Geobacter clade, closely related to uranium-reducing Geobacter uraniireducens and Geobacter daltonii, were the metabolically-active iron-reducers in biostimulated microcosms and in situ core samples. Direct correlation of transcripts and process rates demonstrated evidence of competition between the functional guilds in subsurface sediments. We further showed that active populations of Fe(III-reducing bacteria and sulfate-reducing bacteria are present in OR-IFRC sediments and are good potential targets for in situ bioremediation.

Phylogenetic evidence of noteworthy microflora from the subsurface of the former Homestake gold mine, Lead, South Dakota

Science.gov (United States)

Waddell, Evan J.; Elliott, Terran J.; Sani, Rajesh K.; Vahrenkamp, Jefferey M.; Roggenthen, William M.; Anderson, Cynthia M.; Bang, Sookie S.

2013-01-01

Molecular characterization of subsurface microbial communities in the former Homestake gold mine, South Dakota, was carried out by 16S rDNA sequence analysis using a water sample and a weathered soil–like sample. Geochemical analyses indicated that both samples were high in sulfur, rich in nitrogen and salt, but with significantly different metal concentrations. Microbial diversity comparisons unexpectedly revealed three distinct operational taxonomic units (OTUs) belonging to the archaeal phylum Thaumarchaeota typically identified from marine environments, and one OTU to a potentially novel phylum that falls sister to Thaumarchaeota. To our knowledge this is only the second report of Thaumarchaeota in a terrestrial environment. The majority of the clones from Archaea sequence libraries fell into two closely related OTUs and grouped most closely to an ammonia–oxidizing, carbon–fixing and halophilic thaumarchaeote genus, Nitrosopumilus. The two samples showed neither Euryarchaeota nor Crenarchaeota members that were often identified from other subsurface terrestrial ecosystems. Bacteria OTUs containing the highest percentage of sequences were related to sulfur-oxidizing bacteria of the orders Chromatiales and Thiotrichales. Community members of Bacteria from individual Homestake ecosystems were heterogeneous and distinctive to each community with unique phylotypes identified within each sample. PMID:20662386

In-situ Planetary Subsurface Imaging System

Science.gov (United States)

Song, W.; Weber, R. C.; Dimech, J. L.; Kedar, S.; Neal, C. R.; Siegler, M.

2017-12-01

Geophysical and seismic instruments are considered the most effective tools for studying the detailed global structures of planetary interiors. A planet's interior bears the geochemical markers of its evolutionary history, as well as its present state of activity, which has direct implications to habitability. On Earth, subsurface imaging often involves massive data collection from hundreds to thousands of geophysical sensors (seismic, acoustic, etc) followed by transfer by hard links or wirelessly to a central location for post processing and computing, which will not be possible in planetary environments due to imposed mission constraints on mass, power, and bandwidth. Emerging opportunities for geophysical exploration of the solar system from Venus to the icy Ocean Worlds of Jupiter and Saturn dictate that subsurface imaging of the deep interior will require substantial data reduction and processing in-situ. The Real-time In-situ Subsurface Imaging (RISI) technology is a mesh network that senses and processes geophysical signals. Instead of data collection then post processing, the mesh network performs the distributed data processing and computing in-situ, and generates an evolving 3D subsurface image in real-time that can be transmitted under bandwidth and resource constraints. Seismic imaging algorithms (including traveltime tomography, ambient noise imaging, and microseismic imaging) have been successfully developed and validated using both synthetic and real-world terrestrial seismic data sets. The prototype hardware system has been implemented and can be extended as a general field instrumentation platform tailored specifically for a wide variety of planetary uses, including crustal mapping, ice and ocean structure, and geothermal systems. The team is applying the RISI technology to real off-world seismic datasets. For example, the Lunar Seismic Profiling Experiment (LSPE) deployed during the Apollo 17 Moon mission consisted of four geophone instruments

Isolation of sulfate-reducing bacteria from sediments above the deep-subseafloor aquifer.

Science.gov (United States)

Fichtel, Katja; Mathes, Falko; Könneke, Martin; Cypionka, Heribert; Engelen, Bert

2012-01-01

On a global scale, crustal fluids fuel a large part of the deep-subseafloor biosphere by providing electron acceptors for microbial respiration. In this study, we examined bacterial cultures from sediments of the Juan de Fuca Ridge, Northeast Pacific (IODP Site U1301). The sediments comprise three distinctive compartments: an upper sulfate-containing zone, formed by bottom-seawater diffusion, a sulfate-depleted zone, and a second (∼140 m thick) sulfate-containing zone influenced by fluid diffusion from the basaltic aquifer. In order to identify and characterize sulfate-reducing bacteria, enrichment cultures from different sediment layers were set up, analyzed by molecular screening, and used for isolating pure cultures. The initial enrichments harbored specific communities of heterotrophic microorganisms. Strains affiliated to Desulfosporosinus lacus, Desulfotomaculum sp., and Desulfovibrio aespoeensis were isolated only from the top layers (1.3-9.1 meters below seafloor, mbsf), while several strains of Desulfovibrio indonesiensis and a relative of Desulfotignum balticum were obtained from near-basement sediments (240-262 mbsf). Physiological tests on three selected strains affiliated to Dv. aespoeensis, Dv. indonesiensis, and Desulfotignum balticum indicated that all reduce sulfate with a limited number of short-chain n-alcohols or fatty acids and were able to ferment either ethanol, pyruvate, or betaine. All three isolates shared the capacity of growing chemolithotrophically with H(2) as sole electron donor. Strain P23, affiliating with Dv. indonesiensis, even grew autotrophically in the absence of any organic compounds. Thus, H(2) might be an essential electron donor in the deep-subseafloor where the availability of organic substrates is limited. The isolation of non-sporeforming sulfate reducers from fluid-influenced layers indicates that they have survived the long-term burial as active populations even after the separation from the seafloor hundreds

Taxonomic study of aromatic-degrading bacteria from deep-terrestrial-subsurface sediments and description of Sphingomonas aromaticivorans sp. nov., Sphingomonas subterranea sp. nov., and Sphingomonas stygia sp. nov.

Science.gov (United States)

Balkwill, D L; Drake, G R; Reeves, R H; Fredrickson, J K; White, D C; Ringelberg, D B; Chandler, D P; Romine, M F; Kennedy, D W; Spadoni, C M

1997-01-01

Phylogenetic analyses of 16S rRNA gene sequences by distance matrix and parsimony methods indicated that six strains of bacteria isolated from deep saturated Atlantic coastal plain sediments were closely related to the genus Sphingomonas. Five of the strains clustered with, but were distinct from, Sphingomonas capsulata, whereas the sixth strain was most closely related to Blastobacter natatorius. The five strains that clustered with S. capsulata, all of which could degrade aromatic compounds, were gram-negative, non-spore-forming, non-motile, rod-shaped organisms that produced small, yellow colonies on complex media. Their G + C contents ranged from 60.0 to 65.4 mol%, and the predominant isoprenoid quinone was ubiquinone Q-10. All of the strains were aerobic and catalase positive. Indole, urease, and arginine dihydrolase were not produced. Gelatin was not liquified, and glucose was not fermented. Sphingolipids were present in all strains; 2OH14:0 was the major hydroxy fatty acid, and 18:1 was a major constituent of cellular lipids. Acid was produced oxidatively from pentoses, hexoses, and disaccharides, but not from polyalcohols and indole. All of these characteristics indicate that the five aromatic-degrading strains should be placed in the genus Sphingomonas as currently defined. Phylogenetic analysis of 16S rRNA gene sequences, DNA-DNA reassociation values, BOX-PCR genomic fingerprinting, differences in cellular lipid composition, and differences in physiological traits all indicated that the five strains represent three previously undescribed Sphingomonas species. Therefore, we propose the following new species: Sphingomonas aromaticivorans (type strain, SMCC F199), Sphingomonas subterranea (type strain, SMCC B0478), and Sphingomonas stygia (type strain, SMCC B0712).

Tetracycline Resistance in the Subsurface of a Poultry Farm: Influence of Poultry Wastes

Science.gov (United States)

You, Y.; Ball, W. P.; Ward, M. J.; Hilpert, M.

2007-12-01

Concentrated animal feeding operations (CAFOs) are considered to be important man-made reservoir of antibiotic resistant bacteria. Using the electromagnetic induction (EMI) method of geophysical characterization, we measured the apparent subsurface electrical conductivity (ECa) at a CAFO site in order to assess the movement of pollutants associated with animal waste. The map of ECa and other available data suggest that (1) soil surrounding a poultry litter storage shed is contaminated by poultry waste, (2) a contamination plume in the subsurface emanates from that shed, and (3) the development of that plume is due to groundwater flow. We focused on understanding the spread of tetracycline resistance (Tc\\tiny R), because tetracycline is one of the most frequently used antibiotics in food animal production and therefore probably used at our field site. Microbiological experiments show the presence of Tc\\tiny R bacteria in the subsurface and indicate higher concentrations in the top soil than in the aquifer. Environmental DNA was extracted to identify CAFO- associated Tc\\tiny R genes and to explore a link between the presence of Tc\\tiny R and CAFO practices. A "shot-gun" cloning approach is under development to target the most prevalent Tc\\tiny R gene. This gene will be monitored in future experiments, in which we will study the transmission of Tc\\tiny R to naive E.~coli under selective pressure of Tc. Experimental results will be used to develop a mathematical/numerical model in order to describe the transmission process and to subsequently make estimates regarding the large-scale spread of antibiotic resistance.

Subsurface intakes for seawater reverse osmosis facilities: Capacity limitation, water quality improvement, and economics

KAUST Repository

Missimer, Thomas M.

2013-08-01

The use of subsurface intake systems for seawater reverse osmosis (SWRO) desalination plants significantly improves raw water quality, reduces chemical usage and environmental impacts, decreases the carbon footprint, and reduces cost of treated water to consumers. These intakes include wells (vertical, angle, and radial type) and galleries, which can be located either on the beach or in the seabed. Subsurface intakes act both as intakes and as part of the pretreatment system by providing filtration and active biological treatment of the raw seawater. Recent investigations of the improvement in water quality made by subsurface intakes show lowering of the silt density index by 75 to 90%, removal of nearly all algae, removal of over 90% of bacteria, reduction in the concentrations of TOC and DOC, and virtual elimination of biopolymers and polysaccharides that cause organic biofouling of membranes. Economic analyses show that overall SWRO operating costs can be reduced by 5 to 30% by using subsurface intake systems. Although capital costs can be slightly to significantly higher compared to open-ocean intake system costs, a preliminary life-cycle cost analysis shows significant cost saving over operating periods of 10 to 30. years. © 2013 Elsevier B.V.

Microbial activity in the marine deep biosphere: progress and prospects.

Science.gov (United States)

Orcutt, Beth N; Larowe, Douglas E; Biddle, Jennifer F; Colwell, Frederick S; Glazer, Brian T; Reese, Brandi Kiel; Kirkpatrick, John B; Lapham, Laura L; Mills, Heath J; Sylvan, Jason B; Wankel, Scott D; Wheat, C Geoff

2013-01-01

The vast marine deep biosphere consists of microbial habitats within sediment, pore waters, upper basaltic crust and the fluids that circulate throughout it. A wide range of temperature, pressure, pH, and electron donor and acceptor conditions exists-all of which can combine to affect carbon and nutrient cycling and result in gradients on spatial scales ranging from millimeters to kilometers. Diverse and mostly uncharacterized microorganisms live in these habitats, and potentially play a role in mediating global scale biogeochemical processes. Quantifying the rates at which microbial activity in the subsurface occurs is a challenging endeavor, yet developing an understanding of these rates is essential to determine the impact of subsurface life on Earth's global biogeochemical cycles, and for understanding how microorganisms in these "extreme" environments survive (or even thrive). Here, we synthesize recent advances and discoveries pertaining to microbial activity in the marine deep subsurface, and we highlight topics about which there is still little understanding and suggest potential paths forward to address them. This publication is the result of a workshop held in August 2012 by the NSF-funded Center for Dark Energy Biosphere Investigations (C-DEBI) "theme team" on microbial activity (www.darkenergybiosphere.org).

Subsurface microbial ecology. Epi fluorescence direct counts; Ecologia microbica del sottosuolo: metodo di conta diretta in epifluorescenza

Energy Technology Data Exchange (ETDEWEB)

Barra Caracciolo, A.; Silvestri, C.; Creo, C.; Izzo, G. [ENEA, Centro Ricerche Casaccia, Rome (Italy). Dipt. Ambiente

1998-07-01

To the aim of recognize the importance of microorganisms in affecting or even determining the fate of xenobiotics in the subsurface environment evaluating bacteria concentration in a subsurface ecosystem, the report discusses a soil sample treatment method which has been developed for epi fluorescence direct counting with DAPI. [Italian] Lo studio discute un metodo di trattamento del campione per la conta diretta in epifluorescenza con un marcatore selettivo per il DNA, il DAPI, al fine di quantificare la concentrazione batterica del sottosuolo e studiare il ruolo dei microrganismi nella biodegradazione delle molecole esogene, ancora poco indagato.

Neptunium(V) adsorption to bacteria at low and high ionic strength

International Nuclear Information System (INIS)

Ams, David A.; Swanson, Juliet S.; Reed, Donald T.; Fein, Jeremy B.

2010-01-01

Np(V) is expected to be the predominant oxidation state of neptunium in aerobic natural waters. Np(V), as the NpO 2 + aquo and associated complexed species, is readily soluble, weakly interacting with geologic media, and has a high redox stability under a relatively wide range of subsurface conditions. These chemical properties, along with a long half-life make it a primary element of concern regarding long-term nuclear waste storage and subsurface contaminant. The fate and transport of neptunium in the environment may be influenced by adsorption onto bacterial surfaces. The adsorption of neptunium to bacterial surfaces ties the mobility of the contaminant to the mobility of the bacterium. In this study, the adsorption of the neptunyl (NpO 2 + ) ion was evaluated at low ionic strength on a common soil bacterium and at high ionic strength on a halophilic bacterium isolated from a briny groundwater near the Waste Isolation Pilot Plant (WIPP) in southeast New Mexico. Adsorption experiments were performed in batch reactors as a function of pH, ionic strength, and bacterialNp mass ratio. Np(V) adsorption was modeled using a surface complexation approach with the mathematical program FITEQL to determine functional group specific binding constants. The data from acid and base titrations of the bacteria were also modeled to estimate the concentrations and deprotonation constants of discrete bacterial surface functional groups. Bacterial functional group characteristics and Np(V) adsorption behavior between the soil bacterium and the halophilic bacterium were compared. These results highlight the key similarities and differences in actinide adsorption behavior in environments of significantly different ionic strength. Similarities in adsorption behavior may be linked to similarities in the characteristics of the moieties between all bacterial cell walls. Differences in adsorption behavior may reflect differences in ionic strength effects, rather than differences in bacteria

Neptunium(V) adsorption to bacteria at low and high ionic strength

Energy Technology Data Exchange (ETDEWEB)

Ams, David A [Los Alamos National Laboratory; Swanson, Juliet S [Los Alamos National Laboratory; Reed, Donald T [Los Alamos National Laboratory; Fein, Jeremy B [UNIV OF NOTRE DAME

2010-12-08

Np(V) is expected to be the predominant oxidation state of neptunium in aerobic natural waters. Np(V), as the NpO{sub 2}{sup +} aquo and associated complexed species, is readily soluble, weakly interacting with geologic media, and has a high redox stability under a relatively wide range of subsurface conditions. These chemical properties, along with a long half-life make it a primary element of concern regarding long-term nuclear waste storage and subsurface contaminant. The fate and transport of neptunium in the environment may be influenced by adsorption onto bacterial surfaces. The adsorption of neptunium to bacterial surfaces ties the mobility of the contaminant to the mobility of the bacterium. In this study, the adsorption of the neptunyl (NpO{sub 2}{sup +}) ion was evaluated at low ionic strength on a common soil bacterium and at high ionic strength on a halophilic bacterium isolated from a briny groundwater near the Waste Isolation Pilot Plant (WIPP) in southeast New Mexico. Adsorption experiments were performed in batch reactors as a function of pH, ionic strength, and bacterialNp mass ratio. Np(V) adsorption was modeled using a surface complexation approach with the mathematical program FITEQL to determine functional group specific binding constants. The data from acid and base titrations of the bacteria were also modeled to estimate the concentrations and deprotonation constants of discrete bacterial surface functional groups. Bacterial functional group characteristics and Np(V) adsorption behavior between the soil bacterium and the halophilic bacterium were compared. These results highlight the key similarities and differences in actinide adsorption behavior in environments of significantly different ionic strength. Similarities in adsorption behavior may be linked to similarities in the characteristics of the moieties between all bacterial cell walls. Differences in adsorption behavior may reflect differences in ionic strength effects, rather than

Evaluation of a subsurface oxygenation technique using colloidal gas aphron injections into packed column reactors

International Nuclear Information System (INIS)

Wills, R.A.; Coles, P.

1991-11-01

Bioremediation may be a remedial technology capable of decontaminating subsurface environments. The objective of this research was to evaluate the use of colloidal gas aphron (CGA) injection, which is the injection of micrometer-size air bubbles in an aqueous surfactant solution, as a subsurface oxygenation technique to create optimal growth conditions for aerobic bacteria. Along with this, the capability of CGAs to act as a soil-washing agent and free organic components from a coal tar-contaminated matrix was examined. Injection of CGAs may be useful for remediation of underground coal gasification (UCG) sites. Because of this, bacteria and solid material from a UCG site located in northeastern Wyoming were used in this research. Colloidal gas aphrons were generated and pumped through packed column reactors (PCRS) containing post-burn core materials. For comparison, PCRs containing sand were also studied. Bacteria from this site were tested for their capability to degrade phenol, a major contaminant at the UCG site, and were also used to bioaugment the PCR systems. In this study we examined: (1) the effect of CGA injection on dissolved oxygen concentrations in the PCR effluents, (2) the effect of CGA, H 2 O 2 , and phenol injections on bacterial populations, (3) the stability and transport of CGAs over distance, and (4) CGA injection versus H 2 O 2 injection as an oxygenation technique

Distribution of PAHs and the PAH-degrading bacteria in the deep-sea sediments of the high-latitude Arctic Ocean

Science.gov (United States)

Dong, C.; Bai, X.; Sheng, H.; Jiao, L.; Zhou, H.; Shao, Z.

2015-04-01

Polycyclic aromatic hydrocarbons (PAHs) are common organic pollutants that can be transferred long distances and tend to accumulate in marine sediments. However, less is known regarding the distribution of PAHs and their natural bioattenuation in the open sea, especially the Arctic Ocean. In this report, sediment samples were collected at four sites from the Chukchi Plateau to the Makarov Basin in the summer of 2010. PAH compositions and total concentrations were examined with GC-MS. The concentrations of 16 EPA-priority PAHs varied from 2.0 to 41.6 ng g-1 dry weight and decreased with sediment depth and movement from the southern to the northern sites. Among the targeted PAHs, phenanthrene was relatively abundant in all sediments. The 16S rRNA gene of the total environmental DNA was analyzed with Illumina high-throughput sequencing (IHTS) to determine the diversity of bacteria involved in PAH degradation in situ. The potential degraders including Cycloclasticus, Pseudomonas, Halomonas, Pseudoalteromonas, Marinomonas, Bacillus, Dietzia, Colwellia, Acinetobacter, Alcanivorax, Salinisphaera and Shewanella, with Dietzia as the most abundant, occurred in all sediment samples. Meanwhile, enrichment with PAHs was initiated onboard and transferred to the laboratory for further enrichment and to obtain the degrading consortia. Most of the abovementioned bacteria in addition to Hahella, Oleispira, Oceanobacter and Hyphomonas occurred alternately as predominant members in the enrichment cultures from different sediments based on IHTS and PCR-DGGE analysis. To reconfirm their role in PAH degradation, 40 different bacteria were isolated and characterized, among which Cycloclasticus Pseudomonas showed the best degradation capability under low temperatures. Taken together, PAHs and PAH-degrading bacteria were widespread in the deep-sea sediments of the Arctic Ocean. We propose that bacteria of Cycloclasticus, Pseudomonas, Pseudoalteromonas, Halomonas, Marinomonas and Dietzia may

Meta-Analysis of Quantification Methods Shows that Archaea and Bacteria Have Similar Abundances in the Subseafloor

Science.gov (United States)

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

Microbiome analysis shows enrichment for specific bacteria in separate anatomical regions of the deep-sea carnivorous sponge Chondrocladia grandis.

Science.gov (United States)

Verhoeven, Joost T P; Kavanagh, Alana N; Dufour, Suzanne C

2017-01-01

The Cladorhizidae is a unique family of carnivorous marine sponges characterised by either the absence or reduction of the aquiferous system and by the presence of specialised structures to trap and digest mesoplanktonic prey. Previous studies have postulated a key role of host-associated bacteria in enabling carnivory in this family of sponges. In this study, we employed high-throughput Illumina-based sequencing to identify the bacterial community associated with four individuals of the deep-sea sponge Chondrocladia grandis sampled in the Gulf of Maine. By characterising the V6 through V8 region of the 16S rRNA gene, we compared the bacterial community composition and diversity in three distinct anatomical regions with predicted involvement in prey capture (sphere), support (axis) and benthic substrate attachment (root). A high abundance of Tenacibaculum, a known siderophore producing bacterial genus, was present in all anatomical regions and specimens. The abundance of Colwellia and Roseobacter was greater in sphere and axis samples, and bacteria from the hydrocarbon-degrading Robiginitomaculum genus were most abundant in the root. This first description of the bacterial community associated with C. grandis provides novel insights into the contribution of bacteria to the carnivorous lifestyle while laying foundations for future cladorhizid symbiosis studies. © FEMS 2016. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Nitrogen Fixation By Sulfate-Reducing Bacteria in Coastal and Deep-Sea Sediments

Science.gov (United States)

Bertics, V. J.; Löscher, C.; Salonen, I.; Schmitz-Streit, R.; Lavik, G.; Kuypers, M. M.; Treude, T.

2011-12-01

Sulfate-reducing bacteria (SRB) can greatly impact benthic nitrogen (N) cycling, by for instance inhibiting coupled denitrification-nitrification through the production of sulfide or by increasing the availability of fixed N in the sediment via dinitrogen (N2)-fixation. Here, we explored several coastal and deep-sea benthic habitats within the Atlantic Ocean and Baltic Sea, for the occurrence of N2-fixation mediated by SRB. A combination of different methods including microbial rate measurements of N2-fixation and sulfate reduction, geochemical analyses (porewater nutrient profiles, mass spectrometry), and molecular analyses (CARD-FISH, HISH-SIMS, "nested" PCR, and QPCR) were applied to quantify and identify the responsible processes and organisms, respectively. Furthermore, we looked deeper into the question of whether the observed nitrogenase activity was associated with the final incorporation of N into microbial biomass or whether the enzyme activity served another purpose. At the AGU Fall Meeting, we will present and compare data from numerous stations with different water depths, temperatures, and latitudes, as well as differences in key geochemical parameters, such as organic carbon content and oxygen availability. Current metabolic and molecular data indicate that N2-fixation is occurring in many of these benthic environments and that a large part of this activity may linked to SRB.

Deep sea biophysics

International Nuclear Information System (INIS)

Yayanos, A.A.

1982-01-01

A collection of deep-sea bacterial cultures was completed. Procedures were instituted to shelter the culture collection from accidential warming. A substantial data base on the rates of reproduction of more than 100 strains of bacteria from that collection was obtained from experiments and the analysis of that data was begun. The data on the rates of reproduction were obtained under conditions of temperature and pressure found in the deep sea. The experiments were facilitated by inexpensively fabricated pressure vessels, by the streamlining of the methods for the study of kinetics at high pressures, and by computer-assisted methods. A polybarothermostat was used to study the growth of bacteria along temperature gradients at eight distinct pressures. This device should allow for the study of microbial processes in the temperature field simulating the environment around buried HLW. It is small enough to allow placement in a radiation field in future studies. A flow fluorocytometer was fabricated. This device will be used to determine the DNA content per cell in bacteria grown in laboratory culture and in microorganisms in samples from the ocean. The technique will be tested for its rapidity in determining the concentration of cells (standing stock of microorganisms) in samples from the ocean

Sediment Biogeochemistry After the Entrance of Cable Bacteria

DEFF Research Database (Denmark)

Risgaard-Petersen, Nils

fields which may strongly modify ionic transports. They form pH extremes, and accelerate the dissolution of iron sulfides, and carbonates in subsurface sediment. They further promote the formation of iron oxides and carbonates at the sediment surface and stimulate the removal of sulfides......, sulfide-rich coastal sediments, salt marshes seasonally hypoxic basins, subtidal coastal mud plains, as well as freshwater sediments and waterlogged soils. In this talk I will review our current knowledge on how cable bacteria influence the biogeochemistry of sediments. The cable bacteria form electric...... and the formation of sulfate[3] Field studies conducted in the marine environment indicate that some of these effects are expressed in a way that marine systems with active cable bacteria populations have elevated phosphorus-retention{Sulu-Gambari, 2016 #1501} and acts as strong buffers against adverse stage...

Subsurface Contamination Control

Energy Technology Data Exchange (ETDEWEB)

Y. Yuan

2001-12-12

There are two objectives of this report, ''Subsurface Contamination Control''. The first is to provide a technical basis for recommending limiting radioactive contamination levels (LRCL) on the external surfaces of waste packages (WP) for acceptance into the subsurface repository. The second is to provide an evaluation of the magnitude of potential releases from a defective WP and the detectability of the released contents. The technical basis for deriving LRCL has been established in ''Retrieval Equipment and Strategy for Wp on Pallet'' (CRWMS M and O 2000g, 6.3.1). This report updates the derivation by incorporating the latest design information of the subsurface repository for site recommendation. The derived LRCL on the external surface of WPs, therefore, supercede that described in CRWMS M and O 2000g. The derived LRCL represent the average concentrations of contamination on the external surfaces of each WP that must not be exceeded before the WP is to be transported to the subsurface facility for emplacement. The evaluation of potential releases is necessary to control the potential contamination of the subsurface repository and to detect prematurely failed WPs. The detection of failed WPs is required in order to provide reasonable assurance that the integrity of each WP is intact prior to MGR closure. An emplaced WP may become breached due to manufacturing defects or improper weld combined with failure to detect the defect, by corrosion, or by mechanical penetration due to accidents or rockfall conditions. The breached WP may release its gaseous and volatile radionuclide content to the subsurface environment and result in contaminating the subsurface facility. The scope of this analysis is limited to radioactive contaminants resulting from breached WPs during the preclosure period of the subsurface repository. This report: (1) documents a method for deriving LRCL on the external surfaces of WP for acceptance into the

Microbial activity in the marine deep biosphere: Progress and prospects

Directory of Open Access Journals (Sweden)

Beth N Orcutt

2013-07-01

Full Text Available The vast marine deep biosphere consists of microbial habitats within sediment, pore waters, upper basaltic crust and the fluids that circulate throughout it. A wide range of temperature, pressure, pH, and electron donor and acceptor conditions exists – all of which can combine to affect carbon and nutrient cycling and result in gradients on spatial scales ranging from millimeters to kilometers. Diverse and mostly uncharacterized microorganisms live in these habitats, and potentially play a role in mediating global scale biogeochemical processes. Quantifying the rates at which microbial activity in the subsurface occurs is a challenging endeavor, yet developing an understanding of these rates is essential to determine the impact of subsurface life on Earth's global biogeochemical cycles, and for understanding how microorganisms in these "extreme" environments survive (or even thrive. Here, we synthesize recent advances and discoveries pertaining to microbial activity in the marine deep subsurface, and we highlight topics about which there is still little understanding and suggest potential paths forward to address them. This publication is the result of a workshop held in August 2012 by the NSF-funded Center for Dark Energy Biosphere Investigations (C-DEBI "theme team" on microbial activity (www.darkenergybiosphere.org.

Microbial activity in the marine deep biosphere: progress and prospects

Science.gov (United States)

Orcutt, Beth N.; LaRowe, Douglas E.; Biddle, Jennifer F.; Colwell, Frederick S.; Glazer, Brian T.; Reese, Brandi Kiel; Kirkpatrick, John B.; Lapham, Laura L.; Mills, Heath J.; Sylvan, Jason B.; Wankel, Scott D.; Wheat, C. Geoff

2013-01-01

The vast marine deep biosphere consists of microbial habitats within sediment, pore waters, upper basaltic crust and the fluids that circulate throughout it. A wide range of temperature, pressure, pH, and electron donor and acceptor conditions exists—all of which can combine to affect carbon and nutrient cycling and result in gradients on spatial scales ranging from millimeters to kilometers. Diverse and mostly uncharacterized microorganisms live in these habitats, and potentially play a role in mediating global scale biogeochemical processes. Quantifying the rates at which microbial activity in the subsurface occurs is a challenging endeavor, yet developing an understanding of these rates is essential to determine the impact of subsurface life on Earth's global biogeochemical cycles, and for understanding how microorganisms in these “extreme” environments survive (or even thrive). Here, we synthesize recent advances and discoveries pertaining to microbial activity in the marine deep subsurface, and we highlight topics about which there is still little understanding and suggest potential paths forward to address them. This publication is the result of a workshop held in August 2012 by the NSF-funded Center for Dark Energy Biosphere Investigations (C-DEBI) “theme team” on microbial activity (www.darkenergybiosphere.org). PMID:23874326

Final report - Reduction of mercury in saturated subsurface sediments and its potential to mobilize mercury in its elemental form

Energy Technology Data Exchange (ETDEWEB)

Bakray, Tamar [Rutgers University

2013-06-13

The goal of our project was to investigate Hg(II) reduction in the deep subsurface. We focused on microbial and abiotic pathways of reduction and explored how it affected the toxicity and mobility of Hg in this unique environment. The project’s tasks included: 1. Examining the role of mer activities in the reduction of Hg(II) in denitrifying enrichment cultures; 2. Investigating the biotic/abiotic reduction of Hg(II) under iron reducing conditions; 3. Examining Hg(II) redox transformations under anaerobic conditions in subsurface sediments from DOE sites.

The transcriptome of Bathymodiolus azoricus gill reveals expression of genes from endosymbionts and free-living deep-sea bacteria.

Science.gov (United States)

Egas, Conceição; Pinheiro, Miguel; Gomes, Paula; Barroso, Cristina; Bettencourt, Raul

2012-08-01

Deep-sea environments are largely unexplored habitats where a surprising number of species may be found in large communities, thriving regardless of the darkness, extreme cold, and high pressure. Their unique geochemical features result in reducing environments rich in methane and sulfides, sustaining complex chemosynthetic ecosystems that represent one of the most surprising findings in oceans in the last 40 years. The deep-sea Lucky Strike hydrothermal vent field, located in the Mid Atlantic Ridge, is home to large vent mussel communities where Bathymodiolus azoricus represents the dominant faunal biomass, owing its survival to symbiotic associations with methylotrophic or methanotrophic and thiotrophic bacteria. The recent transcriptome sequencing and analysis of gill tissues from B. azoricus revealed a number of genes of bacterial origin, hereby analyzed to provide a functional insight into the gill microbial community. The transcripts supported a metabolically active microbiome and a variety of mechanisms and pathways, evidencing also the sulfur and methane metabolisms. Taxonomic affiliation of transcripts and 16S rRNA community profiling revealed a microbial community dominated by thiotrophic and methanotrophic endosymbionts of B. azoricus and the presence of a Sulfurovum-like epsilonbacterium.

Carbon mineralization in surface and subsurface soils in a subtropical mixed forest in central China

Science.gov (United States)

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

Variability of soil potential for biodegradation of petroleum hydrocarbons in a heterogeneous subsurface

DEFF Research Database (Denmark)

Kristensen, Andreas Houlberg; Poulsen, Tjalfe; Mortensen, Lars

2010-01-01

for biodegradation was highly variable, which from autoregressive state-space modeling was partly explained by changes in soil air-filled porosity and gravimetric water content. The results suggest considering biological heterogeneity when evaluating the fate of contaminants in the subsurface.......Quantifying the spatial variability of factors affecting natural attenuation of hydrocarbons in the unsaturated zone is important to (i) performing a reliable risk assessment and (ii) evaluating the possibility for bioremediation of petroleum-polluted sites. Most studies to date have focused...... on the shallow unsaturated zone. Based on a data set comprising analysis of about 100 soil samples taken in a 16-m-deep unsaturated zone polluted with volatile petroleum compounds, we statistically and geostatistically analyzed values of essential soil properties. The subsurface of the site was highly layered...

Geomicrobial investigations of groundwaters from Olkiluoto, Haestholmen, Kivetty and Romuvaara, Finland

Energy Technology Data Exchange (ETDEWEB)

Haveman, S.A.; Pedersen, K. [Goeteborg Univ. (Sweden); Ruotsalainen, P. [Fintact Oy, Helsinki (Finland)

1998-08-01

Groundwater from four deep hard rock sites being considered for nuclear waste disposal in Finland (Olkiluoto, Haestholmen, Kivetty and Romuvaara) were investigated for microbial populations. Bacteria will be present in a waste disposal vault, so it is important to understand the microbiology of any potential site. Groundwater samples were collected from 200 to 950 m depth and included fresh, brackish and saline waters. Samples were collected with a pressurized groundwater sampler, PAVE, which is an excellent tool for microbiological sampling. Total cell numbers were typical for deep groundwater, 105 to 106 cells/ml. Growth media designed using groundwater chemistry data were used for enumeration of methanogens, acetogens, sulfate reducing bacteria (SRB) and iron reducing bacteria (IRB). Microbial populations varied between sites. Iron sulfide fracture minerals are common in the brackish high sulfate groundwaters of Olkiluoto, where SRB predominated. Haestholmen groundwater has high dissolved iron, iron hydroxide fracture minerals and IRB were the main microbial population. Kivetty and Romuvaara had mixed populations. It has been proposed that deep subsurface ecosystems are based on hydrogen and carbon dioxide which provide energy and carbon to support the food chain. Signs of such an ecosystem were seen in Olkiluoto. More study is needed to understand the basis for deep subsurface life. From a microbiological point of view, all sites investigated are equally suitable for nuclear waste disposal. (orig.) 66 refs.

Geomicrobial investigations of groundwaters from Olkiluoto, Haestholmen, Kivetty and Romuvaara, Finland

International Nuclear Information System (INIS)

Haveman, S.A.; Pedersen, K.; Ruotsalainen, P.

1998-08-01

Groundwater from four deep hard rock sites being considered for nuclear waste disposal in Finland (Olkiluoto, Haestholmen, Kivetty and Romuvaara) were investigated for microbial populations. Bacteria will be present in a waste disposal vault, so it is important to understand the microbiology of any potential site. Groundwater samples were collected from 200 to 950 m depth and included fresh, brackish and saline waters. Samples were collected with a pressurized groundwater sampler, PAVE, which is an excellent tool for microbiological sampling. Total cell numbers were typical for deep groundwater, 105 to 106 cells/ml. Growth media designed using groundwater chemistry data were used for enumeration of methanogens, acetogens, sulfate reducing bacteria (SRB) and iron reducing bacteria (IRB). Microbial populations varied between sites. Iron sulfide fracture minerals are common in the brackish high sulfate groundwaters of Olkiluoto, where SRB predominated. Haestholmen groundwater has high dissolved iron, iron hydroxide fracture minerals and IRB were the main microbial population. Kivetty and Romuvaara had mixed populations. It has been proposed that deep subsurface ecosystems are based on hydrogen and carbon dioxide which provide energy and carbon to support the food chain. Signs of such an ecosystem were seen in Olkiluoto. More study is needed to understand the basis for deep subsurface life. From a microbiological point of view, all sites investigated are equally suitable for nuclear waste disposal. (orig.)

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

Energy Technology Data Exchange (ETDEWEB)

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 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 in 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.

Review of Constructed Subsurface Flow vs. Surface Flow Wetlands

International Nuclear Information System (INIS)

HALVERSON, NANCY

2004-01-01

The purpose of this document is to use existing documentation to review the effectiveness of subsurface flow and surface flow constructed wetlands in treating wastewater and to demonstrate the viability of treating effluent from Savannah River Site outfalls H-02 and H-04 with a subsurface flow constructed wetland to lower copper, lead and zinc concentrations to within National Pollutant Discharge Elimination System (NPDES) Permit limits. Constructed treatment wetlands are engineered systems that have been designed and constructed to use the natural functions of wetlands for wastewater treatment. Constructed wetlands have significantly lower total lifetime costs and often lower capital costs than conventional treatment systems. The two main types of constructed wetlands are surface flow and subsurface flow. In surface flow constructed wetlands, water flows above ground. Subsurface flow constructed wetlands are designed to keep the water level below the top of the rock or gravel media, thus minimizing human and ecological exposure. Subsurface flow wetlands demonstrate higher rates of contaminant removal per unit of land than surface flow (free water surface) wetlands, therefore subsurface flow wetlands can be smaller while achieving the same level of contaminant removal. Wetlands remove metals using a variety of processes including filtration of solids, sorption onto organic matter, oxidation and hydrolysis, formation of carbonates, formation of insoluble sulfides, binding to iron and manganese oxides, reduction to immobile forms by bacterial activity, and uptake by plants and bacteria. Metal removal rates in both subsurface flow and surface flow wetlands can be high, but can vary greatly depending upon the influent concentrations and the mass loading rate. Removal rates of greater than 90 per cent for copper, lead and zinc have been demonstrated in operating surface flow and subsurface flow wetlands. The constituents that exceed NPDES limits at outfalls H-02 a nd H

Terrain and subsurface influences on runoff generation in a steep, deep, highly weathered system

Science.gov (United States)

Mallard, J. M.; McGlynn, B. L.; Richter, D. D., Jr.

2017-12-01

Our understanding of runoff generation in regions characterized by deep, highly weathered soils is incomplete, despite the prevalence occupation of these landscapes worldwide. To address this, we instrumented a first-order watershed in the Piedmont of South Carolina, USA, a region that extends east of the Appalachians from Maryland to Alabama, and home to some of the most rapid population growth in the country. Although regionally the relief is modest, the landscape is often highly dissected and local slopes can be steep and highly varied. The typical soils of the region are kaolinite dominated ultisols, with hydrologic properties controlled by argillic Bt horizons, often with >50% clay-size fraction. The humid subtropical climate creates relatively consistent precipitation intra-annually and seasonally variable energy availability. Consequently, the mixed deciduous and coniferous tree cover creates a strong evapotranspiration-mediated hydrologic dynamic. While moist soils and extended stream networks are typical from late fall through spring, relatively dry soils and contracting stream networks emerge in the summer and early fall. Here, we seek to elucidate the relative influence of the vertical soil and spatial terrain structure of this region on watershed hillslope hydrology and subsequent runoff generation. We installed a network of nested, shallow groundwater wells and soil water content probes within an ephemeral to first-order watershed to continuously measure soil and groundwater dynamics across soil horizons and landscape position. We also recorded local precipitation and discharge from this watershed. Most landscape positions exhibited minimal water table response to precipitation throughout dry summer periods, with infrequently observed responses rarely coincident with streamflow generation. In contrast, during the wetter late fall through early spring period, streamflow was driven by the interaction between transient perched water tables and

Effects of nitrate on the stability of uranium in a bioreduced region of the subsurface

International Nuclear Information System (INIS)

Wu, Weimin; Carley, Jack M.; Green, Stefan; Luo, Jian; Kelly, Shelly D.; Van Nostrand, Joy; Lowe, Kenneth Alan; Mehlhorn, Tonia L.; Carroll, Sue L.; Boonchayanant, Benjaporn; Loeffler, Frank E.; Jardine, Philip M.; Criddle, Craig

2010-01-01

The effects of nitrate on the stability of reduced, immobilized uranium were evaluated in field experiments at a U.S. Department of Energy site in Oak Ridge, TN. Nitrate (2.0 mM) was injected into a reduced region of the subsurface containing high levels of previously immobilized U(IV). The nitrate was reduced to nitrite, ammonium, and nitrogen gas; sulfide levels decreased; and Fe(II) levels increased then deceased. Uranium remobilization occurred concomitant with nitrite formation, suggesting nitrate-dependent, iron-accelerated oxidation of U(IV). Bromide tracer results indicated changes in subsurface flowpaths likely due to gas formation and/or precipitate. Desorption-adsorption of uranium by the iron-rich sediment impacted uranium mobilization and sequestration. After rereduction of the subsurface through ethanol additions, background groundwater containing high levels of nitrate was allowed to enter the reduced test zone. Aqueous uranium concentrations increased then decreased. Clone library analyses of sediment samples revealed the presence of denitrifying bacteria that can oxidize elemental sulfur, H 2 S, Fe(II), and U(IV) (e.g., Thiobacillus spp.), and a decrease in relative abundance of bacteria that can reduce Fe(III) and sulfate. XANES analyses of sediment samples confirmed changes in uranium oxidation state. Addition of ethanol restored reduced conditions and triggered a short-term increase in Fe(II) and aqueous uranium, likely due to reductive dissolution of Fe(III) oxides and release of sorbed U(VI). After two months of intermittent ethanol addition, sulfide levels increased, and aqueous uranium concentrations gradually decreased to <0.1 μM.

Does Aspartic Acid Racemization Constrain the Depth Limit of the Subsurface Biosphere?

Science.gov (United States)

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.;

Bacteriophage lytic to Desulfovibrio aespoeensis isolated from deep groundwater.

Science.gov (United States)

Eydal, Hallgerd S C; Jägevall, Sara; Hermansson, Malte; Pedersen, Karsten

2009-10-01

Viruses were earlier found to be 10-fold more abundant than prokaryotes in deep granitic groundwater at the Aspö Hard Rock Laboratory (HRL). Using a most probable number (MPN) method, 8-30 000 cells of sulphate-reducing bacteria per ml were found in groundwater from seven boreholes at the Aspö HRL. The content of lytic phages infecting the indigenous bacterium Desulfovibrio aespoeensis in Aspö groundwater was analysed using the MPN technique for phages. In four of 10 boreholes, 0.2-80 phages per ml were found at depths of 342-450 m. Isolates of lytic phages were made from five cultures. Using transmission electron microscopy, these were characterized and found to be in the Podoviridae morphology group. The isolated phages were further analysed regarding host range and were found not to infect five other species of Desulfovibrio or 10 Desulfovibrio isolates with up to 99.9% 16S rRNA gene sequence identity to D. aespoeensis. To further analyse phage-host interactions, using a direct count method, growth of the phages and their host was followed in batch cultures, and the viral burst size was calculated to be approximately 170 phages per lytic event, after a latent period of approximately 70 h. When surviving cells from infected D. aespoeensis batch cultures were inoculated into new cultures and reinfected, immunity to the phages was found. The parasite-prey system found implies that viruses are important for microbial ecosystem diversity and activity, and for microbial numbers in deep subsurface groundwater.

Subsurface Ventilation System Description Document

Energy Technology Data Exchange (ETDEWEB)

Eric Loros

2001-07-25

The Subsurface Ventilation System supports the construction and operation of the subsurface repository by providing air for personnel and equipment and temperature control for the underground areas. Although the system is located underground, some equipment and features may be housed or located above ground. The system ventilates the underground by providing ambient air from the surface throughout the subsurface development and emplacement areas. The system provides fresh air for a safe work environment and supports potential retrieval operations by ventilating and cooling emplacement drifts. The system maintains compliance within the limits established for approved air quality standards. The system maintains separate ventilation between the development and waste emplacement areas. The system shall remove a portion of the heat generated by the waste packages during preclosure to support thermal goals. The system provides temperature control by reducing drift temperature to support potential retrieval operations. The ventilation system has the capability to ventilate selected drifts during emplacement and retrieval operations. The Subsurface Facility System is the main interface with the Subsurface Ventilation System. The location of the ducting, seals, filters, fans, emplacement doors, regulators, and electronic controls are within the envelope created by the Ground Control System in the Subsurface Facility System. The Subsurface Ventilation System also interfaces with the Subsurface Electrical System for power, the Monitored Geologic Repository Operations Monitoring and Control System to ensure proper and safe operation, the Safeguards and Security System for access to the emplacement drifts, the Subsurface Fire Protection System for fire safety, the Emplacement Drift System for repository performance, and the Backfill Emplacement and Subsurface Excavation Systems to support ventilation needs.

Subsurface Ventilation System Description Document

Energy Technology Data Exchange (ETDEWEB)

NONE

2000-10-12

The Subsurface Ventilation System supports the construction and operation of the subsurface repository by providing air for personnel and equipment and temperature control for the underground areas. Although the system is located underground, some equipment and features may be housed or located above ground. The system ventilates the underground by providing ambient air from the surface throughout the subsurface development and emplacement areas. The system provides fresh air for a safe work environment and supports potential retrieval operations by ventilating and cooling emplacement drifts. The system maintains compliance within the limits established for approved air quality standards. The system maintains separate ventilation between the development and waste emplacement areas. The system shall remove a portion of the heat generated by the waste packages during preclosure to support thermal goals. The system provides temperature control by reducing drift temperature to support potential retrieval operations. The ventilation system has the capability to ventilate selected drifts during emplacement and retrieval operations. The Subsurface Facility System is the main interface with the Subsurface Ventilation System. The location of the ducting, seals, filters, fans, emplacement doors, regulators, and electronic controls are within the envelope created by the Ground Control System in the Subsurface Facility System. The Subsurface Ventilation System also interfaces with the Subsurface Electrical System for power, the Monitored Geologic Repository Operations Monitoring and Control System to ensure proper and safe operation, the Safeguards and Security System for access to the emplacement drifts, the Subsurface Fire Protection System for fire safety, the Emplacement Drift System for repository performance, and the Backfill Emplacement and Subsurface Excavation Systems to support ventilation needs.

Subsurface Facility System Description Document

International Nuclear Information System (INIS)

Eric Loros

2001-01-01

The Subsurface Facility System encompasses the location, arrangement, size, and spacing of the underground openings. This subsurface system includes accesses, alcoves, and drifts. This system provides access to the underground, provides for the emplacement of waste packages, provides openings to allow safe and secure work conditions, and interfaces with the natural barrier. This system includes what is now the Exploratory Studies Facility. The Subsurface Facility System physical location and general arrangement help support the long-term waste isolation objectives of the repository. The Subsurface Facility System locates the repository openings away from main traces of major faults, away from exposure to erosion, above the probable maximum flood elevation, and above the water table. The general arrangement, size, and spacing of the emplacement drifts support disposal of the entire inventory of waste packages based on the emplacement strategy. The Subsurface Facility System provides access ramps to safely facilitate development and emplacement operations. The Subsurface Facility System supports the development and emplacement operations by providing subsurface space for such systems as ventilation, utilities, safety, monitoring, and transportation

Intelligent SUBsurface Quality : Intelligent use of subsurface infrastructure for surface quality

NARCIS (Netherlands)

Hooimeijer, F.L.; Kuzniecow Bacchin, T.; Lafleur, F.; van de Ven, F.H.M.; Clemens, F.H.L.R.; Broere, W.; Laumann, S.J.; Klaassen, R.G.; Marinetti, C.

2016-01-01

This project focuses on the urban renewal of (delta) metropolises and concentrates on the question how to design resilient, durable (subsurface) infrastructure in urban renewal projects using parameters of the natural system – linking in an efficient way (a) water cycle, (b) soil and subsurface

Clean energy systems in the subsurface. Production, storage and conversion. Proceedings

Energy Technology Data Exchange (ETDEWEB)

Hou, Zhengmeng Michael; Were, Patrick (eds.) [Clausthal Univ. of Technology, Goslar (Germany). Energie-Forschungszentrum Niedersachsen (EFZN); Xie, Heping [Sichuan Univ., Chengdu (China)

2013-04-01

Recent research on Integrated Energy and Environmental Utilization of Deep Underground Space. Results of the 3{sup rd} Sino-German Conference ''Underground Storage of CO{sub 2} and Energy'', held at Goslar, Germany, 21-23 May 2013. Researchers and professionals from academia and industry discuss the future of deep underground space technologies for an integrated energy and environmental utilization. Anthropogenic greenhouse gas emissions, energy security and sustainability are three of the greatest contemporary global challenges today. This year the Sino-German Cooperation Group ''Underground Storage of CO{sub 2} and Energy'', is meeting on the 21-23 May 2013 for the second time in Goslar, Germany, to convene its 3{sup rd} Sino-German conference on the theme ''Clean Energy Systems in the Subsurface: Production, Storage and Conversion''.

Site Recommendation Subsurface Layout

International Nuclear Information System (INIS)

C.L. Linden

2000-01-01

The purpose of this analysis is to develop a Subsurface Facility layout that is capable of accommodating the statutory capacity of 70,000 metric tons of uranium (MTU), as well as an option to expand the inventory capacity, if authorized, to 97,000 MTU. The layout configuration also requires a degree of flexibility to accommodate potential changes in site conditions or program requirements. The objective of this analysis is to provide a conceptual design of the Subsurface Facility sufficient to support the development of the Subsurface Facility System Description Document (CRWMS M andO 2000e) and the ''Emplacement Drift System Description Document'' (CRWMS M andO 2000i). As well, this analysis provides input to the Site Recommendation Consideration Report. The scope of this analysis includes: (1) Evaluation of the existing facilities and their integration into the Subsurface Facility design. (2) Identification and incorporation of factors influencing Subsurface Facility design, such as geological constraints, thermal loading, constructibility, subsurface ventilation, drainage control, radiological considerations, and the Test and Evaluation Facilities. (3) Development of a layout showing an available area in the primary area sufficient to support both the waste inventories and individual layouts showing the emplacement area required for 70,000 MTU and, if authorized, 97,000 MTU

Subsurface geomicrobiology in a Mars terrestrial analogue, Río Tinto (SW, Spain)

Science.gov (United States)

Amils, R.; Fernández-Remolar, D.; Gómez, F.; González-Toril, E.; Rodríguez, N.; Prieto-Ballesteros, O.; Sanz, J. L.; Díaz, E.; Stoker, C.

2008-09-01

Since its discovery, only few years ago, subsurface geomicrobiology is a matter of growing interest [1]. From a fundamental point of view, it seeks to determine whether life can be sustained in the absence of radiation. From an astrobiological point of view, it is an interesting model for life in other planetary bodies, e.g., Mars, as well as early life on Earth. Río Tinto is an unusual extreme acidic environment due to its size (around 100 km), constant acidic pH (mean pH 2.3), high concentrations of heavy metals and high level of microbial diversity [2]. Río Tinto rises in the core of the Iberian Pyritic Belt, one of the biggest sulfidic ore deposits in the world [3]. Today it is well stablished that the extreme characteristics of Río Tinto are not due to acid mine drainage from mining activity, as has been suggested in the past. To explore the hypothesis that a continuous underground reactor of chemolithotrophic microorganisms thriving in the rich sulfidic minerals of the Iberian Pyritic Belt is responsible for the extreme conditions found in the system, a drilling project has been developed to detect evidence of subsurface microbial activity and potential resources to support these microbial communities in situ (MARTE project) [4]. Here we report a search for subsurface life in volcanically hosted massive sulfidic deposits from the Iberian Pyritic Belt. Aseptic core samples were obtained within and down-gradient from the massive sulfide deposits and formation water was sampled within the resulting bore holes. Microbial activity was detected in un-contaminated samples by culture-dependent and culture-independent methods. Aerobic iron- and sulfide- oxidizing bacteria, and anaerobic denitrifying thiosulfate-oxidizing bacteria, sulfate reducing bacteria and methanogenic archaea have been identified. Potential energy fluxes detected in the system include oxidation of reduced iron and sulfur, or hydrogen gas coupled to nitrite, sulfate, ferric iron, inorganic

Burial ground as a containment system: 25 years of subsurface monitoring at the Savannah River Plant Facility

International Nuclear Information System (INIS)

Fenimore, J.W.

1982-01-01

As the Savannah River Plant (SRP) solid wastes containing small quantities of radionuclides are buried in shallow (20' deep) trenches. The hydrogeology of the burial site is described together with a variety of subsurface monitoring techniques employed to ensure the continued safe operation of this disposal facility. conclusions from over two decades of data collection are presented

Earthquakes - a danger to deep-lying repositories?; erdbeben: eine gefahr fuer tiefenlager?

Energy Technology Data Exchange (ETDEWEB)

NONE

2012-03-15

This booklet issued by the Swiss National Cooperative for the Disposal of Radioactive Waste NAGRA takes a look at geological factors concerning earthquakes and the safety of deep-lying repositories for nuclear waste. The geological processes involved in the occurrence of earthquakes are briefly looked at and the definitions for magnitude and intensity of earthquakes are discussed. Examples of damage caused by earthquakes are given. The earthquake situation in Switzerland is looked at and the effects of earthquakes on sub-surface structures and deep-lying repositories are discussed. Finally, the ideas proposed for deep-lying geological repositories for nuclear wastes are discussed.

Autotrophic and heterotrophic bacterial diversity from Yucca Mountain

International Nuclear Information System (INIS)

Khalil, M.; Haldeman, D.L.; Igbinovia, A.; Castro, P.

1996-01-01

A basic understanding of the types and functions of microbiota present within the deep subsurface of Yucca Mountain will be important in terms of modeling the long term stability of a nuclear waste repository. Microorganisms can degrade building materials used in tunnel construction such as concrete and steel. For example, high concentrations of nitrifying bacteria, may cause corrosion of concrete due to the release of nitric acid. Likewise, sulfur-oxidizing and iron-oxidizing bacteria have been implicated in microbially influenced corrosion (MIC), and may contribute to the degradation of waste packages. In addition, the metabolic activities of microbiota may alter the geochemistry of surrounding environments, which may in turn influence the permeability of subsurface strata and the fate of radioactive compounds. Microorganisms that play roles in these processes have diverse methods of obtaining the energy required for growth and metabolism and have been recovered from a wide range of environments, including the deep subsurface. The purpose of this research was to determine if these bacterial groups, important to the long-term success of a high-level nuclear waste repository, were indigenous to Yucca Mountain

Physical constraints in the deep hypolimnion of a subalpine lake driving planktonic Bacteria and Archaea distribution

Directory of Open Access Journals (Sweden)

Roberto Bertoni

2010-06-01

Full Text Available The study of the hydrodynamics of the hypolimnion of a deep holo-oligomictic lake (Lake Maggiore, Northern Italy, zmax¼370 m during the last 28 years showed that hypolimnetic waters remained isolated, not exchanging with the mixing zone even in winter when the full overturn conditions are most likely. The thickness of the isolated layer can range from 100 to 300 m. Thus, water masses of variable size reside in the lake for many years, and their physical and chemical conditions remain relatively unaffected by seasonal variability and epilimnetic imputs. In the hypolimnetic waters prokaryote abundance is three times lower than in the mixing layer but cell size is significantly higher. In addition, the relative abundance of Archaea and Crenarchaeota increases with depth in respect to that of Bacteria. The heterogeneous distribution of the two domains within the habitat can be attributed to the existence in the same environment of isolated water masses.

Sterilization of Exopolysaccharides Produced by Deep-Sea Bacteria: Impact on Their Stability and Degradation

Directory of Open Access Journals (Sweden)

Sylvia Colliec-Jouault

2011-02-01

Full Text Available Polysaccharides are highly heat-sensitive macromolecules, so high temperature treatments are greatly destructive and cause considerable damage, such as a great decrease in both viscosity and molecular weight of the polymer. The technical feasibility of the production of exopolysaccharides by deep-sea bacteria Vibrio diabolicus and Alteromonas infernus was previously demonstrated using a bioproduct manufacturing process. The objective of this study was to determine which sterilization method, other than heat sterilization, was the most appropriate for these marine exopolysaccharides and was in accordance with bioprocess engineering requirements. Chemical sterilization using low-temperature ethylene oxide and a mixture of ionized gases (plasmas was compared to the sterilization methods using gamma and beta radiations. The changes to both the physical and chemical properties of the sterilized exopolysaccharides were analyzed. The use of ethylene oxide can be recommended for the sterilization of polysaccharides as a weak effect on both rheological and structural properties was observed. This low-temperature gas sterilizing process is very efficient, giving a good Sterility Assurance Level (SAL, and is also well suited to large-scale compound manufacturing in the pharmaceutical industry.

Surface water iron supplies in the Southern Ocean sustained by deep winter mixing

CSIR Research Space (South Africa)

Tagliabue, A

2014-04-01

Full Text Available Low levels of iron limit primary productivity across much of the Southern Ocean. At the basin scale, most dissolved iron is supplied to surfacewaters from subsurface reservoirs, because land inputs are spatially limited. Deep mixing in winter...

Gene expression in the deep biosphere.

Science.gov (United States)

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.

Molecular hydrogen: An abundant energy source for bacterial activity in nuclear waste repositories

International Nuclear Information System (INIS)

Libert, M.; Bildstein, O.; Esnault, L.; Jullien, M.; Sellier, R.

2011-01-01

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 , NO 3- , 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, bio-corrosion, 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. (authors)

Molecular hydrogen: An abundant energy source for bacterial activity in nuclear waste repositories

Science.gov (United States)

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.

SUBSURFACE REPOSITORY INTEGRATED CONTROL SYSTEM DESIGN

International Nuclear Information System (INIS)

Randle, D.C.

2000-01-01

The primary purpose of this document is to develop a preliminary high-level functional and physical control system architecture for the potential repository at Yucca Mountain. This document outlines an overall control system concept that encompasses and integrates the many diverse process and communication systems being developed for the subsurface repository design. This document presents integrated design concepts for monitoring and controlling the diverse set of subsurface operations. The Subsurface Repository Integrated Control System design will be composed of a series of diverse process systems and communication networks. The subsurface repository design contains many systems related to instrumentation and control (I andC) for both repository development and waste emplacement operations. These systems include waste emplacement, waste retrieval, ventilation, radiological and air monitoring, rail transportation, construction development, utility systems (electrical, lighting, water, compressed air, etc.), fire protection, backfill emplacement, and performance confirmation. Each of these systems involves some level of I andC and will typically be integrated over a data communications network throughout the subsurface facility. The subsurface I andC systems will also interface with multiple surface-based systems such as site operations, rail transportation, security and safeguards, and electrical/piped utilities. In addition to the I andC systems, the subsurface repository design also contains systems related to voice and video communications. The components for each of these systems will be distributed and linked over voice and video communication networks throughout the subsurface facility. The scope and primary objectives of this design analysis are to: (1) Identify preliminary system-level functions and interfaces (Section 6.2). (2) Examine the overall system complexity and determine how and on what levels the engineered process systems will be monitored

Shallow Aquifer Vulnerability From Subsurface Fluid Injection at a Proposed Shale Gas Hydraulic Fracturing Site

Science.gov (United States)

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.

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

Science.gov (United States)

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.

The Transcriptome of Bathymodiolus azoricus Gill Reveals Expression of Genes from Endosymbionts and Free-Living Deep-Sea Bacteria

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Raul Bettencourt

2012-08-01

Full Text Available Deep-sea environments are largely unexplored habitats where a surprising number of species may be found in large communities, thriving regardless of the darkness, extreme cold, and high pressure. Their unique geochemical features result in reducing environments rich in methane and sulfides, sustaining complex chemosynthetic ecosystems that represent one of the most surprising findings in oceans in the last 40 years. The deep-sea Lucky Strike hydrothermal vent field, located in the Mid Atlantic Ridge, is home to large vent mussel communities where Bathymodiolus azoricus represents the dominant faunal biomass, owing its survival to symbiotic associations with methylotrophic or methanotrophic and thiotrophic bacteria. The recent transcriptome sequencing and analysis of gill tissues from B. azoricus revealed a number of genes of bacterial origin, hereby analyzed to provide a functional insight into the gill microbial community. The transcripts supported a metabolically active microbiome and a variety of mechanisms and pathways, evidencing also the sulfur and methane metabolisms. Taxonomic affiliation of transcripts and 16S rRNA community profiling revealed a microbial community dominated by thiotrophic and methanotrophic endosymbionts of B. azoricus and the presence of a Sulfurovum-like epsilonbacterium.

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

Science.gov (United States)

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.

In-situ detection of microbial life in the deep biosphere in igneous ocean crust

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Everett Cosio Salas

2015-11-01

Full Text Available 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.

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

Science.gov (United States)

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.

Sensitivity of transpiration to subsurface properties: Exploration with a 1-D model

Science.gov (United States)

Vrettas, Michail D.; Fung, Inez Y.

2017-06-01

The amount of moisture transpired by vegetation is critically tied to the moisture supply accessible to the root zone. In a Mediterranean climate, integrated evapotranspiration (ET) is typically greater in the dry summer when there is an uninterrupted period of high insolation. We present a 1-D model to explore the subsurface factors that may sustain ET through the dry season. The model includes a stochastic parameterization of hydraulic conductivity, root water uptake efficiency, and hydraulic redistribution by plant roots. Model experiments vary the precipitation, the magnitude and seasonality of ET demand, as well as rooting profiles and rooting depths of the vegetation. The results show that the amount of subsurface moisture remaining at the end of the wet winter is determined by the competition among abundant precipitation input, fast infiltration, and winter ET demand. The weathered bedrock retains ˜30% of the winter rain and provides a substantial moisture reservoir that may sustain ET of deep-rooted (>8 m) trees through the dry season. A small negative feedback exists in the root zone, where the depletion of moisture by ET decreases hydraulic conductivity and enhances the retention of moisture. Hence, hydraulic redistribution by plant roots is impactful in a dry season, or with a less conductive subsurface. Suggestions for implementing the model in the CESM are discussed.

Bioaccumulation of radionuclides and metals by microorganisms: Potential role in the separation of inorganic contaminants and for the in situ treatment of the subsurface

International Nuclear Information System (INIS)

Bolton, H. Jr.; Wildung, R.E.

1993-01-01

Radionuclide, metal and organic contaminants are present in relatively inaccessible subsurface environments at many U.S Department of Energy (DOE) sites. Subsurface contamination is of concern to DOE because the migration of these contaminants into relatively deep subsurface zones indicates that they exist in a mobile chemical form and thus could potentially enter domestic groundwater supplies. Currently, economic approaches to stabilize or remediate these deep contaminated zones are limited, because these systems are not well characterized and there is a lack of understanding of how geochemical, microbial, and hydrological processes interact to influence contaminant behavior. Microorganisms offer a potential means for radionuclide and metal immobilization or mobilization for subsequent surface treatment. Bioaccumulation is a specific microbial sequestering mechanism wherein mobile radionuclides and metals become associated with the microbial biomass by both intra- and extracellular sequestering ligands. Since most of the microorganism in the subsurface are associated with the stationary strata, bioaccumulation of mobile radionuclides and metals would initially result in a decrease in the transport of inorganic contaminants. How long the inorganic contaminants would remain immobilized, the selectivity of the bioaccumulation process for specific inorganic contaminants, the mechanism involved, and how the geochemistry and growth conditions of the subsurface environment influence bioaccumulation are not currently known. This presentation focuses on the microbial process of immobilizing radionuclides and metals and using this process to reduce inorganic contaminant migration at DOE sites. Background research with near-surface microorganisms will be presented to demonstrate this process and show its potential to reduce inorganic contaminant migration. Future research needs and approaches in this relatively new research area will also be discussed

Subsurface clade of Geobacteraceae that predominates in a diversity of Fe(III)-reducing subsurface environments

Science.gov (United States)

Holmes, Dawn E.; O'Neil, Regina A.; Vrionis, Helen A.; N'Guessan, Lucie A.; Ortiz-Bernad, Irene; Larrahondo, Maria J.; Adams, Lorrie A.; Ward, Joy A.; Nicoll , Julie S.; Nevin, Kelly P.; Chavan, Milind A.; Johnson, Jessica P.; Long, Philip E.; Lovely, Derek R.

2007-01-01

There are distinct differences in the physiology of Geobacter species available in pure culture. Therefore, to understand the ecology of Geobacter species in subsurface environments, it is important to know which species predominate. Clone libraries were assembled with 16S rRNA genes and transcripts amplified from three subsurface environments in which Geobacter species are known to be important members of the microbial community: (1) a uranium-contaminated aquifer located in Rifle, CO, USA undergoing in situ bioremediation; (2) an acetate-impacted aquifer that serves as an analog for the long-term acetate amendments proposed for in situ uranium bioremediation and (3) a petroleum-contaminated aquifer in which Geobacter species play a role in the oxidation of aromatic hydrocarbons coupled with the reduction of Fe(III). The majority of Geobacteraceae 16S rRNA sequences found in these environments clustered in a phylogenetically coherent subsurface clade, which also contains a number of Geobacter species isolated from subsurface environments. Concatamers constructed with 43 Geobacter genes amplified from these sites also clustered within this subsurface clade. 16S rRNA transcript and gene sequences in the sediments and groundwater at the Rifle site were highly similar, suggesting that sampling groundwater via monitoring wells can recover the most active Geobacter species. These results suggest that further study of Geobacter species in the subsurface clade is necessary to accurately model the behavior of Geobacter species during subsurface bioremediation of metal and organic contaminants.

DWH MC 252: Subsurface Oil Transport

Science.gov (United States)

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

Subsurface geology of the Lusi region: preliminary results from a comprehensive seismic-stratigraphic study.

Science.gov (United States)

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

Subsurface Examination of a Foliar Biofilm Using Scanning Electron- and Focused-Ion-Beam Microscopy

Energy Technology Data Exchange (ETDEWEB)

Wallace, Patricia K.; Arey, Bruce W.; Mahaffee, Walt F.

2011-08-01

The dual beam scanning electron microscope, equipped with both a focused ion- and scanning electron- beam (FIB SEM) is a novel tool for the exploration of the subsurface structure of biological tissues. The FIB can remove a predetermined amount of material from a selected site to allow for subsurface exploration and when coupled with SEM or scanning ion- beam microscopy (SIM) could be suitable to examine the subsurface structure of bacterial biofilms on the leaf surface. The suitability of chemical and cryofixation was examined for use with the FIB SEM to examine bacterial biofilms on leaf surfaces. The biological control agent, Burkholderia pyroccinia FP62, that rapidly colonizes the leaf surface and forms biofilms, was inoculated onto geranium leaves and incubated in a greenhouse for 7 or 14 days. Cryofixation was not suitable for examination of leaf biofilms because it created a frozen layer over the leaf surface that cracked when exposed to the electron beam and the protective cap required for FIB milling could not be accurately deposited. With chemically fixed samples, it was possible to precisely FIB mill a single cross section (5 µm) or sequential cross sections from a single site without any damage to the surrounding surface. Biofilms, 7 days post-inoculation (DPI), were composed of 2 to 5 bacterial cell layers while biofilms 14 DPI ranged from 5 to greater than 30 cell layers. Empty spaces between bacteria cells in the subsurface structure were observed in biofilms 7- and 14-DPI. Sequential cross sections inferred that the empty spaces were often continuous between FP62 cells and could possibly make up a network of channels throughout the biofilm. FIB SEM was a useful tool to observe the subsurface composition of a foliar biofilm.

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

Science.gov (United States)

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

Influence of Mg²⁺ on CaCO₃ precipitation during subsurface reactive transport in a homogeneous silicon-etched pore network

Energy Technology Data Exchange (ETDEWEB)

Boyd, Victoria [Univ. of Illinois, Urbana-Champaign, IL (United States); Yoon, Hongkyu [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Zhang, Changyong [Exxon Mobil Upstream Research Company, Houston, TX (United States); Oostrom, Martinus [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Hess, Nancy J. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Fouke, Bruce W. [Univ. of Illinois, Urbana-Champaign, IL (United States); Valocchi, Albert J. [Univ. of Illinois, Urbana-Champaign, IL (United States); Werth, Charles J. [Univ. of Illinois, Urbana-Champaign, IL (United States)

2014-04-04

Calcium carbonate (CaCO₃) geochemical reactions exert a fundamental control on the evolution of porosity and permeability in shallow-to-deep subsurface siliciclastic and limestone rock reservoirs. As a result, these carbonate water-rock interactions play a critically important role in research on groundwater remediation, geological carbon sequestration, and hydrocarbon exploration. A study was undertaken to determine the effects of Mg²⁺ concentration on CaCO₃ crystal morphology, precipitation rate, and porosity occlusion under flow and mixing conditions similar to those in subsurface aquifers.

Deep-Focusing Time-Distance Helioseismology

Science.gov (United States)

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.

Draft Genome of Scalindua rubra, Obtained from the Interface Above the Discovery Deep Brine in the Red Sea, Sheds Light on Potential Salt Adaptation Strategies in Anammox Bacteria.

Science.gov (United States)

Speth, Daan R; Lagkouvardos, Ilias; Wang, Yong; Qian, Pei-Yuan; Dutilh, Bas E; Jetten, Mike S M

2017-07-01

Several recent studies have indicated that members of the phylum Planctomycetes are abundantly present at the brine-seawater interface (BSI) above multiple brine pools in the Red Sea. Planctomycetes include bacteria capable of anaerobic ammonium oxidation (anammox). Here, we investigated the possibility of anammox at BSI sites using metagenomic shotgun sequencing of DNA obtained from the BSI above the Discovery Deep brine pool. Analysis of sequencing reads matching the 16S rRNA and hzsA genes confirmed presence of anammox bacteria of the genus Scalindua. Phylogenetic analysis of the 16S rRNA gene indicated that this Scalindua sp. belongs to a distinct group, separate from the anammox bacteria in the seawater column, that contains mostly sequences retrieved from high-salt environments. Using coverage- and composition-based binning, we extracted and assembled the draft genome of the dominant anammox bacterium. Comparative genomic analysis indicated that this Scalindua species uses compatible solutes for osmoadaptation, in contrast to other marine anammox bacteria that likely use a salt-in strategy. We propose the name Candidatus Scalindua rubra for this novel species, alluding to its discovery in the Red Sea.

Nitrogen patterns in subsurface waters of the Yzeron stream: effect of combined sewer overflows and subsurface-surface water mixing.

Science.gov (United States)

Aucour, A M; Bariac, T; Breil, P; Namour, P; Schmitt, L; Gnouma, R; Zuddas, P

2013-01-01

Urbanization subjects streams to increased nitrogen loads. Therefore studying nitrogen forms at the interface between urban stream and groundwater is important for water resource management. In this study we report results on water δ(18)O and nitrogen forms in subsurface waters of a stream (Yzeron, France). The sites studied were located upstream and downstream of combined sewer overflows (CSO) in a rural area and a periurban area, respectively. Water δ(18)O allowed us to follow the mixing of subsurface water with surface water. Dissolved organic nitrogen and organic carbon of fine sediment increased by 20-30% between rural and periurban subsurface waters in the cold season, under high flow. The highest nitrate levels were observed in rural subsurface waters in the cold season. The lowest nitrate levels were found in periurban subsurface waters in the warm season, under low flow. They corresponded to slow exchange of subsurface waters with channel water. Thus reduced exchange between surface and subsurface waters and organic-matter-rich input seemed to favor nitrate reduction in the downstream, periurban, subsurface waters impacted by CSO.

PCR detection of groundwater bacteria associated with colloidal transport

Energy Technology Data Exchange (ETDEWEB)

Cruz-Perez, P.; Stetzenbach, L.D.; Alvarez, A.J.

1996-02-29

Colloidal transport may increase the amount of contaminant material than that which could be transported by water flow alone. The role of colloids in groundwater contaminant transport is complicated and may involve many different processes, including sorption of elements onto colloidal particles, coagulation/dissolution, adsorption onto solid surfaces, filtration, and migration. Bacteria are known to concentrate minerals and influence the transport of compounds in aqueous environments and may also serve as organic colloids, thereby influencing subsurface transport of radionuclides and other contaminants. The initial phase of the project consisted of assembling a list of bacteria capable of sequestering or facilitating mineral transport. The development and optimization of the PCR amplification assay for the detection of the organisms of interest, and the examination of regional groundwaters for those organisms, are presented for subsequent research.

PCR detection of groundwater bacteria associated with colloidal transport

International Nuclear Information System (INIS)

Cruz-Perez, P.; Stetzenbach, L.D.; Alvarez, A.J.

1996-01-01

Colloidal transport may increase the amount of contaminant material than that which could be transported by water flow alone. The role of colloids in groundwater contaminant transport is complicated and may involve many different processes, including sorption of elements onto colloidal particles, coagulation/dissolution, adsorption onto solid surfaces, filtration, and migration. Bacteria are known to concentrate minerals and influence the transport of compounds in aqueous environments and may also serve as organic colloids, thereby influencing subsurface transport of radionuclides and other contaminants. The initial phase of the project consisted of assembling a list of bacteria capable of sequestering or facilitating mineral transport. The development and optimization of the PCR amplification assay for the detection of the organisms of interest, and the examination of regional groundwaters for those organisms, are presented for subsequent research

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

Science.gov (United States)

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.

Metagenomic analysis and metabolite profiling of deep-sea sediments from the Gulf of Mexico following the Deepwater Horizon oil spill

Directory of Open Access Journals (Sweden)

Nikole Elizabeth Kimes

2013-03-01

Full Text Available Marine subsurface environments, such as deep-sea sediments, house abundant and diverse microbial communities that are believed to influence large-scale geochemical processes. These processes include the biotransformation and mineralization of numerous petroleum constituents. Thus, microbial communities in the Gulf of Mexico are thought to be responsible for the intrinsic bioremediation of crude oil released by the Deepwater Horizon (DWH oil spill. While hydrocarbon contamination is known to enrich for aerobic, oil-degrading bacteria in deep-seawater habitats, relatively little is known about the response of communities in deep-sea sediments, where low oxygen levels may hinder such a response. Here, we examined the hypothesis that increased hydrocarbon exposure results in an altered sediment microbial community structure that reflects the prospects for oil biodegradation under the prevailing conditions. We explore this hypothesis using metagenomic analysis and metabolite profiling of deep-sea sediment samples following the DWH oil spill. The presence of aerobic microbial communities and associated functional genes was consistent among all samples, whereas, a greater number of Deltaproteobacteria and anaerobic functional genes were found in sediments closest to the DWH blowout site. Metabolite profiling also revealed a greater number of putative metabolites in sediments surrounding the blowout zone relative to a background site located 127 km away. The mass spectral analysis of the putative metabolites revealed that alkylsuccinates remained below detection levels, but a homologous series of benzylsuccinates (with carbon chain lengths from 5 to 10 could be detected. Our findings suggest that increased exposure to hydrocarbons enriches for Deltaproteobacteria, which are known to be capable of anaerobic hydrocarbon metabolism. We also provide evidence for an active microbial community metabolizing aromatic hydrocarbons in deep-sea sediments of the

Low salinity hydrocarbon water disposal through deep subsurface drip irrigation: leaching of native selenium

Science.gov (United States)

Bern, Carleton R.; Engle, Mark A.; Boehlke, Adam R.; Zupancic, John W.; Brown, Adrian; Figueroa, Linda; Wolkersdorfer, Christian

2013-01-01

A subsurface drip irrigation system is being used in Wyoming’s Powder River Basin that treats high sodium, low salinity, coal bed methane (CBM) produced water with sulfuric acid and injects it into cropped fields at a depth of 0.92 m. Dissolution of native gypsum releases calcium that combats soil degradation that would otherwise result from high sodium water. Native selenium is leached from soil by application of the CBM water and traces native salt mobilization to groundwater. Resulting selenium concentrations in groundwater at this alluvial site were generally low (0.5–23 μg/L) compared to Wyoming’s agricultural use suitability standard (20 μg/L).

Physiologically anaerobic microorganisms of the deep subsurface. Progress report, June 1, 1990--May 30, 1991

Energy Technology Data Exchange (ETDEWEB)

Stevens, S.E. Jr.; Chung, K.T.

1991-06-01

This study seeks to determine numbers, diversity, and morphology of anaerobic microorganisms in 15 samples of subsurface material from the Idaho National Engineering Laboratory, in 18 samples from the Hanford Reservation and in 1 rock sample from the Nevada Test Site; set up long term experiments on the chemical activities of anaerobic microorganisms based on these same samples; work to improve methods for the micro-scale determination of in situ anaerobic microbial activity;and to begin to isolate anaerobes from these samples into axenic culture with identification of the axenic isolates.

Biogeochemical Coupling of Fe and Tc Speciation in Subsurface Sediments: Implications to Long-Term Tc Immobilization

International Nuclear Information System (INIS)

Jim K. Fredrickson; C. I. Steefel; R. K. Kukkadapu; S. M. Heald

2006-01-01

The project has been focused on biochemical processes in subsurface sediments involving Fe that control the valence state, solubility, and effective mobility of 99Tc. Our goal has been to understand the Tc biogeochemistry as it may occur in suboxic and biostimulated subsurface environments. Two objectives have been pursued: (1) To determine the relative reaction rates of 99Tc(VII)O2(aq) with metal reducing bacteria and biogenic Fe(II); and to characterize the identity, structure, and molecular speciation of Tc(IV) products formed through reaction with both biotic and abiotic reductants. (2) To quantify the biogeochemical factors controlling the reaction rate of O2 with Tc(IV)O2?nH2O in sediment resulting from the direct enzymatic reduction of Tc(VII) by DIRB and/or the reaction of Tc(VII) with the various types of biogenic Fe(II) produced by DIRB

Modeling Subsurface Behavior at the System Level: Considerations and a Path Forward

Science.gov (United States)

Geesey, G.

2005-12-01

to remotely measure microbial community parameters that define their key functions at a scale that accurately reflects their role in large scale subsurface system behavior. The practical questions that geomicrobiologist must answer in the short term are: 1) What is known about the activities of the dominant microbial populations or those of their closest relatives? 2) Which of these activities is likely to dominate under in situ conditions? In the process of answering these questions, researchers will obtain answers to questions of a more fundamental nature such as 1) How deep does "active" life extend below the surface of the seafloor and terrestrial subsurface? 2) How are electrons exchanged between microbial cells and solid phase minerals? 3) What is the metabolic state and mechanism of survival of "inactive" life forms in the subsurface? 4) What can genomes of life forms trapped in geological material tell us about evolution of life that current methods cannot? The subsurface environment represents a challenging environment to understand and model. As the need to understand subsurface processes increases and the technologies to characterize them become available, modeling subsurface behavior will approach the level of sophistication of models used today to predict behavior of other large scale systems such as the oceans.

Fe-oxide grain coatings support bacterial Fe-reducing metabolisms in 1.7-2.0 km-deep subsurface quartz arenite sandstone reservoirs of the Illinois Basin (USA

Directory of Open Access Journals (Sweden)

Yiran eDong

2014-09-01

Full Text Available The Cambrian-age Mt. Simon Sandstone, deeply buried within the Illinois Basin of the midcontinent of North America, contains quartz sand grains ubiquitously encrusted with iron-oxide cements and dissolved ferrous iron in pore-water. Although microbial iron reduction has previously been documented in the deep terrestrial subsurface, the potential for diagenetic mineral cementation to drive microbial activity has not been well studied. In this study, two subsurface formation water samples were collected at 1.72 and 2.02 km, respectively, from the Mt. Simon Sandstone in Decatur, Illinois. Low-diversity microbial communities were detected from both horizons and were dominated by Halanaerobiales of Phylum Firmicutes. Iron-reducing enrichment cultures fed with ferric citrate were successfully established using the formation water. Phylogenetic classification identified the enriched species to be related to Vulcanibacillus from the 1.72 km depth sample, while Orenia dominated the communities at 2.02 km of burial depth. Species-specific quantitative analyses of the enriched organisms in the microbial communities suggest that they are indigenous to the Mt. Simon Sandstone. Optimal iron reduction by the 1.72 km enrichment culture occurred at a temperature of 40oC (range 20 to 60oC and a salinity of 25 parts per thousand (range 25-75 ppt. This culture also mediated fermentation and nitrate reduction. In contrast, the 2.02 km enrichment culture exclusively utilized hydrogen and pyruvate as the electron donors for iron reduction, tolerated a wider range of salinities (25-200 ppt, and exhibited only minimal nitrate- and sulfate-reduction. In addition, the 2.02 km depth community actively reduces the more crystalline ferric iron minerals goethite and hematite. The results suggest evolutionary adaptation of the autochthonous microbial communities to the Mt. Simon Sandstone and carries potentially important implications for future utilization of this reservoir

[Phylogenetic diversity of microorganisms associated with the deep-water sponge Baikalospongia intermedia].

Science.gov (United States)

Kalyzhnaya, O V; Itskovich, V B

2014-07-01

The diversity of bacteria associated with deep-water sponge Baikalospongia intermedia was evaluated by sequence analysis of 16S rRNA genes from two sponge samples collected in Lake Baikal from depths of 550 and 1204 m. A total of 64 operational taxonomic units, belonging to nine bacterial phyla, Proteobacteria (classes Alphaproteobacteria,. Betaproteobacteria, Gammaproteobacteria, and Deltaproteobacteria), Actinobacteria, Planctomycetes, Cloroflexi, Verrucomicrobia, Acidobacteria, Chlorobi, and Nitrospirae, including candidate phylum WS5, were identified. Phylogenetic analysis showed that the examined communities contained phylotypes exhibiting homology to uncultured bacteria from different lake ecosystems, freshwater sediments, soil and geological formations. Moreover, a number of phylotypes were relative to psychrophilic, methane-oxidizing, sulfate-reducing bacteria, and to microorganisms resistant to the influence of heavy metals. It seems likely that the unusual habitation conditions of deep-water sponges contribute to the taxonomic diversity of associated bacteria and have an influence on the presence of functionally important microorganisms in bacterial communities.

Probing the deep critical zone beneath the Luquillo Experimental Forest, Puerto Rico

Science.gov (United States)

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

Geothermal energy in deep aquifers : A global assessment of the resource base for direct heat utilization

NARCIS (Netherlands)

Limberger, J.|info:eu-repo/dai/nl/371572037; Boxem, T.; Pluymaekers, Maarten; Bruhn, David; Manzella, Adelle; Calcagno, Philippe; Beekman, F.|info:eu-repo/dai/nl/123556856; Cloetingh, S.|info:eu-repo/dai/nl/069161836; van Wees, J.-D.

In this paper we present results of a global resource assessment for geothermal energy within deep aquifers for direct heat utilization. Greenhouse heating, spatial heating, and spatial cooling are considered in this assessment. We derive subsurface temperatures from geophysical data and apply a

Geothermal energy in deep aquifers: A global assessment of the resource base for direct heat utilization

NARCIS (Netherlands)

Limberger, J.; Boxem, T.; Pluymaekers, M.; Bruhn, D.; Manzella, A.; Calcagno, P.; Beekman, F.; Cloetingh, S.; Wees, J.D. van

2018-01-01

In this paper we present results of a global resource assessment for geothermal energy within deep aquifers for direct heat utilization. Greenhouse heating, spatial heating, and spatial cooling are considered in this assessment. We derive subsurface temperatures from geophysical data and apply a

TECHNICAL BASIS FOR EVALUATING SURFACE BARRIERS TO PROTECT GROUNDWATER FROM DEEP VADOSE ZONE CONTAMINATION

International Nuclear Information System (INIS)

Fayer, J.M.; Freedman, V.L.; Ward, A.L.; Chronister, G.B.

2010-01-01

tasks to achieve those outcomes. Full understanding of contaminant behavior in the deep vadose zone is constrained by four key data gaps: limited access; limited data; limited time; and the lack of an accepted predictive capability for determining whether surface barriers can effectively isolate deep vadose zone contaminants. Activities designed to fill these data gaps need to have these outcomes: (1) common evaluation methodology that provides a clear, consistent, and defensible basis for evaluating groundwater impacts caused by placement of a surface barrier above deep vadose zone contamination; (2) deep vadose zone data that characterize the lithology, the spatial distribution of moisture and contaminants, the physical, chemical, and biological process that affect the mobility of each contaminant, and the impacts to the contaminants following placement of a surface barrier; (3) subsurface monitoring to provide subsurface characterization of initial conditions and changes that occur during and following remediation activities; and (4) field observations that span years to decades to validate the evaluation methodology. A set of six proposed tasks was identified to provide information needed to address the above outcomes. The proposed tasks are: (1) Evaluation Methodology - Develop common evaluation methodology that will provide a clear, consistent, and defensible basis for evaluating groundwater impacts caused by placement of a surface barrier above deep vadose zone contamination. (2) Case Studies - Conduct case studies to demonstrate the applicability ofthe common evaluation methodology and provide templates for subsequent use elsewhere. Three sites expected to have conditions that would yield valuable information and experience pertinent to deep vadose zone contamination were chosen to cover a range of conditions. The sites are BC Cribs and Trenches, U Plant Cribs, and the T Farm Interim Cover. (3) Subsurface Monitoring Technologies - Evaluate minimally invasive

Bacterial Sulfate Reduction Above 100-Degrees-C in Deep-Sea Hydrothermal Vent Sediments

DEFF Research Database (Denmark)

JØRGENSEN, BB; ISAKSEN, MF; JANNASCH, HW

1992-01-01

-reducing bacteria was done in hot deep-sea sediments at the hydrothermal vents of the Guaymas Basin tectonic spreading center in the Gulf of California. Radiotracer studies revealed that sulfate reduction can occur at temperatures up to 110-degrees-C, with an optimum rate at 103-degrees to 106-degrees......-C. This observation expands the upper temperature limit of this process in deep-ocean sediments by 20-degrees-C and indicates the existence of an unknown groUp of hyperthermophilic bacteria with a potential importance for the biogeochemistry of sulfur above 100-degrees-C....

Thin-Sheet Inversion Modeling of Geomagnetic Deep Sounding Data Using MCMC Algorithm

Directory of Open Access Journals (Sweden)

Hendra Grandis

2013-01-01

Full Text Available The geomagnetic deep sounding (GDS method is one of electromagnetic (EM methods in geophysics that allows the estimation of the subsurface electrical conductivity distribution. This paper presents the inversion modeling of GDS data employing Markov Chain Monte Carlo (MCMC algorithm to evaluate the marginal posterior probability of the model parameters. We used thin-sheet model to represent quasi-3D conductivity variations in the heterogeneous subsurface. The algorithm was applied to invert field GDS data from the zone covering an area that spans from eastern margin of the Bohemian Massif to the West Carpathians in Europe. Conductivity anomalies obtained from this study confirm the well-known large-scale tectonic setting of the area.

Identification of temperature-dependent water quality changes during a deep well injection experiment in a pyritic aquifer

NARCIS (Netherlands)

Prommer, H.; Stuijfzand, P.J.

2005-01-01

Artificial recharge is a technique used increasingly to supplement drinking water supplies. To assess the potential water quality changes that occur during subsurface passage, a comprehensive deep-well injection experiment was carried out for a recharge scheme, where pretreated, aerobic surface

Program overview: Subsurface science program

International Nuclear Information System (INIS)

1994-03-01

The OHER Subsurface Science Program is DOE's core basic research program concerned with subsoils and groundwater. These practices have resulted in contamination by mixtures of organic chemicals, inorganic chemicals, and radionuclides. A primary long-term goal is to provide a foundation of knowledge that will lead to the reduction of environmental risks and to cost-effective cleanup strategies. Since the Program was initiated in 1985, a substantial amount of research in hydrogeology, subsurface microbiology, and the geochemistry of organically complexed radionuclides has been completed, leading to a better understanding of contaminant transport in groundwater and to new insights into microbial distribution and function in the subsurface environments. The Subsurface Science Program focuses on achieving long-term scientific advances that will assist DOE in the following key areas: providing the scientific basis for innovative in situ remediation technologies that are based on a concept of decontamination through benign manipulation of natural systems; understanding the complex mechanisms and process interactions that occur in the subsurface; determining the influence of chemical and geochemical-microbial processes on co-contaminant mobility to reduce environmental risks; improving predictions of contaminant transport that draw on fundamental knowledge of contaminant behavior in the presence of physical and chemical heterogeneities to improve cleanup effectiveness and to predict environmental risks

Hydrothermally generated aromatic compounds are consumed by bacteria colonizing in Atlantis II Deep of the Red Sea

KAUST Repository

Wang, Yong

2011-04-28

Hydrothermal ecosystems have a wide distribution on Earth and many can be found in the basin of the Red Sea. Production of aromatic compounds occurs in a temperature window of 60-150 °C by utilizing organic debris. In the past 50 years, the temperature of the Atlantis II Deep brine pool in the Red Sea has increased from 56 to 68 °C, whereas the temperature at the nearby Discovery Deep brine pool has remained relatively stable at about 44 °C. In this report, we confirmed the presence of aromatic compounds in the Atlantis II brine pool as expected. The presence of the aromatic compounds might have disturbed the microbes in the Atlantis II. To show shifted microbial communities and their metabolisms, we sequenced the metagenomes of the microbes from both brine pools. Classification based on metareads and the 16S rRNA gene sequences from clones showed a strong divergence of dominant bacterial species between the pools. Bacteria capable of aromatic degradation were present in the Atlantis II brine pool. A comparison of the metabolic pathways showed that several aromatic degradation pathways were significantly enriched in the Atlantis II brine pool, suggesting the presence of aromatic compounds. Pathways utilizing metabolites derived from aromatic degradation were also significantly affected. In the Discovery brine pool, the most abundant genes from the microbes were related to sugar metabolism pathways and DNA synthesis and repair, suggesting a different strategy for the utilization of carbon and energy sources between the Discovery brinse pool and the Atlantis II brine pool. © 2011 International Society for Microbial Ecology. All rights reserved.

Geothermal energy in deep aquifers : A global assessment of the resource base for direct heat utilization

NARCIS (Netherlands)

Limberger, Jon; Boxem, Thijs; Pluymaekers, Maarten; Bruhn, D.F.; Manzella, Adele; Calcagno, Philippe; Beekman, Fred; Cloetingh, S.A.P.L.; van Wees, Jan Diederik

2018-01-01

In this paper we present results of a global resource assessment for geothermal energy within deep aquifers for direct heat utilization. Greenhouse heating, spatial heating, and spatial cooling are considered in this assessment. We derive subsurface temperatures from geophysical data and apply a

A Review of Ocean/Sea Subsurface Water Temperature Studies from Remote Sensing and Non-Remote Sensing Methods

Directory of Open Access Journals (Sweden)

Elahe Akbari

2017-12-01

Full Text Available Oceans/Seas are important components of Earth that are affected by global warming and climate change. Recent studies have indicated that the deeper oceans are responsible for climate variability by changing the Earth’s ecosystem; therefore, assessing them has become more important. Remote sensing can provide sea surface data at high spatial/temporal resolution and with large spatial coverage, which allows for remarkable discoveries in the ocean sciences. The deep layers of the ocean/sea, however, cannot be directly detected by satellite remote sensors. Therefore, researchers have examined the relationships between salinity, height, and temperature of the oceans/Seas to estimate their subsurface water temperature using dynamical models and model-based data assimilation (numerical based and statistical approaches, which simulate these parameters by employing remotely sensed data and in situ measurements. Due to the requirements of comprehensive perception and the importance of global warming in decision making and scientific studies, this review provides comprehensive information on the methods that are used to estimate ocean/sea subsurface water temperature from remotely and non-remotely sensed data. To clarify the subsurface processes, the challenges, limitations, and perspectives of the existing methods are also investigated.

Deep Interior: Multiple-Rendezvous Prospecting of NEOs

Science.gov (United States)

Kakuda, R. Y.; Asphaug, E.; Belton, M. J. S.; Gulkis, S.; Huebner, W. F.

2000-10-01

This is an international multiple-rendezvous mission designed to prospect the deep interior and subsurface geophysical properties of diverse near-Earth objects, using reflection radar tomography, imaging, gravity, and explosions. What we learn will greatly influence future missions and guide strategies for the diversion, disruption, or utilization of potentially hazardous objects. Deep Interior. Low-frequency radar to determine internal variations of complex permittivity at resolutions approaching 20 m. Map inclusions or voids, fracture geometries, and compositional or structural boundaries. Subsurface. High-frequency radar to determine depth of regolith, existence and nature of cometary mantle, geology beneath and around craters, and subsurface expressions to surface geology. Topography and Geodesy. Stereogrammetric imaging with 1 m/pixel spatial resolution, supplemented by radar altimetry in shadowed regions, to determine detailed shape, volume, and spin state. Compare with radar sounding to learn how internal structure is manifested on the surface. Mass and Density. Total mass and lower moments of the internal mass distribution by mapping the exterior gravitational field. Look for mass concentrations. Surface microphysics and composition. Map color, albedo, and scattering properties of the surface over sunlit regions in six optical filters. Material properties. Deploy grenades to characterize the mechanics and dynamics of surface materials. Record 8 frame/sec, 20 cm/pixel videos of crater formation and ejecta dynamics, to enable simple and direct laboratory constraints on material density, cohesion and porosity. Dust. Look for dust lofted by surface waves propagating from the explosions, to constrain elastic properties and attenuation. Observe longer-term dynamics and optical properties of dust "atmosphere" generated by human activity. Cometary Activity. At comet 107P/Wilson-Harrington, look for expressions of past cometary activity, and for possible awakening

SUBSURFACE REPOSITORY INTEGRATED CONTROL SYSTEM DESIGN

International Nuclear Information System (INIS)

C.J. Fernado

1998-01-01

The purpose of this document is to develop preliminary high-level functional and physical control system architectures for the proposed subsurface repository at Yucca Mountain. This document outlines overall control system concepts that encompass and integrate the many diverse systems being considered for use within the subsurface repository. This document presents integrated design concepts for monitoring and controlling the diverse set of subsurface operations. The subsurface repository design will be composed of a series of diverse systems that will be integrated to accomplish a set of overall functions and objectives. The subsurface repository contains several Instrumentation and Control (I andC) related systems including: waste emplacement systems, ventilation systems, communication systems, radiation monitoring systems, rail transportation systems, ground control monitoring systems, utility monitoring systems (electrical, lighting, water, compressed air, etc.), fire detection and protection systems, retrieval systems, and performance confirmation systems. Each of these systems involve some level of I andC and will typically be integrated over a data communication network. The subsurface I andC systems will also integrate with multiple surface-based site-wide systems such as emergency response, health physics, security and safeguards, communications, utilities and others. The scope and primary objectives of this analysis are to: (1) Identify preliminary system level functions and interface needs (Presented in the functional diagrams in Section 7.2). (2) Examine the overall system complexity and determine how and on what levels these control systems will be controlled and integrated (Presented in Section 7.2). (3) Develop a preliminary subsurface facility-wide design for an overall control system architecture, and depict this design by a series of control system functional block diagrams (Presented in Section 7.2). (4) Develop a series of physical architectures

SUBSURFACE REPOSITORY INTEGRATED CONTROL SYSTEM DESIGN

Energy Technology Data Exchange (ETDEWEB)

C.J. Fernado

1998-09-17

The purpose of this document is to develop preliminary high-level functional and physical control system architectures for the proposed subsurface repository at Yucca Mountain. This document outlines overall control system concepts that encompass and integrate the many diverse systems being considered for use within the subsurface repository. This document presents integrated design concepts for monitoring and controlling the diverse set of subsurface operations. The subsurface repository design will be composed of a series of diverse systems that will be integrated to accomplish a set of overall functions and objectives. The subsurface repository contains several Instrumentation and Control (I&C) related systems including: waste emplacement systems, ventilation systems, communication systems, radiation monitoring systems, rail transportation systems, ground control monitoring systems, utility monitoring systems (electrical, lighting, water, compressed air, etc.), fire detection and protection systems, retrieval systems, and performance confirmation systems. Each of these systems involve some level of I&C and will typically be integrated over a data communication network. The subsurface I&C systems will also integrate with multiple surface-based site-wide systems such as emergency response, health physics, security and safeguards, communications, utilities and others. The scope and primary objectives of this analysis are to: (1) Identify preliminary system level functions and interface needs (Presented in the functional diagrams in Section 7.2). (2) Examine the overall system complexity and determine how and on what levels these control systems will be controlled and integrated (Presented in Section 7.2). (3) Develop a preliminary subsurface facility-wide design for an overall control system architecture, and depict this design by a series of control system functional block diagrams (Presented in Section 7.2). (4) Develop a series of physical architectures that

Biogeography of Persephonella in deep-sea hydrothermal vents of the Western Pacific.

Directory of Open Access Journals (Sweden)

Sayaka eMino

2013-04-01

Full Text Available Deep-sea hydrothermal vent fields are areas on the seafloor with high biological productivity fueled by microbial chemosynthesis. Members of the Aquificales genus Persephonella are obligately chemosynthetic bacteria, and appear to be key players in carbon, sulfur, and nitrogen cycles in high temperature habitats at deep-sea vents. Although this group of bacteria has cosmopolitan distribution in deep-sea hydrothermal ecosystem around the world, little is known about their population structure such as intraspecific genomic diversity, distribution pattern, and phenotypic diversity. We developed the multi-locus sequence analysis (MLSA scheme for their genomic characterization. Sequence variation was determined in five housekeeping genes and one functional gene of 36 P. hydrogeniphila strains originated from the Okinawa Trough and the South Mariana Trough. Although the strains share > 98.7% similarities in 16S rRNA gene sequences, MLSA revealed 35 different sequence types, indicating their extensive genomic diversity. A phylogenetic tree inferred from all concatenated gene sequences revealed the clustering of isolates according to the geographic origin. In addition, the phenotypic clustering pattern inferred from whole-cell matrix-assisted laser desorption ionization-time of flight mass spectrometry (MALDI-TOF/MS analysis can be correlated to their MLSA clustering pattern. This study represents the first MLSA combined with phenotypic analysis indicative of allopatric speciation of deep-sea hydrothermal vent bacteria.

SUBSURFACE CONSTRUCTION AND DEVELOPMENT ANALYSIS

International Nuclear Information System (INIS)

N.E. Kramer

1998-01-01

The purpose of this analysis is to identify appropriate construction methods and develop a feasible approach for construction and development of the repository subsurface facilities. The objective of this analysis is to support development of the subsurface repository layout for License Application (LA) design. The scope of the analysis for construction and development of the subsurface Repository facilities covers: (1) Excavation methods, including application of knowledge gained from construction of the Exploratory Studies Facility (ESF). (2) Muck removal from excavation headings to the surface. This task will examine ways of preventing interference with other subsurface construction activities. (3) The logistics and equipment for the construction and development rail haulage systems. (4) Impact of ground support installation on excavation and other construction activities. (5) Examination of how drift mapping will be accomplished. (6) Men and materials handling. (7) Installation and removal of construction utilities and ventilation systems. (8) Equipping and finishing of the emplacement drift mains and access ramps to fulfill waste emplacement operational needs. (9) Emplacement drift and access mains and ramps commissioning prior to handover for emplacement operations. (10) Examination of ways to structure the contracts for construction of the repository. (11) Discussion of different construction schemes and how to minimize the schedule risks implicit in those schemes. (12) Surface facilities needed for subsurface construction activities

Photobiology of the deep twilight zone and beyond

Science.gov (United States)

Waterman, Talbot H.

1997-02-01

Photobiology in the twilight zone of the deep sea depends on faint light of two, or possibly three, origins: sunlight, bioluminescence and some visible radiation near the bottom associated with hydrothermal vents. The deep twilight zone also contains two quite distinct ecosystems: the vast open ocean pelagic regime far from the shore and the bottom as well as the far less expansive benthic regime with quite different characteristic animals that live on, in or near the sea bo10 Most of the whole ocean's benthic regime with a mean depth over 3000m is well below the twilight zone, which eliminates sunlight as a light source there. Many of the most familiar deepsea animals with their spectacular arrays of dennal light organs and remarkable eyes are from the pelagic 19, 25 The less familiar benthic fishes and crustaceans sometimes have curious internal light organs powered by bacteria13 and occasional incredibly modified eyes.30 With the exception of those on the fishing rods of most female deepsea anglerfish, where the light is produced by symbiotic bacteria, all the numerous light organs of pelagic deepsea fishes are generally believed to manage their own chemiluminescence independent of luminous bacteria.17

Deep Boreholes Seals Subjected to High P, T conditions – Preliminary Experimental Studies

Energy Technology Data Exchange (ETDEWEB)

Caporuscio, Florie Andre [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Norskog, Katherine Elizabeth [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Maner, James Lavada [Los Alamos National Lab. (LANL), Los Alamos, NM (United States)

2017-01-18

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 (granitic gneiss) end members. The experiments will systematically add components to capture discrete changes in both water and EBS component chemistries.

Modeling subsurface stormflow initiation in low-relief landscapes

Science.gov (United States)

Hopp, Luisa; Vaché, Kellie B.; Rhett Jackson, C.; McDonnell, Jeffrey J.

2015-04-01

Shallow lateral subsurface flow as a runoff generating mechanism at the hillslope scale has mostly been studied in steeper terrain with typical hillside angles of 10 - 45 degrees. These studies have shown that subsurface stormflow is often initiated at the interface between a permeable upper soil layer and a lower conductivity impeding layer, e.g. a B horizon or bedrock. Many studies have identified thresholds of event size and soil moisture states that need to be exceeded before subsurface stormflow is initiated. However, subsurface stormflow generation on low-relief hillslopes has been much less studied. Here we present a modeling study that investigates the initiation of subsurface stormflow on low-relief hillslopes in the Upper Coastal Plain of South Carolina, USA. Hillslopes in this region typically have slope angles of 2-5 degrees. Topsoils are sandy, underlain by a low-conductivity sandy clay loam Bt horizon. Subsurface stormflow has only been intercepted occasionally in a 120 m long trench, and often subsurface flow was not well correlated with stream signals, suggesting a disconnect between subsurface flow on the hillslopes and stream flow. We therefore used a hydrologic model to better understand which conditions promote the initiation of subsurface flow in this landscape, addressing following questions: Is there a threshold event size and soil moisture state for producing lateral subsurface flow? What role does the spatial pattern of depth to the impeding clay layer play for subsurface stormflow dynamics? We reproduced a section of a hillslope, for which high-resolution topographic data and depth to clay measurements were available, in the hydrologic model HYDRUS-3D. Soil hydraulic parameters were based on experimentally-derived data. The threshold analysis was first performed using hourly climate data records for 2009-2010 from the study site to drive the simulation. For this period also trench measurements of subsurface flow were available. In addition

The Lusi eruption site: insights from surface and subsurface investigations

Science.gov (United States)

Mazzini, A.

2017-12-01

The Indonesian Lusi eruption has been spewing boiling water, gas, and sediments since the 29th of May 2006. Initially, numerous aligned eruptions sites appeared along the Watukosek fault system (WFS) that was reactivated after the Yogyakarta earthquake occurring the 27th of May in the Java Island. Within weeks several villages were submerged by boiling mud. The most prominent eruption site was named Lusi. To date Lusi is still active and an area of 7 km2is covered by mud. Since its birth Lusi erupted with a pulsating behaviour. In the framework of the ERC grant "Lusi Lab" we conducted several years of monitoring and regional investigations coupling surface sampling and subsurface imaging in the region around Lusi. Ambient noise tomography studies, obtained with a local network of 31 stations, revealed for the first time subsurface images of the Lusi region and the adjacent Arjuno-Welirang (AW) volcanic complex. Results show that below the AW volcanic complex are present 5km deep magma chambers that are connected, through a defined corridor, with the roots of the Lusi eruption site. The Lusi subsurface shows the presence of a defined vertical hydrothermal plume that extends to at least 5km. Chemical analyses of the seeping fluids sampled from 1) the Lusi plume (using a specifically designed drone), 2) the region around Lusi, and 3) the fumaroles and the hydro thermal springs of AW, revealed striking similarities. More specifically a mantellic signature of the Lusi fluids confirms the scenario that Lusi represents a magmatic-driven hydrothermal system hosted in sedimentary basin. Seismic profiles interpretation, surface mapping, and fluid sampling show that the WFS, connecting AW and extending towards the NE of Java, acted as a preferential pathway for the igneous intrusion and fluids migration towards the subsurface. Petrography and dating of the clasts erupted at Lusi record high temperatures and indicate that the roots of the active conduit extend to at least 5km

Phosphate solubilizing bacteria: Comparison between coastal and deep sea sediments

Digital Repository Service at National Institute of Oceanography (India)

Biche, S.; Pandey, S.; Gonsalves, M.J.B.D.; Das, A.; Mascarenhas-Pereira, M.B.L.; LokaBharathi, P.A.

in the CIB sediments (r=0.59) than in the coastal sediments (r= 0.22). It is apparent that the enzyme activity in the coastal sediments could be more for P mobilization and in the oligotrophic deep sea it could be both for P and C mobilization....

A constant flux of diverse thermophilic bacteria into the cold arctic seabed

DEFF Research Database (Denmark)

Hubert, Casey; Loy, Alexander; Nickel, Maren

2009-01-01

Microorganisms have been repeatedly discovered in environments that do not support their metabolic activity. Identifying and quantifying these misplaced organisms can reveal dispersal mechanisms that shape natural microbial diversity. Using endospore germination experiments, we estimated a stable...... supply of thermophilic bacteria into permanently cold Arctic marine sediment at a rate exceeding 108 spores per square meter per year. These metabolically and phylogenetically diverse Firmicutes show no detectable activity at cold in situ temperatures but rapidly mineralize organic matter by hydrolysis......, fermentation, and sulfate reduction upon induction at 50°C. The closest relatives to these bacteria come from warm subsurface petroleum reservoir and ocean crust ecosystems, suggesting that seabed fluid flow from these environments is delivering thermophiles to the cold ocean. These transport pathways may...

SUBSURFACE EMPLACEMENT TRANSPORTATION SYSTEM

International Nuclear Information System (INIS)

Wilson, T.; Novotny, R.

1999-01-01

The objective of this analysis is to identify issues and criteria that apply to the design of the Subsurface Emplacement Transportation System (SET). The SET consists of the track used by the waste package handling equipment, the conductors and related equipment used to supply electrical power to that equipment, and the instrumentation and controls used to monitor and operate those track and power supply systems. Major considerations of this analysis include: (1) Operational life of the SET; (2) Geometric constraints on the track layout; (3) Operating loads on the track; (4) Environmentally induced loads on the track; (5) Power supply (electrification) requirements; and (6) Instrumentation and control requirements. This analysis will provide the basis for development of the system description document (SDD) for the SET. This analysis also defines the interfaces that need to be considered in the design of the SET. These interfaces include, but are not limited to, the following: (1) Waste handling building; (2) Monitored Geologic Repository (MGR) surface site layout; (3) Waste Emplacement System (WES); (4) Waste Retrieval System (WRS); (5) Ground Control System (GCS); (6) Ex-Container System (XCS); (7) Subsurface Electrical Distribution System (SED); (8) MGR Operations Monitoring and Control System (OMC); (9) Subsurface Facility System (SFS); (10) Subsurface Fire Protection System (SFR); (11) Performance Confirmation Emplacement Drift Monitoring System (PCM); and (12) Backfill Emplacement System (BES)

Deep Vadose Zone Treatability Test of Soil Desiccation for the Hanford Central Plateau: Final Report

Energy Technology Data Exchange (ETDEWEB)

Truex, Michael J. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Chronister, Glen B. [CH2M Hill Plateau Remediation Co., Richland, WA (United States); Strickland, Christopher E. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Johnson, Christian D. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Tartakovsky, Guzel D. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Oostrom, Martinus [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Clayton, Ray E. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Johnson, Timothy C. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Freedman, Vicky L. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Rockhold, Mark L. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Greenwood, William J. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Peterson, John E. [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Hubbard, Susan S. [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Ward, Anderson L. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States)

2018-02-20

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 zone 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.

Microbial effects on the release and attenuation of arsenic in the shallow subsurface of a natural geochemical anomaly

International Nuclear Information System (INIS)

Drahota, Petr; Falteisek, Lukáš; Redlich, Aleš; Rohovec, Jan; Matoušek, Tomáš; Čepička, Ivan

2013-01-01

Critical factors leading to arsenic release and attenuation from the shallow subsurface were studied with multidisciplinary approach in the natural gold–arsenic geochemical anomaly at Mokrsko (Czech Republic). The results show that microbial reduction promotes arsenic release from Fe(III) (hydr)oxides and Fe(III) arsenates, thereby enhancing dissolved arsenic in the shallow groundwater at average concentration of 7.76 mg/L. In the organic-rich aggregates and wood particles, however, microbial sulfate reduction triggers the formation of realgar deposits, leading to accumulation of As in the distinct organic-rich patches of the shallow subsurface. We conclude that precipitation of realgar in the shallow subsurface of soil/sediment depends on specific and non-trivial combination of water and rock chemistry, microbial community composition and spatial organisation of the subsurface zone, where speciation in saturated environments varied on a centimeter scale from reduced (decomposed wood, H 2 S and realgar present) to oxidized (goethite and arsenate minerals are present). Highlights: •Very high As(III) concentrations were detected in the shallow groundwater. •Arsenic is bound to Fe(III) (hydr)oxides, Fe(III) arsenates and newly-formed realgar. •Reductive dissolution of Fe(III) and As(V) minerals by bacteria leads to mobilization of arsenic. •Precipitation of realgar is constrained to anaerobic domains around and within organic particles. -- Microbial reduction of Fe(III) and As(V) minerals leads to mobilization of As and induces a mineralogical transition toward realgar formation

Subsurface Shielding Source Term Specification Calculation

International Nuclear Information System (INIS)

S.Su

2001-01-01

The purpose of this calculation is to establish appropriate and defensible waste-package radiation source terms for use in repository subsurface shielding design. This calculation supports the shielding design for the waste emplacement and retrieval system, and subsurface facility system. The objective is to identify the limiting waste package and specify its associated source terms including source strengths and energy spectra. Consistent with the Technical Work Plan for Subsurface Design Section FY 01 Work Activities (CRWMS M and O 2001, p. 15), the scope of work includes the following: (1) Review source terms generated by the Waste Package Department (WPD) for various waste forms and waste package types, and compile them for shielding-specific applications. (2) Determine acceptable waste package specific source terms for use in subsurface shielding design, using a reasonable and defensible methodology that is not unduly conservative. This calculation is associated with the engineering and design activity for the waste emplacement and retrieval system, and subsurface facility system. The technical work plan for this calculation is provided in CRWMS M and O 2001. Development and performance of this calculation conforms to the procedure, AP-3.12Q, Calculations

Natural soil reservoirs for human pathogenic and fecal indicator bacteria

Science.gov (United States)

Boschiroli, Maria L; Falkinham, Joseph; Favre-Bonte, Sabine; Nazaret, Sylvie; Piveteau, Pascal; Sadowsky, Michael J.; Byappanahalli, Muruleedhara; Delaquis, Pascal; Hartmann, Alain

2016-01-01

Soils receive inputs of human pathogenic and indicator bacteria through land application of animal manures or sewage sludge, and inputs by wildlife. Soil is an extremely heterogeneous substrate and contains meso- and macrofauna that may be reservoirs for bacteria of human health concern. The ability to detect and quantify bacteria of human health concern is important in risk assessments and in evaluating the efficacy of agricultural soil management practices that are protective of crop quality and protective of adjacent water resources. The present chapter describes the distribution of selected Gram-positive and Gram-negative bacteria in soils. Methods for detecting and quantifying soilborne bacteria including extraction, enrichment using immunomagnetic capture, culturing, molecular detection and deep sequencing of metagenomic DNA to detect pathogens are overviewed. Methods for strain phenotypic and genotypic characterization are presented, as well as how comparison with clinical isolates can inform the potential for human health risk.

Microbial Life of North Pacific Oceanic Crust

Science.gov (United States)

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

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

Science.gov (United States)

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.

Impact on the deep biosphere of CO2 geological sequestration in (ultra)mafic rocks and retroactive consequences on its fate

Science.gov (United States)

Ménez, Bénédicte; Gérard, Emmanuelle; Rommevaux-Jestin, Céline; Dupraz, Sébastien; Guyot, François; Arnar Alfreősson, Helgi; Reynir Gíslason, Sigurőur; Sigurőardóttir, Hólmfríiur

2010-05-01

Due to their reactivity and high potential of carbonation, mafic and ultramafic rocks constitute targets of great interest to safely and permanently sequestrate anthropogenic CO2 and thus, limit the potential major environmental consequences of its increasing atmospheric level. In addition, subsurface (ultra)mafic environments are recognized to harbor diverse and active microbial populations that may be stimulated or decimated following CO2 injection (± impurities) and subsequent acidification. However, the nature and amplitude of the involved biogeochemical pathways are still unknown. To avoid unforeseen consequences at all time scales (e.g. reservoir souring and clogging, bioproduction of H2S and CH4), the impact of CO2 injection on deep biota with unknown ecology, and their retroactive effects on the capacity and long-term stability of CO2 storage sites, have to be determined. We present here combined field and experimental investigations focused on the Icelandic pilot site, implemented in the Hengill area (SW Iceland) at the Hellisheidi geothermal power plant (thanks to the CarbFix program, a consortium between the University of Iceland, Reykjavik Energy, the French CNRS of Toulouse and Columbia University in N.Y., U.S.A. and to the companion French ANR-CO2FIX project). This field scale injection of CO2 charged water is here designed to study the feasibility of storing permanently CO2 in basaltic rocks and to optimize industrial methods. Prior to the injection, the microbiological initial state was characterized through regular sampling at various seasons (i.e., October '08, July '09, February '10). DNA was extracted and amplified from the deep and shallow observatory wells, after filtration of 20 to 30 liters of groundwater collected in the depth interval 400-980 m using a specifically developed sampling protocol aiming at reducing contamination risks. An inventory of living indigenous bacteria and archaea was then done using molecular methods based on the

3D seismic imaging of the subsurface for underground construction and drilling

International Nuclear Information System (INIS)

Juhlin, Christopher

2014-01-01

3D seismic imaging of underground structure has been carried out in various parts of the world for various purposes. Examples shown below were introduced in the presentation. - CO 2 storage in Ketzin, Germany; - Mine planning at the Millennium Uranium Deposit in Canada; - Planned Forsmark spent nuclear fuel repository in Sweden; - Exploring the Scandinavian Mountain Belt by Deep Drilling: the COSC drilling project in Sweden. The author explained that seismic methods provide the highest resolution images (5-10 m) of deeper (1-5 km) sub-surfaces in the sedimentary environment, but further improvement is required in crystalline rock environments, and the integration of geology, geophysics, and drilling will provide an optimal interpretation. (author)

Component-based framework for subsurface simulations

International Nuclear Information System (INIS)

Palmer, B J; Fang, Yilin; Hammond, Glenn; Gurumoorthi, Vidhya

2007-01-01

Simulations in the subsurface environment represent a broad range of phenomena covering an equally broad range of scales. Developing modelling capabilities that can integrate models representing different phenomena acting at different scales present formidable challenges both from the algorithmic and computer science perspective. This paper will describe the development of an integrated framework that will be used to combine different models into a single simulation. Initial work has focused on creating two frameworks, one for performing smooth particle hydrodynamics (SPH) simulations of fluid systems, the other for performing grid-based continuum simulations of reactive subsurface flow. The SPH framework is based on a parallel code developed for doing pore scale simulations, the continuum grid-based framework is based on the STOMP (Subsurface Transport Over Multiple Phases) code developed at PNNL Future work will focus on combining the frameworks together to perform multiscale, multiphysics simulations of reactive subsurface flow

Brine migration resulting from pressure increases in a layered subsurface system

Science.gov (United States)

Delfs, Jens-Olaf; Nordbeck, Johannes; Bauer, Sebastian

2016-04-01

Brine originating from the deep subsurface impairs parts of the freshwater resources in the North German Basin. Some of the deep porous formations (esp. Trias and Jurassic) exhibit considerable storage capacities for waste fluids (CO2, brine from oil production or cavern leaching), raising concerns among water providers that this type of deep subsurface utilization might impair drinking water supplies. On the one hand, overpressures induced by fluid injections and the geothermal gradient support brine migration from deep into shallow formations. On the other hand, the rising brine is denser than the surrounding less-saline formation waters and, therefore, tends to settle down. Aim of this work is to investigate the conditions under which pressurized formation brine from deep formations can reach shallow freshwater resources. Especially, the role of intermediate porous formations between the storage formation and the groundwater is studied. For this, complex thermohaline simulations using a coupled numerical process model are necessary and performed in this study, in which fluid density depends on fluid pressure, temperature and salt content and the governing partial differential equations are coupled. The model setup is 2D and contains a hypothetic series of aquifers and barriers, each with a thickness of 200 m. Formation pressure is increased at depths of about 2000 m in proximity to a salt wall and a permeable fault. The domain size reaches up to tens of kilometers horizontally to the salt wall. The fault connects the injection formation and the freshwater aquifer such that conditions can be considered as extremely favorable for induced brine migration (worst case scenarios). Brine, heat, and salt fluxes are quantified with reference to hydraulic permeabilities, storage capacities (in terms of domain size), initial salt and heat distribution, and operation pressures. The simulations reveal the development of a stagnation point in the fault region in each

Femtosecond laser subsurface scleral treatment in cadaver human sclera and evaluation using two-photon and confocal microscopy

Science.gov (United States)

Sun, Hui; Fan, Zhongwei; Yan, Ying; Lian, Fuqiang; Kurtz, Ron; Juhasz, Tibor

2016-03-01

Glaucoma is the second-leading cause of blindness worldwide and is often associated with elevated intraocular pressure (IOP). Partial-thickness drainage channels can be created with femtosecond laser in the translucent sclera for the potential treatment of glaucoma. We demonstrate the creation of partial-thickness subsurface drainage channels with the femtosecond laser in the cadaver human eyeballs and describe the application of two-photon microscopy and confocal microscopy for noninvasive imaging of the femtosecond laser created partial-thickness scleral channels in cadaver human eyes. A femtosecond laser operating at a wavelength of 1700 nm was scanned along a rectangular raster pattern to create the partial thickness subsurface drainage channels in the sclera of cadaver human eyes. Analysis of the dimensions and location of these channels is important in understanding their effects. We describe the application of two-photon microscopy and confocal microscopy for noninvasive imaging of the femtosecond laser created partial-thickness scleral channels in cadaver human eyes. High-resolution images, hundreds of microns deep in the sclera, were obtained to allow determination of the shape and dimension of such partial thickness subsurface scleral channels. Our studies suggest that the confocal and two-photon microscopy can be used to investigate femtosecond-laser created partial-thickness drainage channels in the sclera of cadaver human eyes.

On the possibility of galactic cosmic ray-induced radiolysis-powered life in subsurface environments in the Universe.

Science.gov (United States)

Atri, Dimitra

2016-10-01

Photosynthesis is a mechanism developed by terrestrial life to utilize the energy from photons of solar origin for biological use. Subsurface regions are isolated from the photosphere, and consequently are incapable of utilizing this energy. This opens up the opportunity for life to evolve alternative mechanisms for harvesting available energy. Bacterium Candidatus Desulforudis audaxviator, found 2.8 km deep in a South African mine, harvests energy from radiolysis, induced by particles emitted from radioactive U, Th and K present in surrounding rock. Another radiation source in the subsurface environments is secondary particles generated by galactic cosmic rays (GCRs). Using Monte Carlo simulations, it is shown that it is a steady source of energy comparable to that produced by radioactive substances, and the possibility of a slow metabolizing life flourishing on it cannot be ruled out. Two mechanisms are proposed through which GCR-induced secondary particles can be utilized for biological use in subsurface environments: (i) GCRs injecting energy in the environment through particle-induced radiolysis and (ii) organic synthesis from GCR secondaries interacting with the medium. Laboratory experiments to test these hypotheses are also proposed. Implications of these mechanisms on finding life in the Solar System and elsewhere in the Universe are discussed. © 2016 The Author(s).

Near-bottom pelagic bacteria at a deep-water sewage sludge disposal site

Energy Technology Data Exchange (ETDEWEB)

Takizawa, M.; Straube, W.L.; Hill, R.T.; Colwell, R.R.

1994-01-01

The epibenthic bacterial community at deep-ocean sewage sludge disposal site DWD-106, located approximately 106 miles (ca. 196 km) off the coast of New Jersey, was assessed for changes associated with the introduction of large amounts of sewage sludge. Mixed cultures and bacterial isolates obtained from water overlying sediment core samples collected at the deep-water (2,500 m) municipal sewage disposal site were tested for the ability to grow under in situ conditions of temperature and pressure. The responses of cultures collected at a DWD-106 station heavily impacted by sewage sludge were compared with those of samples collected from a station at the same depth which was not contaminated by sewage sludge. Significant differences were observed in the ability of mixed bacterial cultures and isolates from the two sites to grow under deep-sea pressure and temperature conditions. The levels of sludge contamination were established by enumerating Clostridium perfringens, a sewage indicator bacterium, in sediment samples from the two sites. (Copyright (c) 1993, American Society for Microbiology.)

Deep Borehole Field Test Requirements and Controlled Assumptions.

Energy Technology Data Exchange (ETDEWEB)

Hardin, Ernest [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States)

2015-07-01

This document presents design requirements and controlled assumptions intended for use in the engineering development and testing of: 1) prototype packages for radioactive waste disposal in deep boreholes; 2) a waste package surface handling system; and 3) a subsurface system for emplacing and retrieving packages in deep boreholes. Engineering development and testing is being performed as part of the Deep Borehole Field Test (DBFT; SNL 2014a). This document presents parallel sets of requirements for a waste disposal system and for the DBFT, showing the close relationship. In addition to design, it will also inform planning for drilling, construction, and scientific characterization activities for the DBFT. The information presented here follows typical preparations for engineering design. It includes functional and operating requirements for handling and emplacement/retrieval equipment, waste package design and emplacement requirements, borehole construction requirements, sealing requirements, and performance criteria. Assumptions are included where they could impact engineering design. Design solutions are avoided in the requirements discussion. Deep Borehole Field Test Requirements and Controlled Assumptions July 21, 2015 iv ACKNOWLEDGEMENTS This set of requirements and assumptions has benefited greatly from reviews by Gordon Appel, Geoff Freeze, Kris Kuhlman, Bob MacKinnon, Steve Pye, David Sassani, Dave Sevougian, and Jiann Su.

Mechanisms regulating the reduction of selenite by aerobic gram (+) and (-) bacteria

International Nuclear Information System (INIS)

Garbisu, C.; Ishii, Takahisa; Yee, B.C.; Carlson, D.E.; Buchanan, B.B.; Leighton, T.; Smith, N.R.; Yee, A.

1995-01-01

Toxic species of selenium are pollutants found in agricultural and oil refinery wastestreams. Selenium contamination is particularly problematic in areas that have seleniferous subsurface geology, such as the central valley of California. The authors are developed a bacterial treatment system to mitigate selenium-contaminated wastestreams using Bacillus subtilis and Pseudomonas fluorescens, respectively, as model gram (+) and (-) soil bacteria. They have found that, during growth, both organisms reduce selenite, a major soluble toxic species, to red elemental selenium--an insoluble product generally regarded as nontoxic. In both cases, reduction depended on growth substrate and was effected by an inducible system that effectively removed selenite at concentrations typical of polluted sites--i.e., 50 to 300 microg/L. The bacteria studied differed in one respect: when grown in medium supplemented with nitrate or sulfate, the ability of P. fluorescens to remediate selenite was enhanced, whereas that of B. subtilis was unchanged. Current efforts are being directed toward understanding the biochemical mechanism(s) of detoxification and determining whether bacteria occurring in polluted environments such as soils and sludge systems are capable of selenite remediation

SUBSURFACE VISUAL ALARM SYSTEM ANALYSIS

International Nuclear Information System (INIS)

D.W. Markman

2001-01-01

The ''Subsurface Fire Hazard Analysis'' (CRWMS M andO 1998, page 61), and the document, ''Title III Evaluation Report for the Surface and Subsurface Communication System'', (CRWMS M andO 1999a, pages 21 and 23), both indicate the installed communication system is adequate to support Exploratory Studies Facility (ESF) activities with the exception of the mine phone system for emergency notification purposes. They recommend the installation of a visual alarm system to supplement the page/party phone system The purpose of this analysis is to identify data communication highway design approaches, and provide justification for the selected or recommended alternatives for the data communication of the subsurface visual alarm system. This analysis is being prepared to document a basis for the design selection of the data communication method. This analysis will briefly describe existing data or voice communication or monitoring systems within the ESF, and look at how these may be revised or adapted to support the needed data highway of the subsurface visual alarm. system. The existing PLC communication system installed in subsurface is providing data communication for alcove No.5 ventilation fans, south portal ventilation fans, bulkhead doors and generator monitoring system. It is given that the data communication of the subsurface visual alarm system will be a digital based system. It is also given that it is most feasible to take advantage of existing systems and equipment and not consider an entirely new data communication system design and installation. The scope and primary objectives of this analysis are to: (1) Briefly review and describe existing available data communication highways or systems within the ESF. (2) Examine technical characteristics of an existing system to disqualify a design alternative is paramount in minimizing the number of and depth of a system review. (3) Apply general engineering design practices or criteria such as relative cost, and degree

Turbidite Systems in Brazil: From Outcrops to Deep Waters

Science.gov (United States)

´Avila, R. S. F.; Arienti, L. M.; Vesely, F. F.; Santos, S. F.; Voelcker, H. E.

2012-04-01

Reliable depositional models depend on careful observation of rocks, to allow the correct description and interpretation of facies and facies associations and their formative processes. They are of paramount importance to characterize deep water depositional systems, which still are the most important siliciclastic reservoirs for the oil industry. Turbidite sandstone reservoirs are responsible for almost 80% of petroleum produced from Brazilian Basins. A comprehensive characterization of these systems, depicting the main differences in terms of their geometries and facies will be presented. In Brazilian basins most of the turbidites were originated from extremely catastrophic flows, essentially linked to fluvio-deltaic influx that generates very dense hyperpycnal flows. Based on outcrop and subsurface data, two main zones with characteristic geometries and facies associations are commonly identified in turbidite systems: the transference zone and the depositional zone. Erosion and bypass dominate in the transference zone, which frequently occur as submarine canyons and channels. Turbidite channels can contain residual conglomeratic facies and coarser sandstone facies. The depositional area comprises lobes that constitute a major exploratory target because of their greater lateral continuity and the concentration of clean reservoirs. Turbidite lobes can be tabular or lenticular deposits associated with channelized bodies. Taking into account outcrop and subsurface data we can distinguish five main turbidite systems: foredeep turbidite systems, prodelta turbidite systems, mixed turbidite systems, meandering channels turbidite systems and channel-levee turbidite systems. In the Brazilian margin, deep water turbidites and other gravity-flow deposits are commonly associated with bottom current deposits, largely in Tertiary strata. Such bottom current deposits, often called contourites, are also important petroleum reservoirs, commonly mistaken as turbidites. Integration

Geophysical measurements for subsurface mapping and groundwater exploration at the central part of the Sinai peninsula, Egypt

International Nuclear Information System (INIS)

Sultan, S.A.; Alla, M. Abd; Mekhemer, Hatem M.; Santos, F. A. M.

2009-01-01

Characterization of a deep aquifer is the main target of the research work presented here. The study area is located in the central part of Sinai, an extremely arid region in Egypt. Different geophysical methods, including resistivity, gravity, and magnetic, were applied in the study area for groundwater exploration. Fifteen vertical electrical soundings were measured with current electrode spacing ranging from AB = 10 m to AB= 6000 m, in order to detect the deep aquifer in the study area. The resistivity 1D models were used to construct a geoelectrical cross-section to define the subsurface stratigraphy units, including the water-bearing aquifer. The geoelectrical cross-sections showed that the upper part of the subsurface consists of four geoelectric units. The deep aquifer is lodged by the last unit constituted of Nubian sandstone (Lower Cretaceous deposits). The depth of the top of the Nubian sandstone ranges between 300 and 1000 m. The resistivity of the aquifer varies between 60 and 400 ohm-m, indicating the existence of good quality water. Gravity and ground magnetic (total magnetic field) measurements were made at one hundred and fifty stations. The combined interpretation of the magnetic and gravity data allowed the determination of the depth of the surface of the granitic basement and the depth of the Conrad surface. The results of the modeling indicate that the basement lies between 1500 and 3150 m depth and that the Conrad surface (interface between the granitic and basaltic layer) is ranging from 7130 to 8780 m. Structural elements (mostly normal faults) NW-SE, N-S and NE-SW oriented, have been detected. These structures are associated with vertical movements that might have controlled the sedimentation of the uppermost geological formations. (author)

A review on deep-sea fungi: Occurrence, diversity and adaptions

Digital Repository Service at National Institute of Oceanography (India)

Raghukumar, C.; Damare, S.R.; Singh, P.

soil. In contrast to land, however, most studies on deep-sea sediments have focused exclusively on bacteria and have demonstrated their intense metabolic activities therein (Turley and Dixon 2002). The fungi and their role in the deep-sea sediments... polymerization and form brown-coloured products, constituting humus (Tisdall and Oades 1982). The humic material combines with soil particles to form microaggregates. Fungal hyphae further act as binding agents to form macroaggregates by trapping fine particles...

Methanogenic degradation of petroleum hydrocarbons in subsurface environments remediation, heavy oil formation, and energy recovery.

Science.gov (United States)

Gray, N D; Sherry, A; Hubert, C; Dolfing, J; Head, I M

2010-01-01

Hydrocarbons are common constituents of surface, shallow, and deep-subsurface environments. Under anaerobic conditions, hydrocarbons can be degraded to methane by methanogenic microbial consortia. This degradation process is widespread in the geosphere. In comparison with other anaerobic processes, methanogenic hydrocarbon degradation is more sustainable over geological time scales because replenishment of an exogenous electron acceptor is not required. As a consequence, this process has been responsible for the formation of the world's vast deposits of heavy oil, which far exceed conventional oil assets such as those found in the Middle East. Methanogenic degradation is also a potentially important component of attenuation in hydrocarbon contamination plumes. Studies of the organisms, syntrophic partnerships, mechanisms, and geochemical signatures associated with methanogenic hydrocarbon degradation have identified common themes and diagnostic markers for this process in the subsurface. These studies have also identified the potential to engineer methanogenic processes to enhance the recovery of energy assets as biogenic methane from residual oils stranded in petroleum systems. Copyright 2010 Elsevier Inc. All rights reserved.

Studies of the subsurface effects of earthquakes

International Nuclear Information System (INIS)

Marine, I.W.

1980-01-01

As part of the National Terminal Waste Storage Program, the Savannah River Laboratory is conducting a series of studies on the subsurface effects of earthquakes. This report summarizes three subcontracted studies. (1) Earthquake damage to underground facilities: the purpose of this study was to document damage and nondamage caused by earthquakes to tunnels and shallow underground openings; to mines and other deep openings; and to wells, shafts, and other vertical facilities. (2) Earthquake related displacement fields near underground facilities: the study included an analysis of block motion, an analysis of the dependence of displacement on the orientation and distance of joints from the earthquake source, and displacement related to distance and depth near a causative fault as a result of various shapes, depths, and senses of movement on the causative fault. (3) Numerical simulation of earthquake effects on tunnels for generic nuclear waste repositories: the objective of this study was to use numerical modeling to determine under what conditions seismic waves might cause instability of an underground opening or create fracturing that would increase the permeability of the rock mass

Microbial community composition of deep-sea corals from the Red Sea provides insight into functional adaption to a unique environment.

Science.gov (United States)

Röthig, Till; Yum, Lauren K; Kremb, Stephan G; Roik, Anna; Voolstra, Christian R

2017-03-17

Microbes associated with deep-sea corals remain poorly studied. The lack of symbiotic algae suggests that associated microbes may play a fundamental role in maintaining a viable coral host via acquisition and recycling of nutrients. Here we employed 16 S rRNA gene sequencing to study bacterial communities of three deep-sea scleractinian corals from the Red Sea, Dendrophyllia sp., Eguchipsammia fistula, and Rhizotrochus typus. We found diverse, species-specific microbiomes, distinct from the surrounding seawater. Microbiomes were comprised of few abundant bacteria, which constituted the majority of sequences (up to 58% depending on the coral species). In addition, we found a high diversity of rare bacteria (taxa at 90% of all bacteria). Interestingly, we identified anaerobic bacteria, potentially providing metabolic functions at low oxygen conditions, as well as bacteria harboring the potential to degrade crude oil components. Considering the presence of oil and gas fields in the Red Sea, these bacteria may unlock this carbon source for the coral host. In conclusion, the prevailing environmental conditions of the deep Red Sea (>20 °C, <2 mg oxygen L -1 ) may require distinct functional adaptations, and our data suggest that bacterial communities may contribute to coral functioning in this challenging environment.

Microbial community composition of deep-sea corals from the Red Sea provides insight into functional adaption to a unique environment

KAUST Repository

Röthig, Till

2017-03-17

Microbes associated with deep-sea corals remain poorly studied. The lack of symbiotic algae suggests that associated microbes may play a fundamental role in maintaining a viable coral host via acquisition and recycling of nutrients. Here we employed 16 S rRNA gene sequencing to study bacterial communities of three deep-sea scleractinian corals from the Red Sea, Dendrophyllia sp., Eguchipsammia fistula, and Rhizotrochus typus. We found diverse, species-specific microbiomes, distinct from the surrounding seawater. Microbiomes were comprised of few abundant bacteria, which constituted the majority of sequences (up to 58% depending on the coral species). In addition, we found a high diversity of rare bacteria (taxa at <1% abundance comprised >90% of all bacteria). Interestingly, we identified anaerobic bacteria, potentially providing metabolic functions at low oxygen conditions, as well as bacteria harboring the potential to degrade crude oil components. Considering the presence of oil and gas fields in the Red Sea, these bacteria may unlock this carbon source for the coral host. In conclusion, the prevailing environmental conditions of the deep Red Sea (>20 °C, <2 mg oxygen L−1) may require distinct functional adaptations, and our data suggest that bacterial communities may contribute to coral functioning in this challenging environment.

Adhesion of biodegradative anaerobic bacteria to solid surfaces

Energy Technology Data Exchange (ETDEWEB)

Schie, P.M. van; Fletcher, M.

1999-11-01

In order to exploit the ability of anaerobic bacteria to degrade certain contaminants for bioremediation of polluted subsurface environments, the authors need to understand the mechanisms by which such bacteria partition between aqueous and solid phases, as well as the environmental conditions that influence partitioning. They studied four strictly anaerobic bacteria, Desulfomonile tiedjei, Syntrophomonas wolfei, Syntrophobacter wolinii, and Desulfovibrio sp. strain G11, which theoretically together can constitute a tetrachloroethylene- and trichloroethylene-dechlorinating consortium. Adhesion of these organisms was evaluated by microscopic determination of the numbers of cells that attached to glass coverslips exposed to cell suspensions under anaerobic conditions. The authors studied the effects of the growth phase of the organisms on adhesion, as well as the influence of electrostatic and hydrophobic properties of the substratum. Results indicate that S. wolfei adheres in considerably higher numbers to glass surfaces than the other three organisms. Starvation greatly decreases adhesion of S. wolfei and Desulfovibrio sp. strain G11 but seems to have less of an effect on the adhesion of the other bacteria. The presence of Fe{sup 3+} on the substratum, which would be electropositive, significantly increased the adhesion of S. wolfei, whereas the presence of silicon hydrophobic groups decreased the numbers of attached cells of all species. Measurements of transport of cells through hydrophobic-interaction and electro-static-interaction columns indicated that all four species had negatively charged cell surfaces and that D. tiedjei and Desulfovibrio sp. strain G11 possessed some hydrophobic cell surface properties. These findings are an early step toward understanding the dynamic attachment of anaerobic bacteria in anoxic environments.

Integrating experimental and numerical methods for a scenario-based quantitative assessment of subsurface energy storage options

Science.gov (United States)

Kabuth, Alina; Dahmke, Andreas; Hagrey, Said Attia al; Berta, Márton; Dörr, Cordula; Koproch, Nicolas; Köber, Ralf; Köhn, Daniel; Nolde, Michael; Tilmann Pfeiffer, Wolf; Popp, Steffi; Schwanebeck, Malte; Bauer, Sebastian

2016-04-01

second example, the option of seasonal hydrogen storage in a deep saline aquifer is considered. The induced thermal and hydraulic multiphase flow processes were simulated. Also, an integrative approach towards geophysical monitoring of gas presence was evaluated by synthetically applying these monitoring methods to the synthetic, however realistically defined numerical storage scenarios. Laboratory experiments provided parameterisations of geochemical effects caused by storage gas leakage into shallow aquifers in cases of sealing failure. Ultimately, the analysis of realistically defined scenarios of subsurface energy storage within the ANGUS+ project allows a quantification of the subsurface space claimed by a storage operation and its induced effects. Acknowledgments: This work is part of the ANGUS+ project (www.angusplus.de) and funded by the German Federal Ministry of Education and Research (BMBF) as part of the energy storage initiative "Energiespeicher".

Piezophilic Bacteria Isolated from Sediment of the Shimokita Coalbed, Japan

Science.gov (United States)

Fang, J.; Kato, C.; Hori, T.; Morono, Y.; Inagaki, F.

2013-12-01

The Earth is a cold planet as well as pressured planet, hosting both the surface biosphere and the deep biosphere. Pressure ranges over four-orders of magnitude in the surface biosphere and probably more in the deep biosphere. Pressure is an important thermodynamic property of the deep biosphere that affects microbial physiology and biochemistry. Bacteria that require high-pressure conditions for optimal growth are called piezophilic bacteria. Subseafloor marine sediments are one of the most extensive microbial habitats on Earth. Marine sediments cover more than two-thirds of the Earth's surface, and represent a major part of the deep biosphere. Owing to its vast size and intimate connection with the surface biosphere, particularly the oceans, the deep biosphere has enormous potential for influencing global-scale biogeochemical processes, including energy, climate, carbon and nutrient cycles. Therefore, studying piezophilic bacteria of the deep biosphere has important implications in increasing our understanding of global biogeochemical cycles, the interactions between the biosphere and the geosphere, and the evolution of life. Sediment samples were obtained during IODP Expedition 337, from 1498 meters below sea floor (mbsf) (Sample 6R-3), 1951~1999 mbsf (19R-1~25R-3; coalbed mix), and 2406 mbsf (29R-7). The samples were mixed with MB2216 growth medium and cultivated under anaerobic conditions at 35 MPa (megapascal) pressure. Growth temperatures were adjusted to in situ environmental conditions, 35°C for 6R-3, 45°C for 19R-1~25R-3, and 55°C for 29R-7. The cultivation was performed three times, for 30 days each time. Microbial cells were obtained and the total DNA was extracted. At the same time, isolation of microbes was also performed under anaerobic conditions. Microbial communities in the coalbed sediment were analyzed by cloning, sequencing, and terminal restriction fragment length polymorphism (t-RFLP) of 16S ribosomal RNA genes. From the partial 16S r

Detection of Organic Matter in Greenland Ice Cores by Deep-UV Fluorescence

Science.gov (United States)

Willis, M.; Malaska, M.; Wanger, G.; Bhartia, R.; Eshelman, E.; Abbey, W.; Priscu, J. C.

2017-12-01

The Greenland Ice Sheet is an Earthly analog for icy ocean worlds in the outer Solar System. Future missions to such worlds including Europa, Enceladus, and Titan may potentially include spectroscopic instrumentation to examine the surface/subsurface. The primary goal of our research is to test deep UV/Raman systems for in the situ detection and localization of organics in ice. As part of this effort we used a deep-UV fluorescence instrument able to detect naturally fluorescent biological materials such as aromatic molecules found in proteins and whole cells. We correlated these data with more traditional downstream analyses of organic material in natural ices. Supraglacial ice cores (2-4 m) were collected from several sites on the southwest outlet of the Greenland Ice Sheet using a 14-cm fluid-free mechanical coring system. Repeat spectral mapping data were initially collected longitudinally on uncut core sections. Cores were then cut into 2 cm thick sections along the longitudinal axis, slowly melted and analyzed for total organic carbon (TOC), total dissolved nitrogen (TDN), and bacterial density. These data reveal a spatial correlation between organic matter concentration, cell density, and the deep UV fluorescence maps. Our results provide a profile of the organics embedded within the ice from the top surface into the glacial subsurface, and the TOC:TDN data from the clean interior of the cores are indicative of a biological origin. This work provides a background dataset for future work to characterize organic carbon in the Greenland Ice Sheet and validation of novel instrumentation for in situ data collection on icy bodies.

Fossilized intact polar lipids of photosynthetic organisms in ancient subsurface sediments

Science.gov (United States)

Bauersachs, T.; Schouten, S.; Hopmans, E. C.; Sinninghe Damsté, J. S.

2009-12-01

In recent years, the idea of a rich microbial biosphere in the marine sea floor has been widely accepted. This so-called “deep biosphere” is estimated to contain ca. 50 % of Earth’s total prokaryotic biomass with the overall order of magnitude of microbial cells in the sea floor being the same as the biomass of all surface plant life (Whitman et al. 1998). Evidence for the existence of a deep biosphere comes, among others, from the analysis of intact polar lipids (IPLs). This approach presumes that IPLs almost instantaneously lose their polar head group after cell death and thus do not preserve on geological timescales. Consequently, IPLs in the subsurface should derive from in situ production and hence indicate the presence of living prokaryotic cells. For example, in various oceanic subsurface sediments archaeal IPLs have been found, suggesting that Archaea constitute a major fraction of the deep biosphere biomass (Lipp et al. 2008). In this study, we found IPLs of heterocystous cyanobacteria in a number of ancient and deeply buried sediments. Heterocystous cyanobacteria are strictly photoautotrophic organisms that are a common constituent of the phytoplankton community in many freshwater and brackish environments but are also encountered in the marine realm as endosymbionts of diatom species. Under nitrogen-depleted conditions, these organisms carry out nitrogen fixation in specialized cells, known as heterocysts. These cells contain a suite of heterocyst glycolipids (HGs) that have not been identified in any other organism and are thus unique biological markers for nitrogen-fixing heterocystous cyanobacteria. Using high performance liquid chromatography coupled to electrospray ionisation tandem mass spectrometry (HPLC/ESI-MS/MS), we detected HGs in Pleistocene and Pliocene Mediterranean sapropels buried up to 60 m below the seafloor. In addition, these HGs were also found in lacustrine deposits of the Oligocene Lake Enspel (35 Ma), the Eocene Lake Messel

Horizontal Transfer of Tetracycline Resistance Genes in the Subsurface of a Poultry Farm

Science.gov (United States)

You, Y.; Ward, M.; Hilpert, M.

2008-12-01

Concentrated animal feeding operations (CAFOs) are considered to be important man-made reservoirs of antibiotic resistant bacteria and antibiotic resistance genes. At a poultry farm, we, together with Mr.~James Doolittle from USDA, measured the apparent subsurface electrical conductivity (ECa) using a EM38 meter. The resulting ECaR) associated with the poultry farm due to the fact that tetracycline (Tc) is one of the most frequently used antibiotics in food animal production and therefore is probably used at this farm. Soil and aquifer samples were taken from the farm. TcR bacteria were detected, with higher concentrations in the top layer of soil than in the aquifer. TcR bacteria were then enriched from a soil sample, and two classes of TcR genes were detected: tet(M) genes encoding ribosomal protection proteins and tet(L) genes encoding tet efflux pumps. Sequences of the PCR products were compared to known tet(M) and tet(L) genes in GenBank using BLASTN. Phylogenetic trees were also built based on the sequence information. The tet(M) genes found in our soil sample were highly similar to those located on transposons. In a soil microcosm experiment, we used the aforementioned soil sample as incubation medium as well as genetic donor (TcR soil bacteria), and a green fluorescent strain of E. coli as a model genetic recipient to study horizontal transfer of TcR genes from soil bacteria to naïve bacteria. Concentrations of inoculated E. coli were continuously monitored for 15 days, TcR E. coli isolated, and colony PCR performed. The tet(M) genes were found to be transferred to naïve E. coli. The highest horizontal transfer ratio, 0.62 transconjugant per recipient, was observed when Tc was supplemented to a soil microcosm at a concentration of 140 μg/kg soil. Modeling is also ongoing to obtain a better understanding of this complex phenomenon.

Subsurface material identification and sensor selection

Science.gov (United States)

T, H.; Reghunadh, R.; Ramesh, M. V.

2017-12-01

In India, most of the landslides occur during monsoon season and causes huge loss of life and property. Design of an early warning system for highly landslide prone area will reduce losses to a great extent. The in-situ monitoring systems needs deployment of several sensors inside a borehole for monitoring a particular slope. Amrita Center for Wireless Networks and Applications (AmritaWNA), Amrita University has designed, developed and deployed a Wireless Sensor Network (WSN) for real time landslide monitoring using geotechnical instruments and sensors like rain gauge, moisture sensor, piezometer, strain gauge, tilt meter and geophone inside a Deep Earth Probe (DEP) at different locations. These sensors provide point measurements of the subsurface at a higher accuracy. Every landslide prone terrain is unique with respect to its geology, hydrological conditions, meteorological conditions, velocity of movement etc. The decision of installing different geotechnical instruments in a landslide prone terrain is a crucial step to be considered. Rain gauge, moisture sensor, and piezometer are usually used in clay rich areas to sense the moisture and pore pressure values. Geophone and Crack meter are instruments used in rocky areas to monitor cracks and vibrations associated with a movement. Inclinometer and Strain gauge are usually placed inside a casing and can be used in both rocky and soil areas. In order to place geotechnical instruments and sensors at appropriate places Electrical Resistivity Tomography (ERT) method can be used. Variation in electrical resistivity values indicate the changes in composition, layer thickness, or contaminant levels. The derived true resistivity image can be used for identifying the type of materials present in the subsurface at different depths. We have used this method for identifying the type of materials present in our site at Chandmari (Sikkim). Fig 1 shows the typical resistivity values of a particular area in Chandmari site. The

Connectivity to the surface determines diversity patterns in subsurface aquifers of the Fennoscandian shield.

Science.gov (United States)

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.

Chemical and microbiological water quality of subsurface agricultural drains during a field trial of liquid dairy manure effluent application rate and varying tillage practices, Upper Tiffin Watershed, southeastern Michigan

Science.gov (United States)

Haack, Sheridan Kidd; Duris, Joseph W.

2008-01-01

A field trial was done in the Upper Tiffin River Watershed, in southeastern Michigan, to determine the influence of liquid dairy manure effluent (LDME) management practices on the quality of agricultural subsurface-drain water. Samples from subsurface drains were analyzed for nutrients, fecal-coliform and Escherichia coli (E. coli) bacteria, antibiotics, chemicals typically detected in wastewater, and the occurrence of genes indicating the presence of shiga-toxin-producing E. coli, or of bovine-specific Bacteroidetes bacteria. Samples were collected from November 2, 2006, to March 20, 2007, from eight subsurface drains under field plots that received no LDME and no tillage (controls) or received 4,000 or 8,000 gallons per acre (gal/acre) of LDME and either no tillage or two different types of tillage. The two types of tillage tested were (1) ground-driven, rotary, subsurface cultivation and (2) rolling-tine aeration. Samples were collected before LDME application and at 4 hours, and 1, 2, 6, 7, and 14 days post-application. Nutrient concentrations were high in subsurface-drain water throughout the field-trial period and could not be attributed to the field-trial LDME application. Of the 59 drain-water samples, including those collected before LDME application and control samples for each date, 56 had concentrations greater than the U.S. Environmental Protection Agency (USEPA), Ecoregion VI recommended surface-water criterion for total phosphorus, and all samples had concentrations greater than the recommended total nitrogen criterion. Nitrate + nitrite nitrogen concentration exceeded 20 milligrams per liter for every sample and contributed most to the total nitrogen concentrations. Substantial increases in drain-water concentrations of organic and ammonia nitrogen and total phosphorus were found for all treatments, including controls, at 14 days post-application after 0.84 inch of rainfall over 2 days. E. coli concentrations exceeded the USEPA recreational

Non-extremophilic 'extremophiles' - Archaeal dominance in the subsurface and their implication for life

Science.gov (United States)

Reitschuler, Christoph; Lins, Philipp; Illmer, Paul

2014-05-01

Archaea - besides bacteria and eukaryota constituting the third big domain of life - were so far regarded as typical inhabitants of extreme environments, as indicated by the name (Archaeon, Greek: 'original', 'primal'). Previous research and cultivation successes were basically carried out in habitats characterized by extreme temperature, pH and salinity regimes. Such extreme conditions, as expected at the beginning of the Earth's evolution, are occasionally also prevalent on extraterrestrial planets and moons and make the Archaeal domain a key group to be studied concerning life's evolution and the most likely pioneer organisms to colonize environments that are regarded as hostile. However, in recent years it became obvious that Archaea, in particular non-extremophilic species, can be found almost ubiquitously in marine, freshwater, terrestrial and also subsurface habitats and occasionally outnumber other microbial domains and hold key positions in globally relevant energy and nutrient cycles. Besides extreme environments - the big question remains how to define a parameter as extreme - subsurface and cave environments present a window to the past, where adaptions to early life's conditions can be studied and how microbiomes may be structured in a habitat that represents a refugium on extraterrestrial celestial bodies, were surface conditions might be at first sight too extreme for life. The lower part of the alpine Hundsalm cave in Tyrol (Austria) offered a unique opportunity to study an almost pristine cave habitat, which is separated from the touristic part of the ice cave. The main focus of our research was laid on the microbial communities that were supposed to be in connection with secondary carbonate precipitations ('moonmilk'). For the ascertainment of these so far poorly evaluated structures a multiple approach assessment was chosen to generate a virtually complete picture of these subsurface microbiomes. Thereby, a combination of different cultivation

Lessons from Suiyo Seamount studies, for understanding extreme (ancient?) microbial ecosystems in the deep-sea hydrothermal fields

Science.gov (United States)

Maruyama, A.; Higashi, Y.; Sunamura, M.; Urabe, T.

2004-12-01

Deep-sea hydrothermal ecosystems are driven with various geo-thermally modified, mainly reduced, compounds delivered from extremely hot subsurface environments. To date, several unique microbes including thermophilic archaeons have been isolated from/around vent chimneys. However, there is little information about microbes in over-vent and sub-vent fields. Here, we report several new findings on microbial diversity and ecology of the Suiyo Seamount that locates on the Izu-Bonin Arc in the northwest Pacific Ocean, as a result of the Japanese Archaean Park project, with special concern to the sub-vent biosphere. At first, we succeeded to reveal a very unique microbial ecosystem in hydrothermal plume reserved within the outer rim of the seamount crater, that is, it consisted of almost all metabolically active microbes belonged to only two Bacteria phylotypes, probably of sulfur oxidizers. In the center of the caldera seafloor (ca. 1,388-m deep) consisted mainly of whitish sands and pumices, we found many small chimneys (ca. 5-10 cm) and bivalve colonies distributed looking like gray to black patches. These geo/ecological features of the seafloor were supposed to be from a complex mixing of hydrothermal venting and strong water current near the seafloor. Through quantitative FISH analysis for various environmental samples, one of the two representative groups in the plume was assessed to be from some of the bivalve colonies. Using the Benthic Multi-coring System (BMS), total 10 points were drilled and 6 boreholes were maintained with stainless or titanium casing pipes. In the following submersible surveys, newly developed catheter- and column-type in situ growth chambers were deployed in and on the boreholes, respectively, for collecting indigenous sub-vent microbes. Finally, we succeeded to detect several new phylotypes of microbes in these chamber samples, e.g., within epsilon-Proteobacteria, a photosynthetic group of alpha-Proteobacteria, and hyperthermophile

Lower-Temperature Subsurface Layout and Ventilation Concepts

International Nuclear Information System (INIS)

Christine L. Linden; Edward G. Thomas

2001-01-01

This analysis combines work scope identified as subsurface facility (SSF) low temperature (LT) Facilities System and SSF LT Ventilation System in the Technical Work Plan for Subsurface Design Section FY 01 Work Activities (CRWMS M and O 2001b, pp. 6 and 7, and pp. 13 and 14). In accordance with this technical work plan (TWP), this analysis is performed using AP-3.10Q, Analyses and Models. It also incorporates the procedure AP-SI.1Q, Software Management. The purpose of this analysis is to develop an overall subsurface layout system and the overall ventilation system concepts that address a lower-temperature operating mode for the Monitored Geologic Repository (MGR). The objective of this analysis is to provide a technical design product that supports the lower-temperature operating mode concept for the revision of the system description documents and to provide a basis for the system description document design descriptions. The overall subsurface layout analysis develops and describes the overall subsurface layout, including performance confirmation facilities (also referred to as Test and Evaluation Facilities) for the Site Recommendation design. This analysis also incorporates current program directives for thermal management

Development of hydrogen oxidizing bacteria using hydrogen from radiolysis or metal corrosion

International Nuclear Information System (INIS)

Libert, M.F.; Sellier, R.; Marty, V.; Camaro, S.

2000-01-01

The effect of many parameters need to be studied to characterize the long term behavior of nuclear waste in a deep repository. These parameters concern the chemical effects, radiolytic effects, mechanical properties, water composition, and microbiological activity. To evaluate microbial activity in such an environment, work was focused on an inventory of key nutrients (C, H, 0, N, P, S) and energy sources required for bacterial growth. The production of hydrogen in the nuclear waste environment leads to the growth of hydrogen oxidizing bacteria, which modify the gas production balance. A deep repository containing bituminized waste drums implies several sources of hydrogen: - water radiolysis; -corrosion of metal containers; - radiolysis of the embedding matrix (bitumen). Two deep geological disposal conditions leading to H 2 production in a bituminized nuclear waste environment were simulated in the present study: - H 2 production by iron corrosion under anaerobic conditions was simulated by adding 10% of H 2 in the atmosphere; - H 2 production by radiolysis of bitumen matrix was approached by subjecting this material to external gamma irradiation with a dose rate near real conditions (6 Gy/h). The presence of dissolved H 2 in water allows the growth of hydrogen oxidizing bacteria leading to: - CO 2 and N 2 production; - H 2 consumption; - lower NO 3 - concentration caused by reduction to nitrogen. In the first case, hydrogen consumption is limited by the NO 3 - release rate from the bitumen matrix. In the second case, however, under gamma radiation at a low dose rate, hydrogen production is weak, and the hydrogen is completely consumed by microorganisms. Knowledge about these hydrogen oxidizing bacteria is just beginning to emerge. Heterotrophic denitrifying bacteria adapt well to hydrogen metabolism (autotrophic metabolism) by oxidizing H 2 instead of hydrocarbons. (authors)

Subsurface contaminants focus area

International Nuclear Information System (INIS)

1996-08-01

The US Department of Enregy (DOE) Subsurface Contaminants Focus Area is developing technologies to address environmental problems associated with hazardous and radioactive contaminants in soil and groundwater that exist throughout the DOE complex, including radionuclides, heavy metals; and dense non-aqueous phase liquids (DNAPLs). More than 5,700 known DOE groundwater plumes have contaminated over 600 billion gallons of water and 200 million cubic meters of soil. Migration of these plumes threatens local and regional water sources, and in some cases has already adversely impacted off-site rsources. In addition, the Subsurface Contaminants Focus Area is responsible for supplying technologies for the remediation of numerous landfills at DOE facilities. These landfills are estimated to contain over 3 million cubic meters of radioactive and hazardous buried Technology developed within this specialty area will provide efective methods to contain contaminant plumes and new or alternative technologies for development of in situ technologies to minimize waste disposal costs and potential worker exposure by treating plumes in place. While addressing contaminant plumes emanating from DOE landfills, the Subsurface Contaminants Focus Area is also working to develop new or alternative technologies for the in situ stabilization, and nonintrusive characterization of these disposal sites

Subsurface contaminants focus area

Energy Technology Data Exchange (ETDEWEB)

NONE

1996-08-01

The US Department of Enregy (DOE) Subsurface Contaminants Focus Area is developing technologies to address environmental problems associated with hazardous and radioactive contaminants in soil and groundwater that exist throughout the DOE complex, including radionuclides, heavy metals; and dense non-aqueous phase liquids (DNAPLs). More than 5,700 known DOE groundwater plumes have contaminated over 600 billion gallons of water and 200 million cubic meters of soil. Migration of these plumes threatens local and regional water sources, and in some cases has already adversely impacted off-site rsources. In addition, the Subsurface Contaminants Focus Area is responsible for supplying technologies for the remediation of numerous landfills at DOE facilities. These landfills are estimated to contain over 3 million cubic meters of radioactive and hazardous buried Technology developed within this specialty area will provide efective methods to contain contaminant plumes and new or alternative technologies for development of in situ technologies to minimize waste disposal costs and potential worker exposure by treating plumes in place. While addressing contaminant plumes emanating from DOE landfills, the Subsurface Contaminants Focus Area is also working to develop new or alternative technologies for the in situ stabilization, and nonintrusive characterization of these disposal sites.

Mixing processes at the subsurface layer in the Amundsen Sea shelf region

Science.gov (United States)

Mojica, J.; Djoumna, G.; Francis, D. K.; Holland, D.

2017-12-01

In the Amundsen Sea shelf region, mixing processes promote an upward transport of diapycnal fluxes of heat and salt from the subsurface to the surface mixing layer. Here we estimate the diapycnal mixing rates on the Amundsen shelf from a multi-year mooring cluster and five research cruises. By applying fine-scale parameterizations, the mixing rates obtained were higher near the southern end of Pine Island glacier front and exceeded 10-2 m2s-1. The eddy diffusivity increased near the critical latitude (74o 28' S) for semi-diurnal M2 tides, which coincided with near-critical topography on the shelf. This condition favored the generation of internal waves of M2 frequency. The semi-diurnal dynamic enhanced the mixing that potentially affected the heat budget and the circulation of the modified Circumpolar Deep Water. This can be observed in the characteristics of water exchange both below the ice shelves and between the continental shelf and the ice shelf cavities. The location of the critical latitude and critical topography provided favorable conditions for the generation of internal waves. KEYWORDS: Mixing processes, diapycnal fluxes, critical latitude, Circumpolar Deep Water.

Viral abundance and activity in the deep sub-seafloor biosphere

DEFF Research Database (Denmark)

Middelboe, Mathias; Glud, Ronnie N.; Filippini, Manuela

2011-01-01

of undiluted, but homogenized, sediment samples (13.3 and 79.8 mbsf) in anaerobic bags. Viral abundance decreased rapidly (decay rates of 0.010 +/- 0.002 [SD] and 0.022 +/- 0.018 [SD] h(-1), respectively) in the incubations, suggesting that homogenization exposed the viruses to degradation processes. We...... hypothesize that most of the deep subsurface viral communities inhabit a microenvironment where the viruses are protected against decay, and can therefore persist in undisturbed sediments for hundreds of thousands, perhaps even millions, of years....

Subsurface probing

International Nuclear Information System (INIS)

Lytle, R.J.

1978-01-01

Imaging techniques that can be used to translate seismic and electromagnetic wave signals into visual representation are briefly discussed. The application of these techniques is illustrated on the example of determining the subsurface structure of a proposed power plant. Imaging makes the wave signals intelligible to the non-geologists. R and D work needed in this area are tabulated

An Assessment of Subsurface Intake Systems: Planning and Impact on Feed Water Quality for SWRO Facilities

KAUST Repository

Dehwah, Abdullah

2017-12-01

Subsurface intake systems are known to improve the feed water quality for SWRO plants. However, a little is known about the feasibility of implementation in coastal settings, the degree of water quality improvements provided by these systems, and the internal mechanisms of potential fouling compounds removal within subsurface intake systems. A new method was developed to assess the feasibility of using different subsurface intake systems in coastal areas and was applied to Red Sea coastline of Saudi Arabia. The methodology demonstrated that five specific coastal environments could support well intake systems use for small-capacity SWRO plants, whereas large-capacity SWRO facilities could use seabed gallery intake systems. It was also found that seabed intake system could run with no operational constraints based on the high evaporation rates and associated diurnal salinity changes along the coast line. Performance of well intake systems in several SWRO facilities along the Red Sea coast showed that the concentrations of organic compounds were reduced in the feed water, similar or better than traditional pretreatment methodologies. Nearly all algae, up to 99% of bacteria, between 84 and 100% of the biopolymer fraction of NOM, and a high percentage of TEP were removed during transport through the aquifer. These organics cause membrane biofouling and using well intakes showed a 50-75% lower need to clean the SWRO membranes compared to conventional open-ocean intakes. An assessment of the effectiveness of seabed gallery intake systems was conducted through a long-term bench-scale column experiment. The simulation of the active layer (upper 1 m) showed that it is highly effective at producing feed water quality improvements and acts totally different compared to slow sand filtration systems treating freshwater. No development of a “schmutzdecke” layer occurred and treatment was not limited to the top 10 cm, but throughout the full column thickness. Algae and

An Estimation Of The Geoelectric Features Of Planetary Shallow Subsurfaces With TAPIR Antennae

Science.gov (United States)

Le Gall, A.; Reineix, A.; Ciarletti, V.; Jean-Jacques, B.; Ney, R.; Dolon, F.; Corbel, C.

2005-12-01

Exploring the interior of Mars and searching for water reservoirs, either in the form of ice or of liquid water, was one of the main scientific objectives of the NETLANDER project. In that frame, the CETP (Centre d'Etude des Environnements Terrestre et Planetaires) has developed an imaging ground penetrating radar (GPR), called TAPIR (Terrestrial And Planetary Investigation by Radar). Operating from a fixed position and at low frequencies (from 2 to 4MHz), this instrument allows to retrieve not only the distance but also the inclination of deep subsurface reflectors by measuring the two horizontal electrical components and the three magnetic components of the reflected waves. In 2004, ground tests have been successfully carried out on the Antarctic Continent; the bedrock, lying under a thick layer of ice (until 1200m), was detected and part of its relief was revealed. Yet, knowing the electric parameters of the close subsurface is required to correctly process the measured electric and magnetic components of the echoes and deduce their propagation vector. In addition, these electric parameters can bring a very interesting piece of information on the nature of the material in the shallow underground. We have therefore looked for a possible method (appropriate for a planetary mission) to evaluate them using a special mode of operation of the radar. This method relies on the fact that the electrical characteristics of the transmitting electric antennas (current along the antenna, driving-point impedance.) depend on the nature of the ground on which the radar is lying. If this dependency is significant enough, geological parameters of the subsurface can be deduced from the analysis of specific measurements. We have thus performed a detailed experimental and theoretical study of the TAPIR resistively loaded electrical dipoles to get a precise understanding of the radar transmission and assess the role of the electric parameters of the underground. In this poster, we

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

Science.gov (United States)

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

MSTS - Multiphase Subsurface Transport Simulator theory manual

International Nuclear Information System (INIS)

White, M.D.; Nichols, W.E.

1993-05-01

The US Department of Energy, through the Yucca Mountain Site Characterization Project Office, has designated the Yucca Mountain site in Nevada for detailed study as the candidate US geologic repository for spent nuclear fuel and high-level radioactive waste. Site characterization will determine the suitability of the Yucca Mountain site for the potential waste repository. If the site is determined suitable, subsequent studies and characterization will be conducted to obtain authorization from the Nuclear Regulatory Commission to construct the potential waste repository. A principal component of the characterization and licensing processes involves numerically predicting the thermal and hydrologic response of the subsurface environment of the Yucca Mountain site to the potential repository over a 10,000-year period. The thermal and hydrologic response of the subsurface environment to the repository is anticipated to include complex processes of countercurrent vapor and liquid migration, multiple-phase heat transfer, multiple-phase transport, and geochemical reactions. Numerical simulators based on mathematical descriptions of these subsurface phenomena are required to make numerical predictions of the thermal and hydrologic response of the Yucca Mountain subsurface environment The engineering simulator called the Multiphase Subsurface Transport Simulator (MSTS) was developed at the request of the Yucca Mountain Site Characterization Project Office to produce numerical predictions of subsurface flow and transport phenomena at the potential Yucca Mountain site. This document delineates the design architecture and describes the specific computational algorithms that compose MSTS. Details for using MSTS and sample problems are given in the open-quotes User's Guide and Referenceclose quotes companion document

Subsurface Investigations Program at the Radioactive Waste Management Complex of the Idaho National Engineering Laboratory: Annual progress report, FY-1987

International Nuclear Information System (INIS)

Laney, P.T.; Minkin, S.C.; Baca, R.G.; McElroy, D.L.; Hubbell, J.M.; Hull, L.C.; Russell, B.F.; Stormberg, G.J.; Pittman, J.T.

1988-04-01

The Subsurface Investigations Program is obtaining program objectives of a field calibration of a model to predict long-term radionuclide migration and measurement of the actual migration to date. Three deep boreholes were drilled at the Radioactive Waste Management Complex (RWMC) to collect sample material for evaluation of radionuclide content in the interbeds, to determine geologic and hydrologic characteristics of the sediments, and to provide monitoring sites for moisture movement in these sediments. Suction lysimeters and heat dissipation sensors were installed in two deep boreholes to collect moisture data. Data from the moisture sensing instruments installed at the RWMC continued to be collected during FY-1987. Because of the large volume of collected data, the RWMC Data Management System was developed and implemented to facilitate the storage, retrieval, and manipulation of the database. Work on the Computer Model Development task focused on a detailed review of previous vadose zone modeling studies at INEL, acquisition and installation of a suite of computer models for unsaturated flow and contaminant transport, and preliminary applications of computer models using site-specific data. Computer models installed on the INEL CRAY computer for modeling transport through the subsurface pathway include SEMTRA, FEMTRA, TRACR3D, MAGNUM, and CHAINT. In addition to the major computer models, eight other codes, referred to as support codes and models, have been acquired and implemented. 27 refs., 70 figs., 22 tabs

Subsurface Fire Hazards Technical Report

International Nuclear Information System (INIS)

Logan, R.C.

1999-01-01

The results from this report are preliminary and cannot be used as input into documents supporting procurement, fabrication, or construction. This technical report identifies fire hazards and proposes their mitigation for the subsurface repository fire protection system. The proposed mitigation establishes the minimum level of fire protection to meet NRC regulations, DOE fire protection orders, that ensure fire containment, adequate life safety provisions, and minimize property loss. Equipment requiring automatic fire suppression systems is identified. The subsurface fire hazards that are identified can be adequately mitigated

Characterisation of DOC and its relation to the deep terrestrial biosphere

Science.gov (United States)

Vieth, Andrea; Vetter, Alexandra; Sachse, Anke; Horsfield, Brian

2010-05-01

The deep subsurface is populated by a large number of microorganisms playing a pivotal role in the carbon cycling. The question arises as to the origin of the potential carbon sources that support deep microbial communities and their possible interactions within the deep subsurface. As the carbon sources need to be dissolved in formation fluids to become available to microorganisms, the dissolved organic carbon (DOC) needs further characterisation as regards concentration, structural as well as molecular composition and origin. The Malm carbonates in the Molasse basin of southern Germany are of large economic potential as they are targets for both hydrocarbon and geothermal exploration (ANDREWS et al., 1987). Five locations that differ in their depth of the Malm aquifer between 220 m and 3445 m below surface have been selected for fluid sampling. The concentration and the isotopic composition of the DOC have been determined. To get a better insight into the structural composition of the DOC, we also applied size exclusion chromatography and quantified the amount of low molecular weight organic acids (LMWOA) by ion chromatography. With increasing depth of the aquifer the formation fluids show increasing salinity as chloride concentrations increase from 2 to 300 mg/l and also the composition of the DOC changes. Water samples from greater depth (>3000 m) showed that the DOC mainly consists of LMWOA (max. 83 %) and low percentages of neutral compounds (alcohols, aldehyde, ketones, amino acids) as well as "building blocks". Building blocks have been described to be the oxidation intermediates from humic substances to LMWOA. With decreasing depth of the aquifer, the DOC of the fluid becomes increasingly dominated by neutral compounds and the percentage of building blocks increases to around 27%. The fluid sample from 220 m depth still contains a small amount of humic substances. The DOC of formation fluids in some terrestrial sediments may originate from organic

Feasibility of a subsurface storage

International Nuclear Information System (INIS)

1998-11-01

This report analyses the notion of subsurface storage under the scientifical, technical and legal aspects. This reflection belongs to the studies about long duration storage carried out in the framework of the axis 3 of the December 30, 1991 law. The report comprises 3 parts. The first part is a synthesis of the complete subsurface storage study: definitions, aim of the report, very long duration storage paradigm, description files of concepts, thematic synthesis (legal aspects, safety, monitoring, sites, seismicity, heat transfers, corrosion, concretes, R and works, handling, tailings and dismantlement, economy..), multi-criteria/multi-concept cross-analysis. The second part deals with the technical aspects of the subsurface storage: safety approach (long duration impact, radiation protection, mastery of effluents), monitoring strategy, macroscopic inventory of B-type waste packages, inventory of spent fuels, glasses, hulls and nozzles, geological contexts in the French territory (sites selection and characterization), on-site activities, hydrogeological and geochemical aspects, geo-technical works and infrastructures organization, subsurface seismic effects, cooling modes (ventilation, heat transfer with the geologic environment), heat transfer research programs (convection, poly-phase cooling in porous media), handling constraints, concretes (use, behaviour, durability), corrosion of metallic materials, technical-economical analysis, international context (experience feedback from Sweden (CLAB) and the USA (Yucca Mountain), other European and French facilities). The last part of the report is a graphical appendix with 3-D views and schemes of the different concepts. (J.S.)

Subsurface quality assurance practices

International Nuclear Information System (INIS)

1987-08-01

This report addresses only the concept of applying Nuclear Quality Assurance (NQA) practices to repository shaft and subsurface design and construction; how NQA will be applied; and the level of detail required in the documentation for construction of a shaft and subsurface repository in contrast to the level of detail required in the documentation for construction of a traditional mine. This study determined that NQA practices are viable, attainable, as well as required. The study identified the appropriate NQA criteria and the repository's major structures, systems, items, and activities to which the criteria are applicable. A QA plan, for design and construction, and a list of documentation, for construction, are presented. 7 refs., 1 fig., 18 tabs

Characterization of accumulated precipitates during subsurface iron removal

International Nuclear Information System (INIS)

Halem, Doris van; Vet, Weren de; Verberk, Jasper; Amy, Gary; Dijk, Hans van

2011-01-01

Research highlights: → Accumulated iron was not found to clog the well or aquifer after 12 years of subsurface iron removal. → 56-100% of accumulated iron hydroxides were found to be crystalline. → Subsurface iron removal favoured certain soil layers, either due to hydraulics or mineralogy. → Other groundwater constituents, such as manganese and arsenic were found to co-accumulate with iron. - Abstract: The principle of subsurface iron removal for drinking water supply is that aerated water is periodically injected into the aquifer through a tube well. On its way into the aquifer, the injected O 2 -rich water oxidizes adsorbed Fe 2+ , creating a subsurface oxidation zone. When groundwater abstraction is resumed, the soluble Fe 2+ is adsorbed and water with reduced Fe concentrations is abstracted for multiple volumes of the injection water. In this article, Fe accumulation deposits in the aquifer near subsurface treatment wells were identified and characterized to assess the sustainability of subsurface iron removal regarding clogging of the aquifer and the potential co-accumulation of other groundwater constituents, such as As. Chemical extraction of soil samples, with Acid-Oxalate and HNO 3 , showed that Fe had accumulated at specific depths near subsurface iron removal wells after 12 years of operation. Whether it was due to preferred flow paths or geochemical mineralogy conditions; subsurface iron removal clearly favoured certain soil layers. The total Fe content increased between 11.5 and 390.8 mmol/kg ds in the affected soil layers, and the accumulated Fe was found to be 56-100% crystalline. These results suggest that precipitated amorphous Fe hydroxides have transformed to Fe hydroxides of higher crystallinity. These crystalline, compact Fe hydroxides have not noticeably clogged the investigated well and/or aquifer between 1996 and 2008. The subsurface iron removal wells even need less frequent rehabilitation, as drawdown increases more slowly than in

[Predominant strains of polycyclic aromatic hydrocarbon-degrading consortia from deep sea of the Middle Atlantic Ridge].

Science.gov (United States)

Cui, Zhisong; Shao, Zongze

2009-07-01

In order to identify the predominant strains of polycyclic aromatic hydrocarbon (PAH)-degrading consortia harboring in sea water and surface sediment collected from deep sea of the Middle Atlantic Ridge. We employed enrichment method and spread-plate method to isolate cultivable bacteria and PAHs degraders from deep sea samples. Phylogenetic analysis was conducted by 16S rRNA gene sequencing of the bacteria. Then we analyzed the dominant bacteria in the PAHs-degrading consortia by denaturing gradient gel electrophoresis (DGGE) combined with DNA sequencing. Altogether 16 cultivable bacteria were obtained, including one PAHs degrader Novosphingobium sp. 4D. Phylogenetic analysis showed that strains closely related to Alcanivorax dieselolei NO1A (5/16) and Tistrella mobilis TISTR 1108T (5/16) constituted two biggest groups among the cultivable bacteria. DGGE analysis showed that strain 4L (also 4M and 4N, Alcanivorax dieselolei NO1A, 99.21%), 4D (Novosphingobium pentaromativorans US6-1(T), 97.07%) and 4B (also 4E, 4H and 4K, Tistrella mobilis TISTR 1108T, > 99%) dominated the consortium MC2D. While in consortium MC3CO, the predominant strains were strain 5C (also 5H, Alcanivorax dieselolei NO1A, > 99%), uncultivable strain represented by band 5-8 (Novosphingobium aromaticivorans DSM 12444T, 99.41%), 5J (Tistrella mobilis TISTR 1108T, 99.52%) and 5F (also 5G, Thalassospira lucentensis DSM 14000T, degrading consortia in sea water and surface sediment of Middle Atlantic Ridge deep sea, with Novosphingobium spp. as their main PAHs degraders.

Endodontic pathogens causing deep neck space infections: clinical impact of different sampling techniques and antibiotic susceptibility.

Science.gov (United States)

Poeschl, Paul W; Crepaz, Valentina; Russmueller, Guenter; Seemann, Rudolf; Hirschl, Alexander M; Ewers, Rolf

2011-09-01

The aims of the present study were to compare microbial populations in patients suffering from deep neck space abscesses caused by primary endodontic infections by sampling the infections with aspiration or swabbing techniques and to determine the susceptibility rates of the isolated bacteria to commonly used antibiotics. A total of 89 patients with deep neck space abscesses caused by primary endodontic infections requiring extraoral incision and drainage under general anesthesia were included. Either aspiration or swabbing was used to sample microbial pus specimens. The culture of the microbial specimens and susceptibility testing were performed following standard procedures. A total of 142 strains were recovered from 76 patients. In 13 patients, no bacteria were found. The predominant bacteria observed were streptococci (36%), staphylococci (13%), Prevotella (8%), and Peptostreptococcus (6%). A statistically significant greater number of obligate anaerobes were found in the aspiration group. The majority of patients presented a mixed aerobic-anaerobic population of bacterial flora (62%). The antibiotic resistance rates for the predominant bacteria were 10% for penicillin G, 9% for amoxicillin, 0% for amoxicillin clavulanate, 24% for clindamycin, and 24% for erythromycin. The results of our study indicated that a greater number of anaerobes were found when sampling using the aspiration technique. Penicillin G and aminopenicillins alone are not always sufficient for the treatment of severe deep neck space abscesses; beta-lactamase inhibitor combinations are more effective. Bacteria showed significant resistant rates to clindamycin. Thus, its single use in penicillin-allergic patients has to be carefully considered. Copyright © 2011 American Association of Endodontists. Published by Elsevier Inc. All rights reserved.

Drawing the subsurface : an integrative design approach

NARCIS (Netherlands)

Hooimeijer, F.L.; Lafleur, F.; Trinh, T.T.; Gogu, Constantin Radu; Campbell, Diarmad; de Beer, Johannes

2017-01-01

The sub-surface, with its man-made and natural components, plays an important, if not crucial, role in the urban climate and global energy transition. On the one hand, the sub-surface is associated with a variety of challenges such as subsidence, pollution, damage to infrastructure and shortages of

Microbial biomass and activity in subsurface sediments from Vejen, Denmark

DEFF Research Database (Denmark)

Albrechtsen, Hans-Jørgen; Winding, Anne

1992-01-01

Subsurface sediment samples were collected from 4 to 31 m below landsurface in glacio-fluvial sediments from the Quaternary period. The samples were described in terms of pH, electrical conductivity, chloride concentration, organic matter content, and grain size distribution. Viable counts...... for mineralization of 14C-labelled compounds varied from 0.2 to 2.3 × 10−3 ml/(dpm · day) for acetate, and from 0 to 2.0 × 10−3 ml/(dpm · day) for phenol. Sediment texture influenced the total number of bacteria and potential for mineralization; with increasing content of clay and silt and decreasing content of sand...... a single abiotic parameter that could explain the variation of size and activity of the microbial population. The microbial data obtained in these geologically young sediments were compared to literature data from older sediments, and this comparison showed that age and type of geological formation might...

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

Science.gov (United States)

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

DEMONSTRATiON OF A SUBSURFACE CONTAINMENT SYSTEM FOR INSTALLATION AT DOE WASTE SITES

Energy Technology Data Exchange (ETDEWEB)

Thomas J. Crocker; Verna M. Carpenter

2003-05-21

Between 1952 and 1970, DOE buried mixed waste in pits and trenches that now have special cleanup needs. The disposal practices used decades ago left these landfills and other trenches, pits, and disposal sites filled with three million cubic meters of buried waste. This waste is becoming harmful to human safety and health. Today's cleanup and waste removal is time-consuming and expensive with some sites scheduled to complete cleanup by 2006 or later. An interim solution to the DOE buried waste problem is to encapsulate and hydraulically isolate the waste with a geomembrane barrier and monitor the performance of the barrier over its 50-yr lifetime. The installed containment barriers would isolate the buried waste and protect groundwater from pollutants until final remediations are completed. The DOE has awarded a contract to RAHCO International, Inc.; of Spokane, Washington; to design, develop, and test a novel subsurface barrier installation system, referred to as a Subsurface Containment System (SCS). The installed containment barrier consists of commercially available geomembrane materials that isolates the underground waste, similar to the way a swimming pools hold water, without disrupting hazardous material that was buried decades ago. The barrier protects soil and groundwater from contamination and effectively meets environmental cleanup standards while reducing risks, schedules, and costs. Constructing the subsurface containment barrier uses a combination of conventional and specialized equipment and a unique continuous construction process. This innovative equipment and construction method can construct a 1000-ft-long X 34-ft-wide X 30-ft-deep barrier at construction rates to 12 Wday (8 hr/day operation). Life cycle costs including RCRA cover and long-term monitoring range from approximately $380 to $590/cu yd of waste contained or $100 to $160/sq ft of placed barrier based upon the subsurface geology surrounding the waste. Project objectives for Phase

Contaminant geochemistry. Interactions and transport in the subsurface environment

Energy Technology Data Exchange (ETDEWEB)

Berkowitz, Brian; Dror, Ishai; Yaron, Bruno [Weizmann Institute of Science, Rehovot (Israel). Dept. of Environmental Sciences and Energy Research

2008-07-01

This book combines earth science, subsurface hydrology and environmental geochemistry, providing a comprehensive background for specialists interested in the protection and sustainable management of the subsurface environment. The reader is introduced to the chemistry of contaminants, which usually disturb the natural equilibrium in the subsurface as a result of human activity. The major focus of the book is on contaminant reactions in soil solutions, groundwater and porous media solid phases, accounting for their persistence and transformation in the subsurface, as they are transported from the land surface into groundwater. Discussions on selected case studies are provided. (orig.)

Nitrate and ammonia as nitrogen sources for deep subsurface microorganisms

Directory of Open Access Journals (Sweden)

Heini eKutvonen

2015-10-01

Full Text Available We investigated the N-utilizing bacterial community in anoxic brackish groundwater of the low and intermediate level nuclear waste repository cave in Olkiluoto, Finland, at 100 m depth using 15N-based stable isotope probing (SIP and enrichment with 14/15N-ammonium or 14/15N-nitrate complemented with methane. 28 days of incubation at 12°C increased the concentration of bacterial 16S rRNA and nitrate reductase (narG gene copies in the substrate amended microcosms simultaneously with a radical drop in the overall bacterial diversity and OTU richness. Hydrogenophaga/Malikia were enriched in all substrate amended microcosms and Methylobacter in the ammonium and ammonium+methane supplemented microcosms. Sulfuricurvum was especially abundant in the nitrate+methane treatment and the unamended incubation control. Membrane-bound nitrate reductase genes (narG from Polarimonas sp. were detected in the original groundwater, while Burkholderia, Methylibium and Pseudomonas narG genes were enriched due to substrate supplements. Identified amoA genes belonged to Nitrosomonas sp. 15N-SIP revealed that Burkholderiales and Rhizobiales clades belonging to the minority groups in the original groundwater used 15N from ammonium and nitrate as N source indicating an important ecological function of these bacteria, despite their low number, in the groundwater N cycle in Olkiluoto bedrock system.

Description of Tessaracoccus profundi sp.nov., a deep-subsurface actinobacterium isolated from a Chesapeake impact crater drill core (940 m depth)

Science.gov (United States)

Finster, K.W.; Cockell, C.S.; Voytek, M.A.; Gronstal, A.L.; Kjeldsen, K.U.

2009-01-01

A novel actinobacterium, designated CB31T, was isolated from a 940 m depth sample of a drilling core obtained from the Chesapeake meteor impact crater. The strain was isolated aerobically on R2A medium agar plates supplemented with NaCl (20 g l-1) and MgCl2???6H 2O (3 g l-1). The colonies were circular, convex, smooth and orange. Cells were slightly curved, rod-shaped in young cultures and often appeared in pairs. In older cultures cells were coccoid. Cells stained Gram-positive, were non-motile and did not form endospores. The diagnostic diamino acid of the peptidoglycan was ll-diaminopimelic acid. The polar lipids included phosphatidylglycerol, diphosphatidglycerol, four different glycolipids, two further phospholipids and one unidentified lipid. The dominant menaquinone was MK-9(H4) (70%). The major cellular fatty acid was anteiso C15:0 (83%). The DNA G + C content was 68 mol%. The strain grew anaerobically by reducing nitrate to nitrite or by fermenting glucose. It was catalase positive and oxidase negative. It grew between 10 and 45??C, with an optimum between 35 and 40??C. The pH range for growth was 5.7-9.3, with an optimum at pH 7.5. The closest phylogenetic neighbors based on 16S rRNA gene sequence identity were members of the genus Tessaracoccus (95-96% identity). On the basis of phenotypic and phylogenetic distinctiveness, strain CB31T is considered to represent a novel species of the genus Tessaracoccus, for which we propose the name Tessaracoccus profundi sp. nov.. It is the first member of this genus that has been isolated from a deep subsurface environment. The type strain is CB31T (=NCIMB 14440T = DSM 21240T). ?? 2009 Springer Science+Business Media B.V.

Description of Tessaracoccus profundi sp.nov., a deep-subsurface actinobacterium isolated from a Chesapeake impact crater drill core (940 m depth).

Science.gov (United States)

Finster, K W; Cockell, C S; Voytek, M A; Gronstal, A L; Kjeldsen, K U

2009-11-01

A novel actinobacterium, designated CB31(T), was isolated from a 940 m depth sample of a drilling core obtained from the Chesapeake meteor impact crater. The strain was isolated aerobically on R2A medium agar plates supplemented with NaCl (20 g l(-1)) and MgCl2 x 6 H2O (3 g l(-1)). The colonies were circular, convex, smooth and orange. Cells were slightly curved, rod-shaped in young cultures and often appeared in pairs. In older cultures cells were coccoid. Cells stained Gram-positive, were non-motile and did not form endospores. The diagnostic diamino acid of the peptidoglycan was LL: -diaminopimelic acid. The polar lipids included phosphatidylglycerol, diphosphatidglycerol, four different glycolipids, two further phospholipids and one unidentified lipid. The dominant menaquinone was MK-9(H(4)) (70%). The major cellular fatty acid was anteiso C15:0 (83%). The DNA G + C content was 68 mol%. The strain grew anaerobically by reducing nitrate to nitrite or by fermenting glucose. It was catalase positive and oxidase negative. It grew between 10 and 45 degrees C, with an optimum between 35 and 40 degrees C. The pH range for growth was 5.7-9.3, with an optimum at pH 7.5. The closest phylogenetic neighbors based on 16S rRNA gene sequence identity were members of the genus Tessaracoccus (95-96% identity). On the basis of phenotypic and phylogenetic distinctiveness, strain CB31(T) is considered to represent a novel species of the genus Tessaracoccus, for which we propose the name Tessaracoccus profundi sp. nov.. It is the first member of this genus that has been isolated from a deep subsurface environment. The type strain is CB31(T) (=NCIMB 14440(T) = DSM 21240(T)).

Imaging beneath the skin of large tropical rivers: System morphodynamics of the Fly and Beni Rivers revealed by novel sub-surface sonar, deep coring, and modelling

Science.gov (United States)

Aalto, R. E.; Grenfell, M.; Lauer, J. W.

2011-12-01

channel negotiates "dog-leg" meanders and traverses a bed composed of a stacked sequence of fine layers; 3) An ancient channel network buried below the current bed of Lake Murray, indicating a ~10m rise in the Strickland River near that location; 4) The prevalence of clay in many of our deep cores throughout the Strickland, Fly, and Lake Murray floodplains; and 5) 14-C dating of deep cores which indicates that the entire Fly River system aggraded >10m rapidly during the mid Holocene. It appears that clay units dominate large portions of the channel bed. Furthermore, this clay often appears to control the morphodynamics of the channel -- as observed in the field and substantiated with modelling in Delft3D. We have recently completed a similar sonar/coring survey of 100s of km of the Beni River in Northern Bolivia. Particular attention was paid to the subsurface structure of meander bends, with an aim of understanding the controls on migration rates in this rapidly evolving system. Results are compared to GIS and modelling analyses of channel migration. We conclude with a synthesis of how cohesive clay-rich lithology can potentially play a major role in orchestrating the channel morphodynamics and Holocene evolution of a range of large tropical rivers.

Clean subglacial access: prospects for future deep hot-water drilling

Science.gov (United States)

Pearce, David; Hodgson, Dominic A.; Smith, Andrew M.; Rose, Mike; Ross, Neil; Mowlem, Matt; Parnell, John

2016-01-01

Accessing and sampling subglacial environments deep beneath the Antarctic Ice Sheet presents several challenges to existing drilling technologies. With over half of the ice sheet believed to be resting on a wet bed, drilling down to this environment must conform to international agreements on environmental stewardship and protection, making clean hot-water drilling the most viable option. Such a drill, and its water recovery system, must be capable of accessing significantly greater ice depths than previous hot-water drills, and remain fully operational after connecting with the basal hydrological system. The Subglacial Lake Ellsworth (SLE) project developed a comprehensive plan for deep (greater than 3000 m) subglacial lake research, involving the design and development of a clean deep-ice hot-water drill. However, during fieldwork in December 2012 drilling was halted after a succession of equipment issues culminated in a failure to link with a subsurface cavity and abandonment of the access holes. The lessons learned from this experience are presented here. Combining knowledge gained from these lessons with experience from other hot-water drilling programmes, and recent field testing, we describe the most viable technical options and operational procedures for future clean entry into SLE and other deep subglacial access targets. PMID:26667913

Extracting subsurface fingerprints using optical coherence tomography

CSIR Research Space (South Africa)

Akhoury, SS

2015-02-01

Full Text Available Subsurface Fingerprints using Optical Coherence Tomography Sharat Saurabh Akhoury, Luke Nicholas Darlow Modelling and Digital Science, Council for Scientific and Industrial Research, Pretoria, South Africa Abstract Physiologists have found... approach to extract the subsurface fingerprint representation using a high-resolution imaging technology known as Optical Coherence Tomography (OCT). ...

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

Science.gov (United States)

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.

Water-Searchers: A Reconfigurable and Self Sustaining Army of Subsurface Exploration Robots Searching for Water/Ice Using Multiple Sensors

Science.gov (United States)

Youk, G. U.; Whittaker, W. (Red); Volpe, R.

2000-01-01

Perhaps the most promising site for extant life on Mars today is where subsurface water has been maintained. Therefore, searching for underground water will provide a good chance to find evidence of life on Mars. The following are scientific/engineering questions that we want to answer using our approach: (1) Is there subsurface water/ice? How deep is it? How much is there? Is it frozen? (2) What kinds of underground layers exist in the Martian crust? (3) What is the density of Martian soil or regolith? Can we dig into it? Should we drill into it? (4) Can a sudden release of underground water occur if a big asteroid hits Mars? Our approach provides essential information to answer these questions. Moreover, dependence on the water content and depth in soil, not only resultant scientific conclusions but also proper digging/drilling methods, are suggested. 'How much water is in the Martian soil?' There can be several possibilities: (1) high water content that is enough to form permafrost; (2) low water content that is not enough to form permafrost; or (3) different layers with different moisture contents. 'How deep should a rover dig into soil to find water/ice?' The exact size-frequency distribution has not been measured for the soil particles. On-board sensors can provide not only the water content but also the density (or porosity) of Martian soil as a function of depth.

Deep Carbon Observatory investigates Carbon from Crust to Core: An Academic Record of the History of Deep Carbon Science

Science.gov (United States)

Mitton, S. A.

2017-12-01

Carbon plays an unparalleled role in our lives: as the element of life, as the basis of most of society's energy, as the backbone of most new materials, and as the central focus in efforts to understand Earth's variable and uncertain climate. Yet in spite of carbon's importance, scientists remain largely ignorant of the physical, chemical, and biological behavior of many of Earth's carbon-bearing systems. The Deep Carbon Observatory (DCO) is a global research program to transform our understanding of carbon in Earth. At its heart, DCO is a community of scientists, from biologists to physicists, geoscientists to chemists, and many others whose work crosses these disciplinary lines, forging a new, integrative field of deep carbon science. As a historian of science, I specialise in the history of planetary science and astronomy since 1900. This is directed toward understanding of the history of the steps on the road to discovering the internal dynamics of our planet. Within a framework that describes the historical background to the new field of Earth System Science, I present the first history of deep carbon science. This project will identifies the key discoveries of deep carbon science. It will assess the impact of new knowledge on geochemistry, geodynamics, and geobiology. The project will lead to publication, in book form in 2019, of an illuminating narrative that will highlight the engaging human stories of many remarkable scientists and natural philosophers from whom we have learned about the complexity of Earth's internal world. On this journey of discovery we will encounter not just the pioneering researchers of deep carbon science, but also their institutions, their instrumental inventiveness, and their passion for exploration. The book is organised thematically around the four communities of the Deep Carbon Observatory: Deep Life, Extreme Physics and Chemistry, Reservoirs and Fluxes, and Deep Energy. The presentation has a gallery and list of Deep Carbon

Microbial diversity of the 180 million-year-old Toarcian argillite from Tournemire, France

International Nuclear Information System (INIS)

Urios, Laurent; Marsal, François; Pellegrini, Delphine; Magot, Michel

2012-01-01

Even though the microbiology of various subsurface environments has been investigated for more than 30 a, the microbial diversity of deep argillaceous media is still poorly known. In the context of radioactive waste disposal in clayey formations, the consequence of microbial activity is of concern regarding e.g. the corrosion of metallic components. The purpose of the present work was to characterise the cultivable microbial diversity of different zones of the Toarcian argillite of Tournemire (France) as a preliminary indication regarding the potential of development of microbes in such subterrestrial environments. Cores were drilled in the Excavation Damaged Zone (EDZ) and in the deeper undisturbed zone of the argillite layer, as well as in a zone intersected by a geological fault. Samples from the wall of the drift were also collected. Microorganisms were cultivated from all samples, but the biodiversity differed depending mainly on the O 2 and moisture content. Aerobic bacteria were identified on the wall, in the EDZ and in the wet faulted area, whereas SO 4 -reducing bacteria were isolated from the wet faulted area only. Anaerobic heterotrophs were cultivated from all zones. One hundred and twelve isolates were identified. Small ribosomal subunit gene sequences showed that bacteria of the undisturbed zone were affiliated to three genera only, whereas the three other sampled zones harbour more diverse microflora, including isolates closely related to taxons characterized from subsurface, deep marine and polar environments.

Defining the Post-Machined Sub-surface in Austenitic Stainless Steels

Science.gov (United States)

Srinivasan, N.; Sunil Kumar, B.; Kain, V.; Birbilis, N.; Joshi, S. S.; Sivaprasad, P. V.; Chai, G.; Durgaprasad, A.; Bhattacharya, S.; Samajdar, I.

2018-06-01

Austenitic stainless steels grades, with differences in chemistry, stacking fault energy, and thermal conductivity, were subjected to vertical milling. Anodic potentiodynamic polarization was able to differentiate (with machining speed/strain rate) between different post-machined sub-surfaces in SS 316L and Alloy A (a Cu containing austenitic stainless steel: Sanicroe 28™), but not in SS 304L. However, such differences (in the post-machined sub-surfaces) were revealed in surface roughness, sub-surface residual stresses and misorientations, and in the relative presence of sub-surface Cr2O3 films. It was shown, quantitatively, that higher machining speed reduced surface roughness and also reduced the effective depths of the affected sub-surface layers. A qualitative explanation on the sub-surface microstructural developments was provided based on the temperature-dependent thermal conductivity values. The results herein represent a mechanistic understanding to rationalize the corrosion performance of widely adopted engineering alloys.

Defining the Post-Machined Sub-surface in Austenitic Stainless Steels

Science.gov (United States)

Srinivasan, N.; Sunil Kumar, B.; Kain, V.; Birbilis, N.; Joshi, S. S.; Sivaprasad, P. V.; Chai, G.; Durgaprasad, A.; Bhattacharya, S.; Samajdar, I.

2018-04-01

Austenitic stainless steels grades, with differences in chemistry, stacking fault energy, and thermal conductivity, were subjected to vertical milling. Anodic potentiodynamic polarization was able to differentiate (with machining speed/strain rate) between different post-machined sub-surfaces in SS 316L and Alloy A (a Cu containing austenitic stainless steel: Sanicroe 28™), but not in SS 304L. However, such differences (in the post-machined sub-surfaces) were revealed in surface roughness, sub-surface residual stresses and misorientations, and in the relative presence of sub-surface Cr2O3 films. It was shown, quantitatively, that higher machining speed reduced surface roughness and also reduced the effective depths of the affected sub-surface layers. A qualitative explanation on the sub-surface microstructural developments was provided based on the temperature-dependent thermal conductivity values. The results herein represent a mechanistic understanding to rationalize the corrosion performance of widely adopted engineering alloys.

Microbial ecology of deep-water mid-Atlantic canyons

Science.gov (United States)

Kellogg, Christina A.

2011-01-01

The research described in this fact sheet will be conducted from 2012 to 2014 as part of the U.S. Geological Survey's DISCOVRE (DIversity, Systematics, and COnnectivity of Vulnerable Reef Ecosystems) Program. This integrated, multidisciplinary effort will be investigating a variety of topics related to unique and fragile deep-sea ecosystems from the microscopic level to the ecosystem level. One goal is to improve understanding, at the microbiological scale, of the benthic communities (including corals) that reside in and around mid-Atlantic canyon habitats and their associated environments. Specific objectives include identifying and characterizing the microbial associates of deep-sea corals, characterizing the microbial biofilms on hard substrates to better determine their role in engineering the ecosystem, and adding a microbial dimension to benthic community structure and function assessments by characterizing micro-eukaryotes, bacteria, and archaea in deep-sea sediments.

Characterization of microbial communities in deep groundwater from granitic rock

International Nuclear Information System (INIS)

Jain, D.K.; Stroes-Gascoyne, S.; Providenti, M.; Tanner, C.; Cord, I.

1997-01-01

The microbial characteristics of deep granitic nutrient-poor groundwater from two boreholes at the Underground Research Laboratory of Atomic Energy of Canada Limited were studied. Scanning electron microscopy of the groundwater samples revealed significant numbers of bacteria of various sizes and shapes, including spherical, rod, and curved shaped. A few bacteria with appendages were also observed. Significant numbers of bacteria (∼l0 5 /mL) were enumerated using acridine orange (AO) staining. An active microbial population was detected with three direct methods and it ranged from 1 to 83% of the AO count, depending on the method used. Culturable aerobic and anaerobic (including facultative) heterotrophic bacteria ranged from 0.06 to 10.2% and 0.008 to 7.35%, respectively, of the AO count. Denitrifying. N 2 - fixing, sulphate-reducing, and iron-precipitating bacteria were present, but no iron-oxidizing bacteria or methanogens could be detected. Tentative identification of 160 isolates using the Biolog system showed a predominance of three Pseudomonas species, P. fluorescens, P. marginalis, and P. corrugata. Phospholipid fatty acid analysis showed that the bacteria in the groundwater samples faced starvation stress. However, laboratory studies showed that these bacteria can efficiently uptake and mineralize organic substrates when supplied. (author)

Orenia metallireducens sp. nov. Strain Z6, a Novel Metal-Reducing Member of the Phylum Firmicutes from the Deep Subsurface

Science.gov (United States)

Sanford, Robert A.; Boyanov, Maxim I.; Kemner, Kenneth M.; O'Loughlin, Edward J.; Chang, Yun-juan; Locke, Randall A.; Weber, Joseph R.; Egan, Sheila M.; Mackie, Roderick I.; Cann, Isaac; Fouke, Bruce W.

2016-01-01

ABSTRACT A novel halophilic and metal-reducing bacterium, Orenia metallireducens strain Z6, was isolated from briny groundwater extracted from a 2.02 km-deep borehole in the Illinois Basin, IL. This organism shared 96% 16S rRNA gene similarity with Orenia marismortui but demonstrated physiological properties previously unknown for this genus. In addition to exhibiting a fermentative metabolism typical of the genus Orenia, strain Z6 reduces various metal oxides [Fe(III), Mn(IV), Co(III), and Cr(VI)], using H2 as the electron donor. Strain Z6 actively reduced ferrihydrite over broad ranges of pH (6 to 9.6), salinity (0.4 to 3.5 M NaCl), and temperature (20 to 60°C). At pH 6.5, strain Z6 also reduced more crystalline iron oxides, such as lepidocrocite (γ-FeOOH), goethite (α-FeOOH), and hematite (α-Fe2O3). Analysis of X-ray absorption fine structure (XAFS) following Fe(III) reduction by strain Z6 revealed spectra from ferrous secondary mineral phases consistent with the precipitation of vivianite [Fe3(PO4)2] and siderite (FeCO3). The draft genome assembled for strain Z6 is 3.47 Mb in size and contains 3,269 protein-coding genes. Unlike the well-understood iron-reducing Shewanella and Geobacter species, this organism lacks the c-type cytochromes for typical Fe(III) reduction. Strain Z6 represents the first bacterial species in the genus Orenia (order Halanaerobiales) reported to reduce ferric iron minerals and other metal oxides. This microbe expands both the phylogenetic and physiological scopes of iron-reducing microorganisms known to inhabit the deep subsurface and suggests new mechanisms for microbial iron reduction. These distinctions from other Orenia spp. support the designation of strain Z6 as a new species, Orenia metallireducens sp. nov. IMPORTANCE A novel iron-reducing species, Orenia metallireducens sp. nov., strain Z6, was isolated from groundwater collected from a geological formation located 2.02 km below land surface in the Illinois Basin, USA

Deep neck abscess. A 42-case retrospective review

International Nuclear Information System (INIS)

Sakaki, Masaru; Saiki, Tadahiko; Matsumoto, Shuichi; Watanabe, Futoshi

2010-01-01

We reviewed 42 cases of deep neck abscess drained surgically or treated conservatively between February 2001 and August 2008, based on age, gender, primary focus, main symptom, abscess location, systemic disease, pathogenic bacteria, hospital treatment, hospitalization length, complications and long-term hospitalization. Of the 42, 26 were men and 16 women aged 14 to 80 (central age: 54.5 years). Abscess was caused most by tonsil inflammation (38.1%). Main symptom were sore throat (54.8%) and neck swelling (35.7%). Abscesses were found in the supra- and infrahyoid region in 30 cases and extended to the mediastinum in 2. Of the 42, 14 (33.3%) had hypertension and 11 (26.2%) diabetes mellitus (DM). Inflammation was due to aerobic bacteria (mainly Streptococcus milleri) in 23 cases (54.8%) and to anaerobic bacteria (mainly Peptostreptococcus) in 11 cases (26.2%). Flexible fiberscopic examination was important in evaluating pharyngeal and laryngeal mucosal disorders and enhanced computed tomography was useful in both diagnosis and postoperative observation. Of the 42, 38 required surgical drainage and 4 were cured using needle aspiration and antibiotics. Of the 38 undergoing surgery-tracheostomy was required in 22. Hospitalization for those with tracheostomy and DM was longer than in those without these factors. Complications included 2 cases each of, mediastinal abscess, sepsis, disseminated intravascular coagulation (DIC), acute renal failure, severe pneumonia, upper digestive tract bleeding and swallowing disorder. Early surgical drainage and intravenous antibiotic administration are thus essential for treating deep neck abscesses. (author)

Characterization of accumulated precipitates during subsurface iron removal

KAUST Repository

Van Halem, Doris

2011-01-01

The principle of subsurface iron removal for drinking water supply is that aerated water is periodically injected into the aquifer through a tube well. On its way into the aquifer, the injected O2-rich water oxidizes adsorbed Fe 2+, creating a subsurface oxidation zone. When groundwater abstraction is resumed, the soluble Fe 2+ is adsorbed and water with reduced Fe concentrations is abstracted for multiple volumes of the injection water. In this article, Fe accumulation deposits in the aquifer near subsurface treatment wells were identified and characterized to assess the sustainability of subsurface iron removal regarding clogging of the aquifer and the potential co-accumulation of other groundwater constituents, such as As. Chemical extraction of soil samples, with Acid-Oxalate and HNO3, showed that Fe had accumulated at specific depths near subsurface iron removal wells after 12 years of operation. Whether it was due to preferred flow paths or geochemical mineralogy conditions; subsurface iron removal clearly favoured certain soil layers. The total Fe content increased between 11.5 and 390.8 mmol/kg ds in the affected soil layers, and the accumulated Fe was found to be 56-100% crystalline. These results suggest that precipitated amorphous Fe hydroxides have transformed to Fe hydroxides of higher crystallinity. These crystalline, compact Fe hydroxides have not noticeably clogged the investigated well and/or aquifer between 1996 and 2008. The subsurface iron removal wells even need less frequent rehabilitation, as drawdown increases more slowly than in normal production wells. Other groundwater constituents, such as Mn, As and Sr were found to co-accumulate with Fe. Acid extraction and ESEM-EDX showed that Ca occurred together with Fe and by X-ray Powder Diffraction it was identified as calcite. © 2010 Elsevier Ltd. All rights reserved.

Algae-bacteria interactions: Evolution, ecology and emerging applications.

Science.gov (United States)

Ramanan, Rishiram; Kim, Byung-Hyuk; Cho, Dae-Hyun; Oh, Hee-Mock; Kim, Hee-Sik

2016-01-01

Algae and bacteria have coexisted ever since the early stages of evolution. This coevolution has revolutionized life on earth in many aspects. Algae and bacteria together influence ecosystems as varied as deep seas to lichens and represent all conceivable modes of interactions - from mutualism to parasitism. Several studies have shown that algae and bacteria synergistically affect each other's physiology and metabolism, a classic case being algae-roseobacter interaction. These interactions are ubiquitous and define the primary productivity in most ecosystems. In recent years, algae have received much attention for industrial exploitation but their interaction with bacteria is often considered a contamination during commercialization. A few recent studies have shown that bacteria not only enhance algal growth but also help in flocculation, both essential processes in algal biotechnology. Hence, there is a need to understand these interactions from an evolutionary and ecological standpoint, and integrate this understanding for industrial use. Here we reflect on the diversity of such relationships and their associated mechanisms, as well as the habitats that they mutually influence. This review also outlines the role of these interactions in key evolutionary events such as endosymbiosis, besides their ecological role in biogeochemical cycles. Finally, we focus on extending such studies on algal-bacterial interactions to various environmental and bio-technological applications. Copyright © 2015 The Authors. Published by Elsevier Inc. All rights reserved.

Integrated Surface/subsurface flow modeling in PFLOTRAN

Energy Technology Data Exchange (ETDEWEB)

Painter, Scott L [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)

2016-10-01

Understanding soil water, groundwater, and shallow surface water dynamics as an integrated hydrological system is critical for understanding the Earth’s critical zone, the thin outer layer at our planet’s surface where vegetation, soil, rock, and gases interact to regulate the environment. Computational tools that take this view of soil moisture and shallow surface flows as a single integrated system are typically referred to as integrated surface/subsurface hydrology models. We extend the open-source, highly parallel, subsurface flow and reactive transport simulator PFLOTRAN to accommodate surface flows. In contrast to most previous implementations, we do not represent a distinct surface system. Instead, the vertical gradient in hydraulic head at the land surface is neglected, which allows the surface flow system to be eliminated and incorporated directly into the subsurface system. This tight coupling approach leads to a robust capability and also greatly simplifies implementation in existing subsurface simulators such as PFLOTRAN. Successful comparisons to independent numerical solutions build confidence in the approximation and implementation. Example simulations of the Walker Branch and East Fork Poplar Creek watersheds near Oak Ridge, Tennessee demonstrate the robustness of the approach in geometrically complex applications. The lack of a robust integrated surface/subsurface hydrology capability had been a barrier to PFLOTRAN’s use in critical zone studies. This work addresses that capability gap, thus enabling PFLOTRAN as a community platform for building integrated models of the critical zone.

Modular evaluation method for subsurface activities (MEMSA). A novel approach for integrating social acceptance in a permit decision-making process for subsurface activities

International Nuclear Information System (INIS)

Os, Herman W.A. van; Herber, Rien; Scholtens, Bert

2017-01-01

We investigate how the decision support system ‘Modular Evaluation Method Subsurface Activities’ (MEMSA) can help facilitate an informed decision-making process for permit applications of subsurface activities. To this end, we analyze the extent the MEMSA approach allows for a dialogue between stakeholders in a transparent manner. We use the exploration permit for the underground gas storage facility at the Pieterburen salt dome (Netherlands) as a case study. The results suggest that the MEMSA approach is flexible enough to adjust to changing conditions. Furthermore, MEMSA provides a novel way for identifying structural problems and possible solutions in permit decision-making processes for subsurface activities, on the basis of the sensitivity analysis of intermediate rankings. We suggest that the planned size of an activity should already be specified in the exploration phase, because this would allow for a more efficient use of the subsurface as a whole. We conclude that the host community should be involved to a greater extent and in an early phase of the permit decision-making process, for example, already during the initial analysis of the project area of a subsurface activity. We suggest that strategic national policy goals are to be re-evaluated on a regular basis, in the form of a strategic vision for the subsurface, to account for timing discrepancies between the realization of activities and policy deadlines, because this discrepancy can have a large impact on the necessity and therefore acceptance of a subsurface activity.

Modular evaluation method for subsurface activities (MEMSA). A novel approach for integrating social acceptance in a permit decision-making process for subsurface activities

Energy Technology Data Exchange (ETDEWEB)

Os, Herman W.A. van, E-mail: h.w.a.van.os@rug.nl [University of Groningen, Faculty of Mathematics and Natural Sciences, Geo-Energy, PO Box 800, 9700 AV Groningen (Netherlands); Herber, Rien, E-mail: rien.herber@rug.nl [University of Groningen, Faculty of Mathematics and Natural Sciences, Geo-Energy, PO Box 800, 9700 AV Groningen (Netherlands); Scholtens, Bert, E-mail: l.j.r.scholtens@rug.nl [University of Groningen, Faculty of Economics and Business, PO Box 800, 9700 AV Groningen (Netherlands)

2017-05-15

We investigate how the decision support system ‘Modular Evaluation Method Subsurface Activities’ (MEMSA) can help facilitate an informed decision-making process for permit applications of subsurface activities. To this end, we analyze the extent the MEMSA approach allows for a dialogue between stakeholders in a transparent manner. We use the exploration permit for the underground gas storage facility at the Pieterburen salt dome (Netherlands) as a case study. The results suggest that the MEMSA approach is flexible enough to adjust to changing conditions. Furthermore, MEMSA provides a novel way for identifying structural problems and possible solutions in permit decision-making processes for subsurface activities, on the basis of the sensitivity analysis of intermediate rankings. We suggest that the planned size of an activity should already be specified in the exploration phase, because this would allow for a more efficient use of the subsurface as a whole. We conclude that the host community should be involved to a greater extent and in an early phase of the permit decision-making process, for example, already during the initial analysis of the project area of a subsurface activity. We suggest that strategic national policy goals are to be re-evaluated on a regular basis, in the form of a strategic vision for the subsurface, to account for timing discrepancies between the realization of activities and policy deadlines, because this discrepancy can have a large impact on the necessity and therefore acceptance of a subsurface activity.

Pyrosequencing-based assessment of the bacteria diversity in surface and subsurface peat layers of a northern wetland, with focus on poorly studied phyla and candidate divisions.

Science.gov (United States)

Serkebaeva, Yulia M; Kim, Yongkyu; Liesack, Werner; Dedysh, Svetlana N

2013-01-01

Northern peatlands play a key role in the global carbon and water budget, but the bacterial diversity in these ecosystems remains poorly described. Here, we compared the bacterial community composition in the surface (0-5 cm depth) and subsurface (45-50 cm) peat layers of an acidic (pH 4.0) Sphagnum-dominated wetland, using pyrosequencing of 16S rRNA genes. The denoised sequences (37,229 reads, average length ∼430 bp) were affiliated with 27 bacterial phyla and corresponded to 1,269 operational taxonomic units (OTUs) determined at 97% sequence identity. Abundant OTUs were affiliated with the Acidobacteria (35.5±2.4% and 39.2±1.2% of all classified sequences in surface and subsurface peat, respectively), Alphaproteobacteria (15.9±1.7% and 25.8±1.4%), Actinobacteria (9.5±2.0% and 10.7±0.5%), Verrucomicrobia (8.5±1.4% and 0.6±0.2%), Planctomycetes (5.8±0.4% and 9.7±0.6%), Deltaproteobacteria (7.1±0.4% and 4.4%±0.3%), and Gammaproteobacteria (6.6±0.4% and 2.1±0.1%). The taxonomic patterns of the abundant OTUs were uniform across all the subsamples taken from each peat layer. In contrast, the taxonomic patterns of rare OTUs were different from those of the abundant OTUs and varied greatly among subsamples, in both surface and subsurface peat. In addition to the bacterial taxa listed above, rare OTUs represented the following groups: Armatimonadetes, Bacteroidetes, Chlamydia, Chloroflexi, Cyanobacteria, Elusimicrobia, Fibrobacteres, Firmicutes, Gemmatimonadetes, Spirochaetes, AD3, WS1, WS4, WS5, WYO, OD1, OP3, BRC1, TM6, TM7, WPS-2, and FCPU426. OTU richness was notably higher in the surface layer (882 OTUs) than in the anoxic subsurface peat (483 OTUs), with only 96 OTUs common to both data sets. Most members of poorly studied phyla, such as the Acidobacteria, Verrucomicrobia, Planctomycetes and the candidate division TM6, showed a clear preference for growth in either oxic or anoxic conditions. Apparently, the bacterial communities in surface and

30 CFR 250.119 - Will MMS approve subsurface gas storage?

Science.gov (United States)

2010-07-01

... 30 Mineral Resources 2 2010-07-01 2010-07-01 false Will MMS approve subsurface gas storage? 250....119 Will MMS approve subsurface gas storage? The Regional Supervisor may authorize subsurface storage of gas on the OCS, on and off-lease, for later commercial benefit. To receive MMS approval you must...

Neptunium(V) Adsorption to Bacteria at Low and High Ionic Strength

Science.gov (United States)

Ams, D.; Swanson, J. S.; Reed, D. T.

2010-12-01

Np(V) is expected to be the predominant oxidation state of neptunium in aerobic natural waters. Np(V), as the NpO2+ aquo and associated complexed species, is readily soluble, interacts weakly with geologic media, and has a high redox stability under a relatively wide range of subsurface conditions. These chemical properties, along with a long half-life make it a primary element of concern regarding long-term nuclear waste storage and subsurface containment. The fate and transport of neptunium in the environment may be influenced by adsorption onto bacterial surfaces. The adsorption of neptunium to bacterial surfaces ties the mobility of the contaminant to the mobility of the bacterium. In this study, the adsorption of the neptunyl (NpO2+) ion was evaluated at low ionic strength on a common soil bacterium and at high ionic strength on a halophilic bacterium isolated from a briny groundwater near the Waste Isolation Pilot Plant (WIPP) in southeast New Mexico. Adsorption experiments were performed in batch reactors as a function of pH, ionic strength, and bacteria/Np mass ratio. Np(V) adsorption was modeled using a surface complexation approach with the mathematical program FITEQL to determine functional group specific binding constants. The data from acid and base titrations of the bacteria used were also modeled to estimate the concentrations and deprotonation constants of discrete bacterial surface functional groups. Bacterial functional group characteristics and Np(V) adsorption behavior between the soil bacterium and the halophilic bacterium were compared. These results highlight key similarities and differences in actinide adsorption behavior in environments of significantly different ionic strength. The observed adsorption behavior may be linked to similarities and differences in the characteristics of the moieties between the cell walls of common gram-negative soil and halophilic bacteria. Moreover, differences in adsorption behavior may also reflect ionic

Method of imaging the electrical conductivity distribution of a subsurface

Science.gov (United States)

Johnson, Timothy C.

2017-09-26

A method of imaging electrical conductivity distribution of a subsurface containing metallic structures with known locations and dimensions is disclosed. Current is injected into the subsurface to measure electrical potentials using multiple sets of electrodes, thus generating electrical resistivity tomography measurements. A numeric code is applied to simulate the measured potentials in the presence of the metallic structures. An inversion code is applied that utilizes the electrical resistivity tomography measurements and the simulated measured potentials to image the subsurface electrical conductivity distribution and remove effects of the subsurface metallic structures with known locations and dimensions.

An abyssal mobilome: viruses, plasmids and vesicles from deep-sea hydrothermal vents.

Science.gov (United States)

Lossouarn, Julien; Dupont, Samuel; Gorlas, Aurore; Mercier, Coraline; Bienvenu, Nadege; Marguet, Evelyne; Forterre, Patrick; Geslin, Claire

2015-12-01

Mobile genetic elements (MGEs) such as viruses, plasmids, vesicles, gene transfer agents (GTAs), transposons and transpovirions, which collectively represent the mobilome, interact with cellular organisms from all three domains of life, including those thriving in the most extreme environments. While efforts have been made to better understand deep-sea vent microbial ecology, our knowledge of the mobilome associated with prokaryotes inhabiting deep-sea hydrothermal vents remains limited. Here we focus on the abyssal mobilome by reviewing accumulating data on viruses, plasmids and vesicles associated with thermophilic and hyperthermophilic Bacteria and Archaea present in deep-sea hydrothermal vents. Copyright © 2015 Institut Pasteur. Published by Elsevier Masson SAS. All rights reserved.

Geochemical characterization of subsurface sediments in the Netherlands

NARCIS (Netherlands)

Huisman, D.J.

1998-01-01

Traditionally, the Netherlands' subsurface is mainly used to obtain good quality drinking and industrial waters from the different aquifers. Due to the lack of space on the surface, increasing environmental problems and demand for energy, the subsurface will be used increasingly for other

Electrical Subsurface Grounding Analysis

International Nuclear Information System (INIS)

J.M. Calle

2000-01-01

The purpose and objective of this analysis is to determine the present grounding requirements of the Exploratory Studies Facility (ESF) subsurface electrical system and to verify that the actual grounding system and devices satisfy the requirements

Degradation and utilization of polycyclic aromatic hydrocarbons by indigenous soil bacteria

International Nuclear Information System (INIS)

Stetzenbach, L.D.A.

1986-01-01

The persistence of industrially derived polycyclic aromatic hydrocarbons in the subsurface may be significantly affected by the metabolism of soil bacteria. This study was conducted to determine the ability of indigenous soil bacteria to decrease the concentration of four polycyclic aromatic hydrocarbons (naphthalene, fluorene, anthracene, and pyrene) and to utilize the compounds as a substrate for growth. Soil cores from petroleum contaminated and noncontaminated sites contained 10 5 -10 7 viable microorganisms per gram dryweight of soil. Gram negative rod-shaped bacteria predominated. Decreases in the concentration of the four polycyclic aromatic hydrocarbons were observed during incubation with bacterial isolates in aqueous suspension by the use of high performance liquid chromatography. Corresponding increases in bacterial numbers indicated utilization of the compounds as a carbon source. Soil samples from the contaminated sites contained greater numbers of bacteria utilizing anthracene and pyrene than soil samples from uncontaminated sites. Degradation rates of the four polycyclic aromatic hydrocarbons were related to the compound, its concentration, and the bacterium. Biodegradation of pyrene was positively correlated with the presence of oxygen. Pyrene was biodegraded by an Acinetobacter sp. under aerobic conditions but not under anaerobic or microaerophilic conditions. Studies with radiolabeled 14 C-anthracene demonstrated utilization of the labeled carbon as a source of carbon by viable bacterial cells in aqueous suspension. Incorporation of 14 C into cellular biomass however was not observed during incubation of 14 C-anthracene in soil

Molecular Phylogeny Of Microbes In The Deep-Sea Sediments From Tropical West Pacific Warm Pool

Science.gov (United States)

Wang, F.; Xiao, X.; Wang, P.

2005-12-01

The presence and phylogeny of bacteria and archaea in five deep-sea sediment samples collected from west Pacific Warm Pool area (WP-0, WP-1, WP-2, WP-3, WP-4), and in five sediment layers (1cm-, 3cm-, 6cm-, 10cm-, 12cm- layer) of the 12-cm sediment core of WP-0 were checked and compared. The microbial diversity in the five deep-sea sediments were similar as revealed by denaturing gradient gel electrophoresis, and all of them contained members of non-thermophilic marine group I crenarchaeota as the predominant archaeal group. The composition of methylotrophs including methanotrophs, sulfate reducing bacteria in the WP-0 sediment core were further investigated by molecular marker based analysis of mxaF, pmoA, dsrAB, specific anoxic methane oxidation archaeal and sulfate reducing bacterial 16S rRNA genes. From MxaF amino acid sequence analysis, it was demonstrated that microbes belonging to α - Proteobacteria most related to Hyphomicrobium and Methylobacterium were dominant aerobic methylotrophs in this deep-sea sediment; and small percentage of type II methanotrophs affiliating closest to Methylocystis and Methylosinus were also detected in this environment. mxaF quantitative PCR results showed that in the west Pacific WP sediment there existed around 3× 10 4-5 methylotrophs per gram sediment, 10-100 times more than that in samples collected from several other deep-sea Pacific sediment sample, but about 10 times less than that present in samples collected from rice and flower garden soil. Diverse groups of novel archaea (named as WPA), not belonging to any known archaeal lineages were checked out. They could be placed in the euryarchaeota kingdom, separated into two distinct groups, the main group was peripherally related with methanogens, the other group related with Thermoplasma. Possible sulfate reducing bacterial related with Desulfotomaculum, Desulfacinum, Desulfomonile and Desulfanuticus were also detected in our study. The vertical distributions of WPA

Characterizing the Catalytic Potential of Deinococcus, Arthrobacter and other Robust Bacteria in Contaminated Subsurface Environments of the Hanford Site

Energy Technology Data Exchange (ETDEWEB)

Daly, Michael J.

2005-06-01

Natural selection in highly radioactive waste sites may yield bacteria with favorable bioremediating characteristics. However, until recently the microbial ecology of such environments has remained unexplored because of the high costs and technical complexities associated with extracting and characterizing samples from such sites. We have examined the bacterial ecology within radioactive sediments from a high-level nuclear waste plume in the vadose zone on the DOE?s Hanford Site in south-central Washington state (Fredrickson et al, 2004). Manganese-dependent, radiation resistant bacteria have been isolated from this contaminated site including the highly Mn-dependent Deinococcus and Arthrobacter spp.

Thermophilic hydrogen-producing bacteria inhabiting deep-sea hydrothermal environments represented by Caloranaerobacter.

Science.gov (United States)

Jiang, Lijing; Xu, Hongxiu; Zeng, Xiang; Wu, Xiaobing; Long, Minnan; Shao, Zongze

2015-11-01

Hydrogen is an important energy source for deep-sea hydrothermal vent ecosystems. However, little is known about microbes and their role in hydrogen turnover in the environment. In this study, the diversity and physiological characteristics of fermentative hydrogen-producing microbes from deep-sea hydrothermal vent fields were described for the first time. Seven enrichments were obtained from hydrothermal vent sulfides collected from the Southwest Indian Ocean, East Pacific and South Atlantic. 16S rRNA gene analysis revealed that members of the Caloranaerobacter genus were the dominant component in these enrichments. Subsequently, three thermophilic hydrogen producers, strains H363, H53214 and DY22619, were isolated. They were phylogenetically related to species of the genus Caloranaerobacter. The H2 yields of strains H363, H53214, DY22619 and MV107, which was the type species of genus Caloranaerobacter, were 0.11, 1.21, 3.13 and 2.85 mol H2/mol glucose, respectively. Determination of the main soluble metabolites revealed that strains H363, H53214 and MV107 performed heterolactic fermentations, while strain DY22619 performed butyric acid fermentation, indicating distinct fermentation patterns among members of the genus. Finally, a diversity of forms of [FeFe]-hydrogenase with different modular structures was revealed based on draft genomic data of Caloranaerobacter strains. This highlights the complexity of hydrogen metabolism in Caloranaerobacter, reflecting adaptations to environmental conditions in hydrothermal vent systems. Collectively, results suggested that Caloranaerobacter species might be ubiquitous and play a role in biological hydrogen generation in deep-sea hydrothermal vent fields. Copyright © 2015 Institut Pasteur. Published by Elsevier Masson SAS. All rights reserved.

Microbial activity in subsurface samples before and during nitrate-enhanced bioremediation

International Nuclear Information System (INIS)

Thomas, J.M.; Gordy, V.R.; Bruce, C.L.; Ward, C.H.; Hutchins, S.R.; Sinclair, J.L.

1995-01-01

A study was conducted to determine the microbial activity at a site contaminated with JP-4 jet fuel before and during nitrate-enhanced bioremediation. Samples at three depths from six different locations were collected aseptically under anaerobic conditions before and during treatment. Cores were located in or close to the source of contamination, downgradient of the source, or outside the zone of contamination. Parameters for microbial characterization included (1) viable counts of aerobic heterotrophic, JP-4 degrading, and oligotrophic bacteria; (2) the most probable number (MPN) of aerobic and anaerobic protozoa; (3) the MPN of total denitrifiers; and (4) the MPN of denitrifiers in hydrocarbon-amended microcosms. The results indicate that the total number of denitrifiers increased by an order of magnitude during nitrate-enhanced bioremediation in most samples. The number of total heterotrophs and JP-4-degrading microorganisms growing aerobically also increased. In addition, the first anaerobic protozoa associated with hydrocarbon-contaminated subsurface materials were detected

Groundwater Salinity Simulation of a Subsurface Reservoir in Taiwan

Science.gov (United States)

Fang, H. T.

2015-12-01

The subsurface reservoir is located in Chi-Ken Basin, Pescadores (a group islands located at western part of Taiwan). There is no river in these remote islands and thus the freshwater supply is relied on the subsurface reservoir. The basin area of the subsurface reservoir is 2.14 km2 , discharge of groundwater is 1.27×106m3 , annual planning water supplies is 7.9×105m3 , which include for domestic agricultural usage. The annual average temperature is 23.3oC, average moisture is 80~85%, annual average rainfall is 913 mm, but ET rate is 1975mm. As there is no single river in the basin; the major recharge of groundwater is by infiltration. Chi-Ken reservoir is the first subsurface reservoir in Taiwan. Originally, the water quality of the reservoir is good. The reservoir has had the salinity problem since 1991 and it became more and more serious from 1992 until 1994. Possible reason of the salinity problem was the shortage of rainfall or the leakage of the subsurface barrier which caused the seawater intrusion. The present study aimed to determine the leakage position of subsurface barrier that caused the salinity problem. In order to perform the simulation for different possible leakage position of the subsurface reservoir, a Groundwater Modeling System (GMS) is used to define soils layer data, hydro-geological parameters, initial conditions, boundary conditions and the generation of three dimension meshes. A three dimension FEMWATER(Yeh , 1996) numerical model was adopted to find the possible leakage position of the subsurface barrier and location of seawater intrusion by comparing the simulation of different possible leakage with the observations. 1.By assuming the leakage position in the bottom of barrier, the simulated numerical result matched the observation better than the other assumed leakage positions. It showed that the most possible leakage position was at the bottom of the barrier. 2.The research applied three dimension FEMWATER and GMS as an interface

Microbial Influence on the Performance of Subsurface, Salt-Based Radioactive Waste Repositories. An Evaluation Based on Microbial Ecology, Bioenergetics and Projected Repository Conditions

International Nuclear Information System (INIS)

Swanson, J.S.; Reed, D.T.; Cherkouk, A.; Arnold, T.; Meleshyn, A.; Patterson, Russ

2018-01-01

For the past several decades, the Nuclear Energy Agency Salt Club has been supporting and overseeing the characterisation of rock salt as a potential host rock for deep geological repositories. This extensive evaluation of deep geological settings is aimed at determining - through a multidisciplinary approach - whether specific sites are suitable for radioactive waste disposal. Studying the microbiology of granite, basalt, tuff, and clay formations in both Europe and the United States has been an important part of this investigation, and much has been learnt about the potential influence of microorganisms on repository performance, as well as about deep subsurface microbiology in general. Some uncertainty remains, however, around the effects of microorganisms on salt-based repository performance. Using available information on the microbial ecology of hyper-saline environments, the bioenergetics of survival under high ionic strength conditions and studies related to repository microbiology, this report summarises the potential role of microorganisms in salt-based radioactive waste repositories

The interactions between nanoscale zero-valent iron and microbes in the subsurface environment: A review

Energy Technology Data Exchange (ETDEWEB)

Xie, Yankai [College of Environmental Science and Engineering, Hunan University, Changsha, Hunan 410082 (China); Key Laboratory of Environmental Biology and Pollution Control (Hunan University), Ministry of Education, Changsha, Hunan 410082 (China); Dong, Haoran, E-mail: dongh@hnu.edu.cn [College of Environmental Science and Engineering, Hunan University, Changsha, Hunan 410082 (China); Key Laboratory of Environmental Biology and Pollution Control (Hunan University), Ministry of Education, Changsha, Hunan 410082 (China); Zeng, Guangming; Tang, Lin; Jiang, Zhao; Zhang, Cong; Deng, Junmin; Zhang, Lihua; Zhang, Yi [College of Environmental Science and Engineering, Hunan University, Changsha, Hunan 410082 (China); Key Laboratory of Environmental Biology and Pollution Control (Hunan University), Ministry of Education, Changsha, Hunan 410082 (China)

2017-01-05

Highlights: • The interactions between various microbes and NZVI were summarized. • The adverse and positive effects of NZVI on the growth of microbes were reviewed. • The synergistic effects of NZVI and bacteria on pollutant removal were reviewed. • The effects of iron-reducing bacteria on the aged NZVI were reviewed. • Future challenges to study the interactions between NZVI and microbes are suggested. - Abstract: Nanoscale zero-valent iron (NZVI) particles, applied for in-situ subsurface remediation, are inevitable to interact with various microbes in the remediation sites directly or indirectly. This review summarizes their interactions, including the effects of NZVI on microbial activity and growth, the synergistic effect of NZVI and microbes on the contaminant removal, and the effects of microbes on the aging of NZVI. NZVI could exert either inhibitive or stimulative effects on the growth of microbes. The mechanisms of NZVI cytotoxicity (i.e., the inhibitive effect) include physical damage and biochemical destruction. The stimulative effects of NZVI on certain bacteria are associated with the creation of appropriate living environment, either through providing electron donor (e.g., H{sub 2}) or carbon sources (e.g., the engineered organic surface modifiers), or through eliminating the noxious substances that can cause bactericidal consequence. As a result of the positive interaction, the combination of NZVI and some microbes shows synergistic effect on contaminant removal. Additionally, the aged NZVI can be utilized by some iron-reducing bacteria, resulting in the transformation of Fe(III) to Fe(II), which can further contribute to the contaminant reduction. However, the Fe(III)-reduction process can probably induce environmental risks, such as environmental methylation and remobilization of the previously entrapped heavy metals.

The interactions between nanoscale zero-valent iron and microbes in the subsurface environment: A review

International Nuclear Information System (INIS)

Xie, Yankai; Dong, Haoran; Zeng, Guangming; Tang, Lin; Jiang, Zhao; Zhang, Cong; Deng, Junmin; Zhang, Lihua; Zhang, Yi

2017-01-01

Highlights: • The interactions between various microbes and NZVI were summarized. • The adverse and positive effects of NZVI on the growth of microbes were reviewed. • The synergistic effects of NZVI and bacteria on pollutant removal were reviewed. • The effects of iron-reducing bacteria on the aged NZVI were reviewed. • Future challenges to study the interactions between NZVI and microbes are suggested. - Abstract: Nanoscale zero-valent iron (NZVI) particles, applied for in-situ subsurface remediation, are inevitable to interact with various microbes in the remediation sites directly or indirectly. This review summarizes their interactions, including the effects of NZVI on microbial activity and growth, the synergistic effect of NZVI and microbes on the contaminant removal, and the effects of microbes on the aging of NZVI. NZVI could exert either inhibitive or stimulative effects on the growth of microbes. The mechanisms of NZVI cytotoxicity (i.e., the inhibitive effect) include physical damage and biochemical destruction. The stimulative effects of NZVI on certain bacteria are associated with the creation of appropriate living environment, either through providing electron donor (e.g., H_2) or carbon sources (e.g., the engineered organic surface modifiers), or through eliminating the noxious substances that can cause bactericidal consequence. As a result of the positive interaction, the combination of NZVI and some microbes shows synergistic effect on contaminant removal. Additionally, the aged NZVI can be utilized by some iron-reducing bacteria, resulting in the transformation of Fe(III) to Fe(II), which can further contribute to the contaminant reduction. However, the Fe(III)-reduction process can probably induce environmental risks, such as environmental methylation and remobilization of the previously entrapped heavy metals.

Upscaling the Coupled Water and Heat Transport in the Shallow Subsurface

Science.gov (United States)

Sviercoski, R. F.; Efendiev, Y.; Mohanty, B. P.

2018-02-01

Predicting simultaneous movement of liquid water, water vapor, and heat in the shallow subsurface has many practical interests. The demand for multidimensional multiscale models for this region is important given: (a) the critical role that these processes play in the global water and energy balances, (b) that more data from air-borne and space-borne sensors are becoming available for parameterizations of modeling efforts. On the other hand, numerical models that consider spatial variations of the soil properties, termed here as multiscale, are prohibitively expensive. Thus, there is a need for upscaled models that take into consideration these features, and be computationally affordable. In this paper, a multidimensional multiscale model coupling the water flow and heat transfer and its respective upscaled version are proposed. The formulation is novel as it describes the multidimensional and multiscale tensorial versions of the hydraulic conductivity and the vapor diffusivity, taking into account the tortuosity and porosity properties of the medium. It also includes the coupling with the energy balance equation as a boundary describing atmospheric influences at the shallow subsurface. To demonstrate the accuracy of both models, comparisons were made between simulation and field experiments for soil moisture and temperature at 2, 7, and 12 cm deep, during 11 days. The root-mean-square errors showed that the upscaled version of the system captured the multiscale features with similar accuracy. Given the good matching between simulated and field data for near-surface soil temperature, the results suggest that it can be regarded as a 1-D variable.

Understanding wetland sub-surface hydrology using geologic and isotopic signatures

Directory of Open Access Journals (Sweden)

P. Sahu

2009-07-01

Full Text Available This paper attempts to utilize hydrogeology and isotope composition of groundwater to understand the present hydrological processes prevalent in a freshwater wetland, source of wetland groundwater, surface water/groundwater interaction and mixing of groundwater of various depth zones in the aquifer. This study considers East Calcutta Wetlands (ECW – a freshwater peri-urban inland wetland ecosystem located at the lower part of the deltaic alluvial plain of South Bengal Basin and east of Kolkata city. This wetland is well known over the world for its resource recovery systems, developed by local people through ages, using wastewater of the city. Geological investigations reveal that the sub-surface geology is completely blanketed by the Quaternary sediments comprising a succession of silty clay, sand of various grades and sand mixed with occasional gravels and thin intercalations of silty clay. At few places the top silty clay layer is absent due to scouring action of past channels. In these areas sand is present throughout the geological column and the areas are vulnerable to groundwater pollution. Groundwater mainly flows from east to west and is being over-extracted to the tune of 65×10³ m³/day. δ¹⁸O and δD values of shallow and deep groundwater are similar indicating resemblance in hydrostratigraphy and climate of the recharge areas. Groundwater originates mainly from monsoonal rain with some evaporation prior to or during infiltration and partly from bottom of ponds, canals and infiltration of groundwater withdrawn for irrigation. Relatively high tritium content of the shallow groundwater indicates local recharge, while the deep groundwater with very low tritium is recharged mainly from distant areas. At places the deep aquifer has relatively high tritium, indicating mixing of groundwater of shallow and deep aquifers. Metals such as copper, lead, arsenic, cadmium, aluminium, nickel and chromium are also

Understanding wetland sub-surface hydrology using geologic and isotopic signatures

Science.gov (United States)

Sikdar, P. K.; Sahu, P.

2009-07-01

This paper attempts to utilize hydrogeology and isotope composition of groundwater to understand the present hydrological processes prevalent in a freshwater wetland, source of wetland groundwater, surface water/groundwater interaction and mixing of groundwater of various depth zones in the aquifer. This study considers East Calcutta Wetlands (ECW) - a freshwater peri-urban inland wetland ecosystem located at the lower part of the deltaic alluvial plain of South Bengal Basin and east of Kolkata city. This wetland is well known over the world for its resource recovery systems, developed by local people through ages, using wastewater of the city. Geological investigations reveal that the sub-surface geology is completely blanketed by the Quaternary sediments comprising a succession of silty clay, sand of various grades and sand mixed with occasional gravels and thin intercalations of silty clay. At few places the top silty clay layer is absent due to scouring action of past channels. In these areas sand is present throughout the geological column and the areas are vulnerable to groundwater pollution. Groundwater mainly flows from east to west and is being over-extracted to the tune of 65×103 m3/day. δ18O and δD values of shallow and deep groundwater are similar indicating resemblance in hydrostratigraphy and climate of the recharge areas. Groundwater originates mainly from monsoonal rain with some evaporation prior to or during infiltration and partly from bottom of ponds, canals and infiltration of groundwater withdrawn for irrigation. Relatively high tritium content of the shallow groundwater indicates local recharge, while the deep groundwater with very low tritium is recharged mainly from distant areas. At places the deep aquifer has relatively high tritium, indicating mixing of groundwater of shallow and deep aquifers. Metals such as copper, lead, arsenic, cadmium, aluminium, nickel and chromium are also present in groundwater of various depths. Therefore

Testing the Role of Microbial Ecology, Redox-Mediated Deep Water Production and Hypersalinity on TEX86: Lipids and 16s Sequences from Archaea and Bacteria in the Water Column and Sediments of Orca Basin

Science.gov (United States)

Warren, C.; Romero, I.; Ellis, G.; Goddard, E.; Krishnan, S.; Nigro, L. M.; Super, J. R.; Zhang, Y.; Zhuang, G.; Hollander, D. J.; Pagani, M.

2014-12-01

Mesophilic marine archaea and bacteria are known to substantially contribute to the oceanic microbial biomass and play critical roles in global carbon, nitrogen and nutrient cycles. The Orca Basin, a 2400 meter deep bathymetric depression on the continental slope of the north-central Gulf of Mexico, is an ideal environment to examine how redox-dependent biochemical processes control the input and cycling of bacterial and archaea-derived lipid compounds from formation in near-surface water, through secondary recycling processes operating at the redox-transition in the water column, to sedimentary diagenetic processes operating in oxic to anoxic zones within the basin. The lowermost 180 meters of the Orca Basin is characterized by an anoxic, hypersaline brine that is separated from the overlying oxic seawater by a well-defined redox sequence associated with a systematic increasing in salinity from 35 - 250‰. While surface water conditions are viewed as normal marine with a seasonally productive water column, the sub-oxic to anoxic transition zones within the deep-water column and the sediment spans over 200 m allowing the unique opportunity for discrete sampling of resident organisms and lipids. Here we present 16s rRNA sequence data of Bacteria and Archaea collected parallel to GDGT lipid profiles and in situ environmental measurements from the sediment and overlying water column in the intermediate zone of the basin, where movements of chemical transition zones are preserved. We evaluated GDGTs and corresponding taxa across the surface water, chlorophyll maximum, thermocline, and the deep redox boundary, including oxygenation, denitrification, manganese, iron and sulfate reduction zones, to determine if GDGTs are being produced under these conditions and how surface-derived GDGT lipids and the TEX86 signal may be altered. The results have implications for the application of the TEX86 paleotemperature proxy.

Regional Variation of CH4 and N2 Production Processes in the Deep Aquifers of an Accretionary Prism.

Science.gov (United States)

Matsushita, Makoto; Ishikawa, Shugo; Nagai, Kazushige; Hirata, Yuichiro; Ozawa, Kunio; Mitsunobu, Satoshi; Kimura, Hiroyuki

2016-09-29

Accretionary prisms are mainly composed of ancient marine sediment scraped from the subducting oceanic plate at a convergent plate boundary. Large amounts of anaerobic groundwater and natural gas, mainly methane (CH4) and nitrogen gas (N2), are present in the deep aquifers associated with an accretionary prism; however, the origins of these gases are poorly understood. We herein revealed regional variations in CH4 and N2 production processes in deep aquifers in the accretionary prism in Southwest Japan, known as the Shimanto Belt. Stable carbon isotopic and microbiological analyses suggested that CH4 is produced through the non-biological thermal decomposition of organic matter in the deep aquifers in the coastal area near the convergent plate boundary, whereas a syntrophic consortium of hydrogen (H2)-producing fermentative bacteria and H2-utilizing methanogens contributes to the significant production of CH4 observed in deep aquifers in midland and mountainous areas associated with the accretionary prism. Our results also demonstrated that N2 production through the anaerobic oxidation of organic matter by denitrifying bacteria is particularly prevalent in deep aquifers in mountainous areas in which groundwater is affected by rainfall.

Spectroscopic detection of a ubiquitous dissolved pigment degradation product in subsurface waters of the global ocean

Directory of Open Access Journals (Sweden)

R. Röttgers

2012-07-01

Full Text Available Measurements of light absorption by chromophoric dissolved organic matter (CDOM from subsurface waters of the tropical Atlantic and Pacific Oceans showed a distinct absorption shoulder at 410–415 nm. This indicates an underlying absorption of a pigment whose occurrence is partly correlated with the apparent oxygen utilization (AOU but also found in the deep chlorophyll maximum. A similar absorption maximum at ~415 nm was also found in the particulate fraction of samples taken below the surface mixing layer and is usually attributed to absorption by respiratory pigments of heterotrophic unicellular organisms. In our study, fluorescence measurements of pre-concentrated dissolved organic matter (DOM samples from 200–6000 m confirmed a previous study suggesting that the absorption at ~415 nm was related to fluorescence at 650 nm in the oxygen minimum zone. The absorption characteristics of this fluorophore was examined by fluorescence emission/excitation analysis and showed a clear excitation maximum at 415 nm that could be linked to the absorption shoulder in the CDOM spectra. The spectral characteristics of the substance found in the dissolved and particulate fraction did not match with those of chlorophyll a degradation products (as found in a sample from the sea surface but can be explained by the occurrence of porphyrin pigments from either heterotrophs or autotrophs. Combining the observations of the fluorescence and the 415-nm absorption shoulder suggests that there are high concentrations of a pigment degradation product in subsurface DOM of all major oceans. Most pronouncedly we found this signal in the deep chlorophyll maximum and the oxygen minimum zone of tropical regions. The origin, chemical nature, turnover rate, and fate of this molecule is so far unknown.

Subsurface multidisciplinary research results at ICTJA-CSIC downhole lab and test site

Science.gov (United States)

Jurado, Maria Jose; Crespo, Jose; Salvany, Josep Maria; Teixidó, Teresa

2017-04-01

Two scientific boreholes, Almera-1 and Almera-2 were drilled in the Barcelona University campus area in 2011. The main purpose for this drilling was to create a new geophysical logging and downhole monitoring research facility and infrastructure. We present results obtained in the frame of multidisciplinary studies and experiments carried out since 2011 at the ICTJA "Borehole Geophysical Logging Lab - Scientific Boreholes Almera" downhole lab facilities. First results obtained from the scientific drilling, coring and logging allowed us to characterize the urban subsurface geology and hydrology adjacent to the Institute of Earth Sciences Jaume Almera (ICTJA-CSIC) in Barcelona. The subsurface geology and structural picture has been completed with recent geophysical studies and monitoring results. The upper section of Almera-1 214m deep hole was cased with PVC after drilling and after the logging operations. An open hole interval was left from 112m to TD (Paleozoic section). Almera-2 drilling reached 46m and was cased also with PVC to 44m. Since completion of the drilling in 2011, both Almera-1 and Almera-2 have been extensively used for research purposes, tests, training, hydrological and geophysical monitoring. A complete set of geophysical logging measurements and borehole oriented images were acquired in open hole mode of the entire Almera-1 section. Open hole measurements included acoustic and optical imaging, spectral natural gamma ray, full wave acoustic logging, magnetic susceptibility, hydrochemical-temperature logs and fluid sampling. Through casing (PVC casing) measurements included spectral gamma ray logging, full wave sonic and acoustic televiewer. A Quaternary to Paleozoic section was characterized based on the geophysical logging and borehole images interpretation and also on the complete set of (wireline) cores of the entire section. Sample availability was intended for geological macro and micro-facies detailed characterization, mineralogical and

Using NMR decay-time measurements to monitor and characterize DNAPL and moisture in subsurface porous media

International Nuclear Information System (INIS)

Timothy A. White; Russel C. Hertzog; Christian Straley

2007-01-01

Knowing how environmental properties affect dense nonaqueous phase liquid (DNAPL) solvent flow in the subsurface is essential for developing models of flow and transport in the vadose zone necessary for designing remediation and long-term stewardship strategies. For example, one must know if solvents are flowing in water-wetted or solvent-wetted environments, the pore-size distribution of the region containing DNAPLs, and the impact of contaminated plumes and their transport mechanisms in porous media. Our research investigates the capability and limitations of low-field proton nuclear magnetic resonance (NMR) relaxation decay-rate measurements for determining environmental properties affecting DNAPL solvent flow in the subsurface. The measurements that can be performed with the laboratory low-field system can also be performed in situ in the field with the current generation of commercial borehole logging tools. The oil and gas industry uses NMR measurements in deep subsurface, consolidated formations to determine porosity and hydrocarbon content and to estimate formation permeability. These determinations rely on the ability of NMR to distinguish between water and hydrocarbons in the pore space and to obtain the distribution of pore sizes from relaxation decay-rate distributions. In this paper we will show how NMR measurement techniques can be used to characterize, monitor, and evaluate the dynamics of mixed-fluids (water-DNAPL) in unconsolidated near-surface porous environments and describe the use of proton NMR T2 (spin-spin relaxation time) measurements in unconsolidated sandy-soil samples to identify and characterize the presence of DNAPLs in these environments. The potential of NMR decay-rate distributions for characterizing DNAPL fluids in the subsurface and understanding their flow mechanisms has not previously been exploited; however, near-surface unsaturated vadose zone environments do provide unique challenges for using NMR measurements. These

Characterizing Microbial Diversity and Function in Natural Subsurface CO2 Reservoir Systems for Applied Use in Geologic Carbon Sequestration Environments

Science.gov (United States)

Freedman, A.; Thompson, J. R.

2013-12-01

community analysis to test the hypothesis that a low but non-zero diversity that includes taxa from other subsurface environments will be present, reflecting the extreme ecological selective pressures of scCO2. A wide range of phylogenies have been identified, including genera that fall within the Proteobacteria, Bacilli, and Clostridial classes. Several species identified by 16S BLAST best hits are also known to inhabit deep subsurface environments, preliminarily confirming that a non-zero diversity has been able to survive, and possibly thrive, in the extreme scCO2-exposed deep subsurface environment at McElmo Dome. It thus appears that at least a subsection of native subsurface community biota may withstand the severe stresses associated with the injection of scCO2 for long-term geologic carbon sequestration efforts.

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

Science.gov (United States)

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

Heating systems for heating subsurface formations

Science.gov (United States)

Nguyen, Scott Vinh [Houston, TX; Vinegar, Harold J [Bellaire, TX

2011-04-26

Methods and systems for heating a subsurface formation are described herein. A heating system for a subsurface formation includes a sealed conduit positioned in an opening in the formation and a heat source. The sealed conduit includes a heat transfer fluid. The heat source provides heat to a portion of the sealed conduit to change phase of the heat transfer fluid from a liquid to a vapor. The vapor in the sealed conduit rises in the sealed conduit, condenses to transfer heat to the formation and returns to the conduit portion as a liquid.

Robotic and Human-Tended Collaborative Drilling Automation for Subsurface Exploration

Science.gov (United States)

Glass, Brian; Cannon, Howard; Stoker, Carol; Davis, Kiel

2005-01-01

Future in-situ lunar/martian resource utilization and characterization, as well as the scientific search for life on Mars, will require access to the subsurface and hence drilling. Drilling on Earth is hard - an art form more than an engineering discipline. Human operators listen and feel drill string vibrations coming from kilometers underground. Abundant mass and energy make it possible for terrestrial drilling to employ brute-force approaches to failure recovery and system performance issues. Space drilling will require intelligent and autonomous systems for robotic exploration and to support human exploration. Eventual in-situ resource utilization will require deep drilling with probable human-tended operation of large-bore drills, but initial lunar subsurface exploration and near-term ISRU will be accomplished with lightweight, rover-deployable or standalone drills capable of penetrating a few tens of meters in depth. These lightweight exploration drills have a direct counterpart in terrestrial prospecting and ore-body location, and will be designed to operate either human-tended or automated. NASA and industry now are acquiring experience in developing and building low-mass automated planetary prototype drills to design and build a pre-flight lunar prototype targeted for 2011-12 flight opportunities. A successful system will include development of drilling hardware, and automated control software to operate it safely and effectively. This includes control of the drilling hardware, state estimation of both the hardware and the lithography being drilled and state of the hole, and potentially planning and scheduling software suitable for uncertain situations such as drilling. Given that Humans on the Moon or Mars are unlikely to be able to spend protracted EVA periods at a drill site, both human-tended and robotic access to planetary subsurfaces will require some degree of standalone, autonomous drilling capability. Human-robotic coordination will be important

Examining Changes in Radioxenon Isotope Activity Ratios during Subsurface Transport

Science.gov (United States)

Annewandter, R.

2013-12-01

The Non-Proliferation Experiment (NPE) has demonstrated and modelled the usefulness of barometric pumping induced soil gas sampling during On-Site inspections. Gas transport has been widely studied with different numerical codes. However, gas transport of all radioxenons in the post-detonation regime and their possible fractionation is still neglected in the open literature. Atmospheric concentrations of the radioxenons Xe-135, Xe-133m, Xe-133 and Xe-131m can be used to discriminate between civilian releases (nuclear power plants or medical isotope facilities), and nuclear explosion sources. It is based on the isotopic activity ratio method. Yet it is not clear whether subsurface migration of the radioxenons, with eventual release into the atmosphere, can affect the activity ratios due to fractionation. Fractionation can be caused by different diffusivities due to mass differences between the radioxenons. A previous study showed surface arrival time of a chemically inert gaseous tracer is affected by its diffusivity. They observed detectable amount for SF6 50 days after detonation and 375 days for He-3. They predict 50 and 80 days for Xe-133 and Ar-37 respectively. Cyclical changes in atmospheric pressure can drive subsurface gas transport. This barometric pumping phenomenon causes an oscillatoric flow in upward trending fractures which, combined with diffusion into the porous matrix, leads to a net transport of gaseous components - a ratcheting effect. We use a general purpose reservoir simulator (Complex System Modelling Platform, CSMP++) which has been applied in a range of fields such as deep geothermal systems, three-phase black oil simulations , fracture propagation in fractured, porous media, Navier-Stokes pore-scale modelling among others. It is specifically designed to account for structurally complex geologic situation of fractured, porous media. Parabolic differential equations are solved by a continuous Galerkin finite-element method, hyperbolic

Distribution of baroduric, psychrotrophic and culturable nitrifying and denitrifying bacteria in the Central Indian Basin

Digital Repository Service at National Institute of Oceanography (India)

LokaBharathi, P.A.; PradeepRam, A.S.; Nair, S.; Nath, B.N.; Chandramohan, D.

The abundance of baroduric, culturable nitrifying and denitrifying bacteria in the deep-sea cores of Central Indian Basin (CIB) at ca 5000 m depth was investigated. Analysis of 8 cores, sampled between 10 degrees 00 minutes S and 75 degrees 55...

Subsurface Contaminants Focus Area annual report 1997

International Nuclear Information System (INIS)

1997-01-01

In support of its vision for technological excellence, the Subsurface Contaminants Focus Area (SCFA) has identified three strategic goals. The three goals of the SCFA are: Contain and/or stabilize contamination sources that pose an imminent threat to surface and ground waters; Delineate DNAPL contamination in the subsurface and remediate DNAPL-contaminated soils and ground water; and Remove a full range of metal and radionuclide contamination in soils and ground water. To meet the challenges of remediating subsurface contaminants in soils and ground water, SCFA funded more than 40 technologies in fiscal year 1997. These technologies are grouped according to the following product lines: Dense Nonaqueous-Phase Liquids; Metals and Radionuclides; Source Term Containment; and Source Term Remediation. This report briefly describes the SCFA 1997 technologies and showcases a few key technologies in each product line

Complete Subsurface Elemental Composition Measurements With PING

Science.gov (United States)

Parsons, A. M.

2012-01-01

The Probing In situ with Neutrons and Gamma rays (PING) instrument will measure the complete bulk elemental composition of the subsurface of Mars as well as any other solid planetary body. PING can thus be a highly effective tool for both detailed local geochemistry science investigations and precision measurements of Mars subsurface reSOurces in preparation for future human exploration. As such, PING is thus fully capable of meeting a majority of both ncar and far term elements in Challenge #1 presented for this conference. Measuring the ncar subsurface composition of Mars will enable many of the MEPAG science goals and will be key to filling an important Strategic Knowledge Gap with regard to In situ Resources Utilization (ISRU) needs for human exploration. [1, 2] PING will thus fill an important niche in the Mars Exploration Program.

The deep Canary poleward undercurrent

Science.gov (United States)

Velez-Belchi, P. J.; Hernandez-Guerra, A.; González-Pola, C.; Fraile, E.; Collins, C. A.; Machín, F.

2012-12-01

Poleward undercurrents are well known features in Eastern Boundary systems. In the California upwelling system (CalCEBS), the deep poleward flow has been observed along the entire outer continental shelf and upper-slope, using indirect methods based on geostrophic estimates and also using direct current measurements. The importance of the poleward undercurrents in the CalCEBS, among others, is to maintain its high productivity by means of the transport of equatorial Pacific waters all the way northward to Vancouver Island and the subpolar gyre but there is also concern about the low oxygen concentration of these waters. However, in the case of the Canary Current Eastern Boundary upwelling system (CanCEBS), there are very few observations of the poleward undercurrent. Most of these observations are short-term mooring records, or drifter trajectories of the upper-slope flow. Hence, the importance of the subsurface poleward flow in the CanCEBS has been only hypothesized. Moreover, due to the large differences between the shape of the coastline and topography between the California and the Canary Current system, the results obtained for the CalCEBS are not completely applicable to the CanCEBS. In this study we report the first direct observations of the continuity of the deep poleward flow of the Canary Deep Poleward undercurrent (CdPU) in the North-Africa sector of the CanCEBS, and one of the few direct observations in the North-Africa sector of the Canary Current eastern boundary. The results indicate that the Canary Island archipelago disrupts the deep poleward undercurrent even at depths where the flow is not blocked by the bathymetry. The deep poleward undercurrent flows west around the eastern-most islands and north east of the Conception Bank to rejoin the intermittent branch that follows the African slope in the Lanzarote Passage. This hypothesis is consistent with the AAIW found west of Lanzarote, as far as 17 W. But also, this hypothesis would be coherent

Translucent Radiosity: Efficiently Combining Diffuse Inter-Reflection and Subsurface Scattering.

Science.gov (United States)

Sheng, Yu; Shi, Yulong; Wang, Lili; Narasimhan, Srinivasa G

2014-07-01

It is hard to efficiently model the light transport in scenes with translucent objects for interactive applications. The inter-reflection between objects and their environments and the subsurface scattering through the materials intertwine to produce visual effects like color bleeding, light glows, and soft shading. Monte-Carlo based approaches have demonstrated impressive results but are computationally expensive, and faster approaches model either only inter-reflection or only subsurface scattering. In this paper, we present a simple analytic model that combines diffuse inter-reflection and isotropic subsurface scattering. Our approach extends the classical work in radiosity by including a subsurface scattering matrix that operates in conjunction with the traditional form factor matrix. This subsurface scattering matrix can be constructed using analytic, measurement-based or simulation-based models and can capture both homogeneous and heterogeneous translucencies. Using a fast iterative solution to radiosity, we demonstrate scene relighting and dynamically varying object translucencies at near interactive rates.

Rock weathering by indigenous heterotrophic bacteria of Bacillus spp. at different temperature: a laboratory experiment

Science.gov (United States)

Štyriaková, I.; Štyriak, I.; Oberhänsli, H.

2012-07-01

The bio-weathering of basalt, granite and gneiss was experimentally investigated in this study. These rock-forming minerals weathered more rapidly via the ubiquitous psychrotrophic heterotrophic bacteria . With indigenous bacteria of Bacillus spp. from sediments of Lake Baikal, we traced the degradation process of silicate minerals to understand the weathering processes occurring at the change temperature in the subsurface environment with organic input. The bacteria mediated dissolution of minerals was monitored with solution and solid chemistry, X-ray analyses as well as microscopic techniques. We determined the impact of the bacteria on the mineral surface and leaching of K, Ca, Mg, Si, Fe, and Al from silicate minerals. In the samples the release of major structural elements of silicates was used as an overall indicator of silicate mineral degradation at 4°C and 18°C from five medium exchanges over 255 days of rock bioleaching. The increase of temperature importantly affected the efficiency of Fe extraction from granite and basalt as well as Si extraction from granite and gneiss. In comparison with elemental extraction order at 4°C, Ca was substituted first by Fe or Si. It is evident that temperature influences rock microbial weathering and results in a change of elements extraction.

Controlling Subsurface Fractures and Fluid Flow: A Basic Research Agenda

Energy Technology Data Exchange (ETDEWEB)

Pyrak-Nolte, Laura J [Purdue Univ., West Lafayette, IN (United States); DePaolo, Donald J. [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Univ. of California, Berkeley, CA (United States); Pietraß, Tanja [USDOE Office of Science, Washington, DC (United States)

2015-05-22

From beneath the surface of the earth, we currently obtain about 80-percent of the energy our nation consumes each year. In the future we have the potential to generate billions of watts of electrical power from clean, green, geothermal energy sources. Our planet’s subsurface can also serve as a reservoir for storing energy produced from intermittent sources such as wind and solar, and it could provide safe, long-term storage of excess carbon dioxide, energy waste products and other hazardous materials. However, it is impossible to underestimate the complexities of the subsurface world. These complexities challenge our ability to acquire the scientific knowledge needed for the efficient and safe exploitation of its resources. To more effectively harness subsurface resources while mitigating the impacts of developing and using these resources, the U.S. Department of Energy established SubTER – the Subsurface Technology and Engineering RD&D Crosscut team. This DOE multi-office team engaged scientists and engineers from the national laboratories to assess and make recommendations for improving energy-related subsurface engineering. The SubTER team produced a plan with the overall objective of “adaptive control of subsurface fractures and fluid flow.”This plan revolved around four core technological pillars—Intelligent Wellbore Systems that sustain the integrity of the wellbore environment; Subsurface Stress and Induced Seismicity programs that guide and optimize sustainable energy strategies while reducing the risks associated with subsurface injections; Permeability Manipulation studies that improve methods of enhancing, impeding and eliminating fluid flow; and New Subsurface Signals that transform our ability to see into and characterize subsurface systems. The SubTER team developed an extensive R&D plan for advancing technologies within these four core pillars and also identified several areas where new technologies would require additional basic research

Phylogeny and phylogeography of functional genes shared among seven terrestrial subsurface metagenomes reveal N-cycling and microbial evolutionary relationships

Directory of Open Access Journals (Sweden)

Maggie CY Lau

2014-10-01

Full Text Available Comparative studies on community phylogenetics and phylogeography of microorganisms living in extreme environments are rare. Terrestrial subsurface habitats are valuable for studying microbial biogeographical patterns due to their isolation and the restricted dispersal mechanisms. Since the taxonomic identity of a microorganism does not always correspond well with its functional role in a particular community, the use of taxonomic assignments or patterns may give limited inference on how microbial functions are affected by historical, geographical and environmental factors. With seven metagenomic libraries generated from fracture water samples collected from five South African mines, this study was carried out to (1 screen for ubiquitous functions or pathways of biogeochemical cycling of CH4, S and N; (2 to characterize the biodiversity represented by the common functional genes; (3 to investigate the subsurface biogeography as revealed by this subset of genes; and (4 to explore the possibility of using metagenomic data for evolutionary study. The ubiquitous functional genes are NarV, NPD, PAP reductase, NifH, NifD, NifK, NifE and NifN genes. Although these 8 common functional genes were taxonomically and phylogenetically diverse and distinct from each other, the dissimilarity between samples did not correlate strongly with either geographical, environmental or residence time of the water. Por genes homologous to those of Thermodesulfovibrio yellowstonii detected in all metagenomes were deep lineages of Nitrospirae, suggesting that subsurface habitats have preserved ancestral genetic signatures that inform the study of the origin and evolution of prokaryotes.

The Effect of Different Subsurface Drainage Systems on Improvement of Water Flow in Paddy fields

Directory of Open Access Journals (Sweden)

ghassem aghajani mazandarani

2017-03-01

Full Text Available Introduction: Better use of water and soil resources in paddy fields, increase in rice production and farmer's income, installation of subsurface drainage system is necessary. The main goalof these systems, are aeration conditions improvement prevention of water logging, yield increase, land use increase and multiuse of the land. In different countries, installation of subsurface drainage cause yield increase and working condition on the land, but no research has been conducted in different depths and spacing. On the other hand, spacing and depth are the most important parameters in the installation of drainage systems, have a direct effect on incoming water into the drains. The aim of this research, is an investigation of the effect of subsurface drainage with different depths and spacing on discharge rate variation and water table fall, in order to analyze the improvement of water flow movement in the soil. Also, study the effect of different drainage systems on the increase of the canola yield as the second cultivation in these treatments have been compared. Materials and Methods: To measure hydraulic conductivity in different depths, the auger holes have been dug (excavated. The saturated hydraulic conductivity in these holes wasdetermined using Ernst method (1950 before installation of drainage systems. In the drainage pilot plot of Sari Agricultural Sciences and Natural Resources University three subsurface drainage systems with mineral envelope have been installed. 1- The first one with the 0.9 m depth and 30 m spacing (D90 L30, 2- The second one with 0.65 m depth and 15 m spacing (D0.65 L15 and 3- The third one with 0.65 m depth and spacing (D0.65 L30 and one bi-level system with mineral envelope including four drains of 15 m spacing with 0.9 m and 0.65 m depths were installed alternatively. After auger hole equipment installations, in the middle spacing of two subsurface and water table reading possible, the water table fluctuation and

Diversity and activity of methanotrophic related bacteria in subsurface sediments of the Krishna-Godavari Basin, India

Digital Repository Service at National Institute of Oceanography (India)

Sujith, P.P.; Sheba, M.; Gonsalves, M.J.B.D.

system (Bio-Rad, USA). DNA sequencing and phylogenetic analysis: The ampli- fied PCR products were purified prior to sequencing according to the manufacturer’s guidelines, using the GenEluteTM PCR Cleanup Kit (Sigma, USA). The puri- fied PCR... at the interface between the reduced zones of the environment6 in the marine sediments7, where methane production and oxidation may take place. These bacteria can be obligate or facultative methano- trophs8. Based on their physiology and phylogeny...

Characterization of specimens obtained by different sampling methods for evaluation of periodontal bacteria.

Science.gov (United States)

Okada, Ayako; Sogabe, Kaoru; Takeuchi, Hiroaki; Okamoto, Masaaki; Nomura, Yoshiaki; Hanada, Nobuhiro

2017-12-27

Quantitative analysis of periodontal bacteria is considered useful for clinical diagnosis, evaluation and assessment of the risk of periodontal disease. The purpose of this study was to compare the effectiveness of sampling of saliva, supragingival and subgingival plaque for evaluation of periodontal bacteria. From each of 12 subjects, i) subgingival plaque was collected from the deepest pocket using a sterile paper point, ii) stimulated whole saliva was collected after chewing gum, and iii) supragingival plaque was collected using a tooth brush. These samples were sent to the medical examination laboratory for quantitative analysis of the counts of three periodontal bacterial species: Porphyromonas gingivalis, Treponema denticola, and Tannerella forsythia. The proportions of these bacteria in subgingival plaque were higher than those in saliva or supragingival plaque, but lower in subgingival plaque than in saliva or supragingival plaque. In several cases, periodontal bacteria were below the levels of detection in subgingival plaque. We concluded that samples taken from subgingival plaque may be more useful for evaluating the proportion of periodontal bacteria in deep pockets than is the case for other samples. Therefore, for evaluation of periodontal bacteria, clinicians should consider the characteristics of the specimens obtained using different sampling methods.

Occurrence and importance of anaerobic ammonium-oxidising bacteria in vegetable soils.

Science.gov (United States)

Shen, Li-dong; Wu, Hong-sheng; Gao, Zhi-qiu; Xu, Xiang-hua; Chen, Tie-xi; Liu, Shuai; Cheng, Hai-xiang

2015-07-01

The quantitative importance of anaerobic ammonium oxidation (anammox) has been described in paddy fields, while the presence and importance of anammox in subsurface soil from vegetable fields have not been determined yet. Here, we investigated the occurrence and activity of anammox bacteria in five different types of vegetable fields located in Jiangsu Province, China. Stable isotope experiments confirmed the anammox activity in the examined soils, with the potential rates of 2.1 and 23.2 nmol N2 g(-1) dry soil day(-1), and the anammox accounted for 5.9-20.5% of total soil dinitrogen gas production. It is estimated that a total loss of 7.1-78.2 g N m(-2) year(-1) could be linked to the anammox process in the examined vegetable fields. Phylogenetic analyses showed that multiple co-occurring anammox genera were present in the examined soils, including Candidatus Brocadia, Candidatus Kuenenia, Candidatus Anammoxoglobus and Candidatus Jettenia, and Candidatus Brocadia appeared to be the most common anammox genus. Quantitative PCR further confirmed the presence of anammox bacteria in the examined soils, with the abundance varying from 2.8 × 10(5) to 3.0 × 10(6) copies g(-1) dry soil. Correlation analyses suggested that the soil ammonium concentration had significant influence on the activity and abundance of anammox bacteria in the examined soils. The results of our study showed the presence of diverse anammox bacteria and indicated that the anammox process could serve as an important nitrogen loss pathway in vegetable fields.

Subsurface event detection and classification using Wireless Signal Networks.

Science.gov (United States)

Yoon, Suk-Un; Ghazanfari, Ehsan; Cheng, Liang; Pamukcu, Sibel; Suleiman, Muhannad T

2012-11-05

Subsurface environment sensing and monitoring applications such as detection of water intrusion or a landslide, which could significantly change the physical properties of the host soil, can be accomplished using a novel concept, Wireless Signal Networks (WSiNs). The wireless signal networks take advantage of the variations of radio signal strength on the distributed underground sensor nodes of WSiNs to monitor and characterize the sensed area. To characterize subsurface environments for event detection and classification, this paper provides a detailed list and experimental data of soil properties on how radio propagation is affected by soil properties in subsurface communication environments. Experiments demonstrated that calibrated wireless signal strength variations can be used as indicators to sense changes in the subsurface environment. The concept of WSiNs for the subsurface event detection is evaluated with applications such as detection of water intrusion, relative density change, and relative motion using actual underground sensor nodes. To classify geo-events using the measured signal strength as a main indicator of geo-events, we propose a window-based minimum distance classifier based on Bayesian decision theory. The window-based classifier for wireless signal networks has two steps: event detection and event classification. With the event detection, the window-based classifier classifies geo-events on the event occurring regions that are called a classification window. The proposed window-based classification method is evaluated with a water leakage experiment in which the data has been measured in laboratory experiments. In these experiments, the proposed detection and classification method based on wireless signal network can detect and classify subsurface events.

Diversity of Micromonospora strains from the deep Mediterranean Sea and their potential to produce bioactive compounds

Directory of Open Access Journals (Sweden)

Andrea Gärtner

2016-06-01

Full Text Available During studies on bacteria from the Eastern Mediterranean deep-sea, incubation under in situ conditions (salinity, temperature and pressure and heat treatment were used to selectively enrich representatives of Micromonospora. From sediments of the Ierapetra Basin (4400 m depth and the Herodotos Plain (2800 m depth, 21 isolates were identified as members of the genus Micromonospora. According to phylogenetic analysis of 16S rRNA gene sequences, the Micromonospora isolates could be assigned to 14 different phylotypes with an exclusion limit of ≥ 99.5% sequence similarity. They formed 7 phylogenetic clusters. Two of these clusters, which contain isolates obtained after enrichment under pressure incubation and phylogenetically are distinct from representative reference organism, could represent bacteria specifically adapted to the conditions in situ and to life in these deep-sea sediments. The majority of the Micromonospora isolates (90% contained at least one gene cluster for biosynthesis of secondary metabolites for non-ribosomal polypeptides and polyketides (polyketide synthases type I and type II. The determination of biological activities of culture extracts revealed that almost half of the strains produced substances inhibitory to the growth of Gram-positive bacteria. Chemical analyses of culture extracts demonstrated the presence of different metabolite profiles also in closely related strains. Therefore, deep-sea Micromonospora isolates are considered to have a large potential for the production of new antibiotic compounds.

Nitrogen isotope ratios in surface and sub-surface soil horizons

International Nuclear Information System (INIS)

Rennie, D.A.; Paul, E.A.

1975-01-01

Nitrogen isotope analysis of surface soils and soil-derived nitrate for selected chernozemic and luvisolic soils showed mean delta 15 N values of 11.7 and 11.3, respectively. Isotope enrichment of the total N reached a maximum in the lower B horizon. Sub-soil parent material samples from the one deep profile included in the study indicated a delta 15 N value (NO 3 -N) of 1/3 that of the Ap horizon, at a depth of 180 cm. The delta 15 N of sub-surface soil horizons containing residual fertilizer N were low (-2.2) compared to the surface horizon (9.9). The data reported from this preliminary survey suggest that the natural variations in 15 N abundance between different soils and horizons of the same soil reflect the cumulative effects of soil genesis and soil management. More detailed knowledge and understanding of biological and other processes which control N isotope concentrations in these soils must be obtained before the data reported can be interpreted. (author)

The Mojave Subsurface Bio-Geochemistry Explorer (MOSBE)

Science.gov (United States)

Guerrero, J.; Beegle, L.; Abbey, W.; Bhartia, R.; Kounaves, S.; Russell, M.; Towles, D.

2012-01-01

The MOSBE Team has developed a terrestrial field campaign to explore two subsurface biological habitats under the Mojave Desert. This field campaign will not only help us understand terrestrial desert biology, but also will develop methodologies and strategies for potential future Mars missions that would seek to explore the Martian subsurface. We have proposed to the ASTEP program to integrate a suite of field demonstrated instruments with a 20 m subsurface drill as a coherent unit, the Mojave Subsurface Bio-geochemistry Explorer. The ATK Space Modular Planetary Drill System (MPDS) requires no drilling fluid, which allows aseptic sampling, can penetrate lithic ground up to 20 meters of depth, and utilizes less than 100 Watts throughout the entire depth. The drill has been developed and demonstrated in field testing to a depth of 10 meters in Arizona, December 2002. In addition to caching a continuous core throughout the drilling depth, it also generates and caches cuttings and fines that are strata-graphically correlated with the core. As a core segment is brought to the surface, it will be analyzed for texture and structure by a color microscopic imager and for relevant chemistry and mineralogy with a UV fluorescence/Raman spectrometer. Organic and soluble ionic species will be identified through two instruments -- a microcapillary electrophoresis, and an ion trap mass spectrometer that have been developed under PIDDP, ASTID and MIDP funding.

Time-Distance Analysis of Deep Solar Convection

Science.gov (United States)

Duvall, T. L., Jr.; Hanasoge, S. M.

2011-01-01

Recently it was shown by Hanasoge, Duvall, and DeRosa (2010) that the upper limit to convective flows for spherical harmonic degrees ldeep-focusing Lime-distance technique used to develop the upper limit was applied to linear acoustic simulations of a solar interior perturbed by convective flows in order to calibrate the technique. This technique has been applied to other depths in the convection zone and the results will be presented. The deep-focusing technique has considerable sensitivity to the flow ' signals at the desired subsurface location ' However, as shown by Birch {ref}, there is remaining much sensitivity to near-surface signals. Modifications to the technique using multiple bounce signals have been examined in a search for a more refined sensitivity, or kernel function. Initial results are encouraging and results will be presented'

Geophysical characterization of subsurface barriers

International Nuclear Information System (INIS)

Borns, D.J.

1995-08-01

An option for controlling contaminant migration from plumes and buried waste sites is to construct a subsurface barrier of a low-permeability material. The successful application of subsurface barriers requires processes to verify the emplacement and effectiveness of barrier and to monitor the performance of a barrier after emplacement. Non destructive and remote sensing techniques, such as geophysical methods, are possible technologies to address these needs. The changes in mechanical, hydrologic and chemical properties associated with the emplacement of an engineered barrier will affect geophysical properties such a seismic velocity, electrical conductivity, and dielectric constant. Also, the barrier, once emplaced and interacting with the in situ geologic system, may affect the paths along which electrical current flows in the subsurface. These changes in properties and processes facilitate the detection and monitoring of the barrier. The approaches to characterizing and monitoring engineered barriers can be divided between (1) methods that directly image the barrier using the contrasts in physical properties between the barrier and the host soil or rock and (2) methods that reflect flow processes around or through the barrier. For example, seismic methods that delineate the changes in density and stiffness associated with the barrier represents a direct imaging method. Electrical self potential methods and flow probes based on heat flow methods represent techniques that can delineate the flow path or flow processes around and through a barrier

Final Technical Report: Viral Infection of Subsurface Microorganisms and Metal/Radionuclide Transport

Energy Technology Data Exchange (ETDEWEB)

Weber, Karrie A.; Bender, Kelly S.; Li, Yusong

2013-09-28

Microbially mediated metabolisms have been identified as a significant factor either directly or indirectly impacting the fate and transport of heavy metal/radionuclide contaminants. To date microorganisms have been isolated from contaminated environments. Examination of annotated finished genome sequences of many of these subsurface isolates from DOE sites, revealed evidence of prior viral infection. To date the role that viruses play influencing microbial mortality and the resulting community structure which directly influences biogeochemical cycling in soils and sedimentary environments remains poorly understood. The objective of this exploratory study was to investigate the role of viral infection of subsurface bacteria and the formation of contaminant-bearing viral particles. This objective was approached by examining the following working hypotheses: (i) subsurface microorganisms are susceptible to viral infections by the indigenous subsurface viral community, and (ii) viral surfaces will adsorb heavy metals and radionuclides. Our results have addressed basic research needed to accomplish the BER Long Term Measure to provide sufficient scientific understanding such that DOE sites would be able to incorporate coupled physical, chemical and biological processes into decision making for environmental remediation or natural attenuation and long-term stewardship by establishing viral-microbial relationships on the subsequent fate and transport of heavy metals and radionuclides. Here we demonstrated that viruses play a significant role in microbial mortality and community structure in terrestrial subsurface sedimentary systems. The production of viral-like particles within subsurface sediments in response to biostimulation with dissolved organic carbon and a terminal electron acceptor resulted in the production of viral-like particles. Organic carbon alone did not result in significant viral production and required the addition of a terminal electron acceptor

Geosystem services:A concept in support of sustainable development of the subsurface

NARCIS (Netherlands)

van Ree, C.C.D.F.; van Beukering, P.J.H.

2016-01-01

Because functions of the subsurface are hidden from view, its important role in society is often taken for granted. Underground use in cities and subsurface resource extraction rapidly increase. Ensuring sustainability of the subsurface role requires balancing between exploitation and conservation,

Microbial corrosion of metallic materials in a deep nuclear-waste repository

Directory of Open Access Journals (Sweden)

Stoulil J.

2016-06-01

Full Text Available The study summarises current knowledge on microbial corrosion in a deep nuclear-waste repository. The first part evaluates the general impact of microbial activity on corrosion mechanisms. Especially, the impact of microbial metabolism on the environment and the impact of biofilms on the surface of structure materials were evaluated. The next part focuses on microbial corrosion in a deep nuclear-waste repository. The study aims to suggest the development of the repository environment and in that respect the viability of bacteria, depending on the probable conditions of the environment, such as humidity of bentonite, pressure in compact bentonite, the impact of ionizing radiation, etc. The last part is aimed at possible techniques for microbial corrosion mechanism monitoring in the conditions of a deep repository. Namely, electrochemical and microscopic techniques were discussed.

Considerations in the development of subsurface containment barrier performance standards

International Nuclear Information System (INIS)

Dunstan, S.; Zdinak, A.P.; Lodman, D.

1997-01-01

The U.S. Department of Energy (DOE) is supporting subsurface barriers as an alternative remedial option for management of contamination problems at their facilities. Past cleanup initiatives have sometimes proven ineffective or extremely expensive. Economic considerations coupled with changing public and regulatory philosophies regarding remediation techniques makes subsurface barriers a promising technology for future cleanup efforts. As part of the initiative to develop subsurface containment barriers as an alternative remedial option, DOE funded MSE Technology Applications, Inc. (MSE) to conduct a comprehensive review to identify performance considerations for the acceptability of subsurface barrier technologies as a containment method. Findings from this evaluation were intended to provide a basis for selection and application of containment technologies to address waste problems at DOE sites. Based on this study, the development of performance standards should consider: (1) sustainable low hydraulic conductivity; (2) capability to meet applicable regulations; (3) compatibility with subsurface environmental conditions; (4) durability and long-term stability; (5) repairability; and (6) verification and monitoring. This paper describes the approach for determining considerations for performance standards

Peeking Beneath the Caldera: Communicating Subsurface Knowledge of Newberry Volcano

Science.gov (United States)

Mark-Moser, M.; Rose, K.; Schultz, J.; Cameron, E.

2016-12-01

"Imaging the Subsurface: Enhanced Geothermal Systems and Exploring Beneath Newberry Volcano" is an interactive website that presents a three-dimensional subsurface model of Newberry Volcano developed at National Energy Technology Laboratory (NETL). Created using the Story Maps application by ArcGIS Online, this format's dynamic capabilities provide the user the opportunity for multimedia engagement with the datasets and information used to build the subsurface model. This website allows for an interactive experience that the user dictates, including interactive maps, instructive videos and video capture of the subsurface model, and linked information throughout the text. This Story Map offers a general background on the technology of enhanced geothermal systems and the geologic and development history of Newberry Volcano before presenting NETL's modeling efforts that support the installation of enhanced geothermal systems. The model is driven by multiple geologic and geophysical datasets to compare and contrast results which allow for the targeting of potential EGS sites and the reduction of subsurface uncertainty. This Story Map aims to communicate to a broad audience, and provides a platform to effectively introduce the model to researchers and stakeholders.

Examining Changes in Radioxenon Isotope Activity Ratios during Subsurface Transport

Science.gov (United States)

Annewandter, Robert

2014-05-01

The Non-Proliferation Experiment (NPE) has demonstrated and modelled the usefulness of barometric pumping induced gas transport and subsequent soil gas sampling during On-Site inspections. Generally, gas transport has been widely studied with different numerical codes. However, gas transport of radioxenons and radioiodines in the post-detonation regime and their possible fractionation is still neglected in the open peer-reviewed literature. Atmospheric concentrations of the radioxenons Xe-135, Xe-133m, Xe-133 and Xe-131m can be used to discriminate between civilian releases (nuclear power plants or medical isotope facilities), and nuclear explosion sources. It is based on the multiple isotopic activity ratio method. Yet it is not clear whether subsurface migration of the radionuclides, with eventual release into the atmosphere, can affect the activity ratios due to fractionation. Fractionation can be caused by different mass diffusivities due to mass differences between the radionuclides. Cyclical changes in atmospheric pressure can drive subsurface gas transport. This barometric pumping phenomenon causes an oscillatoric flow in upward trending fractures or highly conductive faults which, combined with diffusion into the porous matrix, leads to a net transport of gaseous components - a so-called ratcheting effect. We use a general purpose reservoir simulator (Complex System Modelling Platform, CSMP++) which is recognized by the oil industry as leading in Discrete Fracture-Matrix (DFM) simulations. It has been applied in a range of fields such as deep geothermal systems, three-phase black oil simulations, fracture propagation in fractured, porous media, and Navier-Stokes pore-scale modelling among others. It is specifically designed to account for structurally complex geologic situation of fractured, porous media. Parabolic differential equations are solved by a continuous Galerkin finite-element method, hyperbolic differential equations by a complementary finite

Martian sub-surface ionising radiation: biosignatures and geology

Directory of Open Access Journals (Sweden)

J. M. Ward

2007-07-01

Full Text Available The surface of Mars, unshielded by thick atmosphere or global magnetic field, is exposed to high levels of cosmic radiation. This ionising radiation field is deleterious to the survival of dormant cells or spores and the persistence of molecular biomarkers in the subsurface, and so its characterisation is of prime astrobiological interest. Here, we present modelling results of the absorbed radiation dose as a function of depth through the Martian subsurface, suitable for calculation of biomarker persistence. A second major implementation of this dose accumulation rate data is in application of the optically stimulated luminescence technique for dating Martian sediments.

We present calculations of the dose-depth profile in the Martian subsurface for various scenarios: variations of surface composition (dry regolith, ice, layered permafrost, solar minimum and maximum conditions, locations of different elevation (Olympus Mons, Hellas basin, datum altitude, and increasing atmospheric thickness over geological history. We also model the changing composition of the subsurface radiation field with depth compared between Martian locations with different shielding material, determine the relative dose contributions from primaries of different energies, and discuss particle deflection by the crustal magnetic fields.

Change in ocean subsurface environment to suppress tropical cyclone intensification under global warming

Science.gov (United States)

Huang, Ping; Lin, I. -I; Chou, Chia; Huang, Rong-Hui

2015-01-01

Tropical cyclones (TCs) are hazardous natural disasters. Because TC intensification is significantly controlled by atmosphere and ocean environments, changes in these environments may cause changes in TC intensity. Changes in surface and subsurface ocean conditions can both influence a TC's intensification. Regarding global warming, minimal exploration of the subsurface ocean has been undertaken. Here we investigate future subsurface ocean environment changes projected by 22 state-of-the-art climate models and suggest a suppressive effect of subsurface oceans on the intensification of future TCs. Under global warming, the subsurface vertical temperature profile can be sharpened in important TC regions, which may contribute to a stronger ocean coupling (cooling) effect during the intensification of future TCs. Regarding a TC, future subsurface ocean environments may be more suppressive than the existing subsurface ocean environments. This suppressive effect is not spatially uniform and may be weak in certain local areas. PMID:25982028

Potential effects of bacteria on radionuclide transport from a Swedish high level nuclear waste repository

International Nuclear Information System (INIS)

Pedersen, K.

1990-01-01

Microorganisms can influence radionuclide migration if their concentration are high in comparison with other organic particles. Data on the numbers of microorganisms in undisturbed ground-water have been collected. The average number of cells in the samples from 17 levels in 5 boreholes was 3.0 x 10 5 cells ml -1 . A biofilm experiment indicated an active microbial rock surface population. Radiographic uptake experiments suggest inactive bulk water populations. The bulk water microbial cells in deep ground water might then be inactive cells detached from active biofilms. Enrichment cultures for anaerobic bacteria demonstrated the presence of anaerobic bacteria capable of growth on C-1 compounds with hydrogen and carbon dioxide, presumably methanogenic bacteria. Further, growth in enrichment cultures with sulphate as electron-acceptor and lactate as carbon source proved dissimilatory sulphate reducing bacteria to be present. (author)

Agriculture and wildlife: ecological implications of subsurface irrigation drainage

Science.gov (United States)

A. Dennis Lemly

1994-01-01

Subsurface agricultural irrigation drainage is a wastewater with the potential to severely impact wetlands and wildlife populations. Widespread poisoning of migratory birds by drainwater contaminants has occurred in the western United States and waterfowl populations are threatened in the Pacific and Central flyways. Irrigated agriculture could produce subsurface...

Subsurface Event Detection and Classification Using Wireless Signal Networks

Directory of Open Access Journals (Sweden)

Muhannad T. Suleiman

2012-11-01

Full Text Available Subsurface environment sensing and monitoring applications such as detection of water intrusion or a landslide, which could significantly change the physical properties of the host soil, can be accomplished using a novel concept, Wireless Signal Networks (WSiNs. The wireless signal networks take advantage of the variations of radio signal strength on the distributed underground sensor nodes of WSiNs to monitor and characterize the sensed area. To characterize subsurface environments for event detection and classification, this paper provides a detailed list and experimental data of soil properties on how radio propagation is affected by soil properties in subsurface communication environments. Experiments demonstrated that calibrated wireless signal strength variations can be used as indicators to sense changes in the subsurface environment. The concept of WSiNs for the subsurface event detection is evaluated with applications such as detection of water intrusion, relative density change, and relative motion using actual underground sensor nodes. To classify geo-events using the measured signal strength as a main indicator of geo-events, we propose a window-based minimum distance classifier based on Bayesian decision theory. The window-based classifier for wireless signal networks has two steps: event detection and event classification. With the event detection, the window-based classifier classifies geo-events on the event occurring regions that are called a classification window. The proposed window-based classification method is evaluated with a water leakage experiment in which the data has been measured in laboratory experiments. In these experiments, the proposed detection and classification method based on wireless signal network can detect and classify subsurface events.

The DESMEX Project - Deep Electromagnetic Sounding for Mineral EXploration

Science.gov (United States)

Meyer, U.; Becken, M.; Stolz, R.; Nittinger, C.; Cherevatova, M.; Siemon, B.; Martin, T.; Petersen, H.; Steuer, A.

2017-12-01

The DESMEX project (Deep Electromagnetic Sounding for Mineral Exploration) aims to develop independent semi-airborne frequency domain systems for mineral exploration down to depths of 1 km and deeper. Two different helicopter-towed systems are being designed and tested using source installations on ground. One system uses among other equipment conventional three axis induction coils, a 3D-fluxgate and a high precision inertial motion unit. The use of the two different magnetometers allows to record data in a broad frequency range from 1 Hz to 10 kHz. The second system uses a newly developed SQUID-based sensing system of a similar frequency range and a self made inertial motion unit. Horizontal electric dipole transmitters provided by the Leibniz Institute for Applied Geophysics in Hannover and the Institute of Geophysics and Meteorology of the University in Cologne are used as ground based sources. First system tests showed a good performance of both systems with general noise levels below 50 pT/root(Hz). Test flights above the common survey area proved that the desired depth of investigation can be achieved and that the data is consistent with the subsurface conductivity structures. In order to verify the data acquired from the newly developed system at shallow depths and to provide a better starting model for later inversion calculations helicopter borne frequency domain electromagnetics has been acquired and fully processed over the test site Schleiz - Greiz in Germany. To further relate the subsurface conductivity models to the subsurface geology and mineralogy, petrophysical investigations have been performed on rock samples from the site of investigation and analogue samples.

Imaging subsurface geology and volatile organic compound plumes

International Nuclear Information System (INIS)

Qualheim, B.J.; Daley, P.F.; Johnson, V.; McPherrin, R.V.; Laguna, G.

1992-03-01

Lawrence Livermore National Laboratory (LLNL) (Fig. 1) is in the final stages of the Superfund decisionmaking process for site remediation and restoration. In the process of characterizing the subsurface of the LLNL site, we have developed unique methods of collecting, storing, retrieving, and imaging geologic and chemical data from more than 350 drill holes. The lateral and vertical continuity of subsurface paleostream channels were mapped for the entire LLNL site using geologic descriptions from core samples, cuttings, and interpretations from geophysical logs. A computer-aided design and drafting program, SLICE, written at LLNL, was used to create two-dimensional maps of subsurface sediments, and state-of-the-art software produced three-dimensional images of the volatile organic compound (VOC) plumes using data from water and core fluid analyses

Ultrastructure of interstitial cells of Cajal associated with deep muscular plexus of human small intestine

DEFF Research Database (Denmark)

Rumessen, J J; Mikkelsen, H B; Thuneberg, L

1992-01-01

Evidence showing that interstitial cells of Cajal have important regulatory functions in the gut musculature is accumulating. In the current study, the ultrastructure of the deep muscular plexus and associated interstial cells of Cajal in human small intestine were studied to provide a reference...... a continuous basal lamina, caveolae, intermediate filaments, dense bodies, dense bands, and a well-developed subsurface smooth endoplasmic reticulum), but the arrangement of organelles was clearly different, and cisternae of granular endoplasmic reticulum were abundant. Interstitial cells of Cajal were......, and only few gap junctions with other interstitial cells of Cajal or with the musculature were observed. Compared with interstitial cells of Cajal from other mammals, those associated with the deep muscular plexus in the human small intestine more closely resemble smooth muscle cells...

Hydrothermally generated aromatic compounds are consumed by bacteria colonizing in Atlantis II Deep of the Red Sea

KAUST Repository

Wang, Yong; Yang, Jiangke; Lee, Onon; Dash, Swagatika; Lau, Chunkwan; Al-Suwailem, Abdulaziz M.; Wong, Tim; Danchin, Antoine; Qian, Peiyuan

2011-01-01

, the temperature of the Atlantis II Deep brine pool in the Red Sea has increased from 56 to 68 °C, whereas the temperature at the nearby Discovery Deep brine pool has remained relatively stable at about 44 °C. In this report, we confirmed the presence of aromatic

Kartografia wgłębna i modelowanie w Holandii: Automatyzacja procesu, konwersja czasowo-głębokos̈ciowa i modelowanie uskoków [Subsurface mapping and modelling in the Netherlands: Workflow automation, td-conversion and fault modelling

NARCIS (Netherlands)

Dulk, M. den; Doornenbal, J.C.

2014-01-01

A comprehensive 3D model has been developed for the Dutch on- and offshore This model consists of a detailed 3D structural framework of the deep subsurface including 10 major units from the Late Permian Upper Rotliegend Group up to the Neogene Upper North Sea Group. This overview presents the

Water and nitrogen requirements of subsurface drip irrigated pomegranate

Science.gov (United States)

Surface drip irrigation is a well-developed practice for both annual and perennial crops. The use of subsurface drip is a well-established practice in many annual row crops, e.g. tomatoes, strawberries, lettuce. However, the use of subsurface drip on perennial crops has been slow to develop. With th...

Subsurface chlorophyll maxima in the north-western Bay of Bengal

Digital Repository Service at National Institute of Oceanography (India)

Sarma, V.V.; Aswanikumar, V.

of thermocline suggests that the formation of the subsurface maximum is influencEd. by the presence of seasonal thermocline. Further the subsurface chlorophyll maximum is noticed within the depth ranges of ammonium maximum and nitracline, suggesting...

Connectivity between surface and deep waters determines prokaryotic diversity in the North Atlantic Deep Water.

Science.gov (United States)

Frank, Alexander H; Garcia, Juan A L; Herndl, Gerhard J; Reinthaler, Thomas

2016-06-01

To decipher the influence of depth stratification and surface provincialism on the dark ocean prokaryotic community composition, we sampled the major deep-water masses in the eastern North Atlantic covering three biogeographic provinces. Their diversity was evaluated using ordination and canonical analysis of 454 pyrotag sequences. Variance partitioning suggested that 16% of the variation in the bacterial community composition was based on depth stratification while 9% of the variation was due to geographic location. General linear mixed effect models showed that the community of the subsurface waters was connected to the dark ocean prokaryotic communities in different biogeographic provinces. Cluster analysis indicated that some prokaryotic taxa are specific to distinct regions in bathypelagic water masses. Taken together, our data suggest that the dark ocean prokaryotic community composition of the eastern North Atlantic is primed by the formation and the horizontal transport of water masses. © 2016 Society for Applied Microbiology and John Wiley & Sons Ltd.

Ecotoxicity testing and environmental risk assessment of iron nanomaterials for sub-surface remediation – Recommendations from the FP7 project NanoRem

DEFF Research Database (Denmark)

Hjorth, Rune; Coutris, Claire; Nguyen, Nhung

2017-01-01

engineered Fe nanomaterials, specifically, Nano-Goethite, Trap-Ox Fe-zeolites, Carbo-Iron® and FerMEG12, developed within the European FP7 project NanoRem for sub-surface remediation towards a test battery consisting of eight ecotoxicity tests on bacteria (V. fisheri, E. coli), algae (P. subcapitata...... milled nZVI (FerMEG12), showed no toxicity in the test battery when tested in concentrations up to 100 mg/L, which is the cutoff for hazard labeling in chemicals regulation in Europe. However it should be noted that Fe nanomaterials proved challenging to test adequately due to their turbidity...

Metabolic and spatio-taxonomic response of uncultivated seafloor bacteria following the Deepwater Horizon oil spill

Energy Technology Data Exchange (ETDEWEB)

Handley, K. M.; Piceno, Y. M.; Hu, P.; Tom, L. M.; Mason, O. U.; Andersen, G. L.; Jansson, J. K.; Gilbert, J. A.

2017-08-04

The release of 700 million liters of oil into the Gulf of Mexico over a few months in 2010 produced dramatic changes in the microbial ecology of the water and sediment. Here, we reconstructed the genomes of 57 widespread uncultivated bacteria from post-spill deep-sea sediments, and recovered their gene expression pattern across the seafloor. These genomes comprised a common collection of bacteria that were enriched in heavily affected sediments around the wellhead. Although rare in distal sediments, some members were still detectable at sites up to 60 km away. Many of these genomes exhibited phylogenetic clustering indicative of common trait selection by the environment, and within half we identified 264 genes associated with hydrocarbon degradation. Alkane degradation ability was near ubiquitous among candidate hydrocarbon degraders, whereas just three harbored elaborate gene inventories for the degradation of alkanes and aromatic and polycyclic aromatic hydrocarbons (PAHs). Differential gene expression profiles revealed a spill-promoted microbial sulfur cycle alongside gene upregulation associated with PAH degradation. Gene expression associated with alkane degradation was widespread, although active alkane degrader identities changed along the pollution gradient. Analyses suggest that a broad metabolic capacity to respond to oil inputs exists across a large array of usually rare indigenous deep-sea bacteria.

Ma_MISS on ExoMars: Mineralogical Characterization of the Martian Subsurface

Science.gov (United States)

De Sanctis, Maria Cristina; Altieri, Francesca; Ammannito, Eleonora; Biondi, David; De Angelis, Simone; Meini, Marco; Mondello, Giuseppe; Novi, Samuele; Paolinetti, Riccardo; Soldani, Massimo; Mugnuolo, Raffaele; Pirrotta, Simone; Vago, Jorge L.; Ma_MISS Team

2017-07-01

The Ma_MISS (Mars Multispectral Imager for Subsurface Studies) experiment is the visible and near infrared (VNIR) miniaturized spectrometer hosted by the drill system of the ExoMars 2020 rover. Ma_MISS will perform IR spectral reflectance investigations in the 0.4-2.2 μm range to characterize the mineralogy of excavated borehole walls at different depths (between 0 and 2 m). The spectral sampling is about 20 nm, whereas the spatial resolution over the target is 120 μm. Making use of the drill's movement, the instrument slit can scan a ring and build up hyperspectral images of a borehole. The main goal of the Ma_MISS instrument is to study the martian subsurface environment. Access to the martian subsurface is crucial to our ability to constrain the nature, timing, and duration of alteration and sedimentation processes on Mars, as well as habitability conditions. Subsurface deposits likely host and preserve H2O ice and hydrated materials that will contribute to our understanding of the H2O geochemical environment (both in the liquid and in the solid state) at the ExoMars 2020 landing site. The Ma_MISS spectral range and sampling capabilities have been carefully selected to allow the study of minerals and ices in situ before the collection of samples. Ma_MISS will be implemented to accomplish the following scientific objectives: (1) determine the composition of subsurface materials, (2) map the distribution of subsurface H2O and volatiles, (3) characterize important optical and physical properties of materials (e.g., grain size), and (4) produce a stratigraphic column that will inform with regard to subsurface geological processes. The Ma_MISS findings will help to refine essential criteria that will aid in our selection of the most interesting subsurface formations from which to collect samples.

Transport of Chemical Vapors from Subsurface Sources to Atmosphere as Affected by Shallow Subsurface and Atmospheric Conditions

Science.gov (United States)

Rice, A. K.; Smits, K. M.; Hosken, K.; Schulte, P.; Illangasekare, T. H.

2012-12-01

Understanding the movement and modeling of chemical vapor through unsaturated soil in the shallow subsurface when subjected to natural atmospheric thermal and mass flux boundary conditions at the land surface is of importance to applications such as landmine detection and vapor intrusion into subsurface structures. New, advanced technologies exist to sense chemical signatures at the land/atmosphere interface, but interpretation of these sensor signals to make assessment of source conditions remains a challenge. Chemical signatures are subject to numerous interactions while migrating through the unsaturated soil environment, attenuating signal strength and masking contaminant source conditions. The dominant process governing movement of gases through porous media is often assumed to be Fickian diffusion through the air phase with minimal or no quantification of other processes contributing to vapor migration, such as thermal diffusion, convective gas flow due to the displacement of air, expansion/contraction of air due to temperature changes, temporal and spatial variations of soil moisture and fluctuations in atmospheric pressure. Soil water evaporation and interfacial mass transfer add to the complexity of the system. The goal of this work is to perform controlled experiments under transient conditions of soil moisture, temperature and wind at the land/atmosphere interface and use the resulting dataset to test existing theories on subsurface gas flow and iterate between numerical modeling efforts and experimental data. Ultimately, we aim to update conceptual models of shallow subsurface vapor transport to include conditionally significant transport processes and inform placement of mobile sensors and/or networks. We have developed a two-dimensional tank apparatus equipped with a network of sensors and a flow-through head space for simulation of the atmospheric interface. A detailed matrix of realistic atmospheric boundary conditions was applied in a series of

Subsurface Noble Gas Sampling Manual

Energy Technology Data Exchange (ETDEWEB)

Carrigan, C. R. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Sun, Y. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)

2017-09-18

The intent of this document is to provide information about best available approaches for performing subsurface soil gas sampling during an On Site Inspection or OSI. This information is based on field sampling experiments, computer simulations and data from the NA-22 Noble Gas Signature Experiment Test Bed at the Nevada Nuclear Security Site (NNSS). The approaches should optimize the gas concentration from the subsurface cavity or chimney regime while simultaneously minimizing the potential for atmospheric radioxenon and near-surface Argon-37 contamination. Where possible, we quantitatively assess differences in sampling practices for the same sets of environmental conditions. We recognize that all sampling scenarios cannot be addressed. However, if this document helps to inform the intuition of the reader about addressing the challenges resulting from the inevitable deviations from the scenario assumed here, it will have achieved its goal.

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

Science.gov (United States)

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

Yucca Mountain Project Subsurface Facilities Design

International Nuclear Information System (INIS)

Linden, A.; Saunders, R.S.; Boutin, R.J.; Harrington, P.G.; Lachman, K.D.; Trautner, L.J.

2002-01-01

Four units of the Topopah Springs formation (volcanic tuff) are considered for the proposed repository: the upper lithophysal, the middle non-lithophysal, the lower lithophysal, and the lower non-lithophysal. Yucca Mountain was recently designated the site for a proposed repository to dispose of spent nuclear fuel and high-level radioactive waste. Work is proceeding to advance the design of subsurface facilities to accommodate emplacing waste packages in the proposed repository. This paper summarized recent progress in the design of subsurface layout of the proposed repository. The original Site Recommendation (SR) concept for the subsurface design located the repository largely within the lower lithophysal zone (approximately 73%) of the Topopah The Site Recommendation characterized area suitable for emplacement consisted of the primary upper block, the lower block and the southern upper block extension. The primary upper block accommodated the mandated 70,000 metric tons of heavy metal (MTHM) at a 1.45 kW/m hear heat load. Based on further study of the Site Recommendation concept, the proposed repository siting area footprint was modified to make maximum use of available site characterization data, and thus, reduce uncertainties associated with performance assessment. As a result of this study, a modified repository footprint has been proposed and is presently being review for acceptance by the DOE. A panel design concept was developed to reduce overall costs and reduce the overall emplacement schedule. This concept provides flexibility to adjust the proposed repository subsurface layout with time, as it makes it unnecessary to ''commit'' to development of a large single panel at the earliest stages of construction. A description of the underground layout configuration and influencing factors that affect the layout configuration are discussed in the report

The effects of bacteria on crystalline rock

International Nuclear Information System (INIS)

Brown, D.A.

1994-01-01

Many reactions involving inorganic minerals at water-rock interfaces have now been recognized to be bacterially mediated; these reactions could have a significant effect in the excavation of vaults for toxic and radioactive waste disposal. To investigate the role that bacteria play in the natural aqueous environment of crystalline rock the microbial growth factors of nutrition, energy and environment are described. Microbial activity has been investigated in Atomic Energy of Canada's Underground Research Laboratory (URL), situated in the Archean granitic Lac du Bonnet Batholith, Winnipeg, Manitoba. Faults, initiated in the Early Proterozoic, and later-formed fractures, provide ground-water pathways. Planktonic bacteria, free-swimming in the groundwater, have been observed in over 100 underground borehole samples. The number of bacteria varied from 10 3 to 10 5 mL -1 and appeared to decrease with depth and with increased salinity of the water. However, in the natural environment of deep (100-500 m) crystalline rocks, where nutrition is limited, formation of biofilms by sessile bacteria is a successful survival strategy. Natural biofilms at the URL and biofilms grown in bioreactors have been studied. The biofilms can accumulate different elements, depending upon the local environment. Precipitates of iron have been found in all the biofilms studied, where they are either passively accumulated or utilized as an energy source. Within the biofilm active and extensive biogeochemical immobilization of dissolved elements is controlled by distinct bacterial activities which are sufficiently discrete for hematite and siderite to be precipitated in close proximity

Subsurface Halophilic Microbial Communities in the Hyperarid Core of the Atacama Desert: An Analog for Possible Subsurface Life in Regolith on Mars

Science.gov (United States)

Oren, A.; Warren-Rhodes, K.; Rainey, F. T.; Ewing, S.; McKay, C. P.

2003-12-01

The Atacama Desert in its driest portion provides an interesting analog for possible past or present life in the Martian regolith. In the hyperarid core of the Atacama, surface soils are virtually abiotic, with no plants and "near sterile" concentrations of heterotrophic bacteria (i.e., exceedingly low densities of approximately 100 colony forming units per gram soil). The dearth of microbial life at the surface is likely maintained through extremely low water availability, low organic content and the highly oxidizing nature of the soil. In marked contrast to the surface, however, extremely halophilic microorganisms exist in salt layers 1.2-1.5m below the surface. Mineralogical analyses indicate the layers are predominantly halite (70% NaCl) but also contain sodium nitrate (5% NaNO3). Culturing and polar lipid analyses suggest the halophiles are archaeal Halobacterium-like motile rods. Microclimate monitoring at 1m indicates a soil relative humidity of 20% which is stable year-round even during decadal rain events such as that experienced in July 2002. This suggests the layers are isolated from even significant moisture influxes at the surface. Although further research is necessary, important parallels exist between this Earthly desert analog and the possible existence and detection of subsurface life on Mars despite harsh abiotic conditions at the surface.

DEMONSTRATION BULLETIN: SUBSURFACE VOLATILIZATION AND VENTILATION SYSTEM - BROWN & ROOT ENVIRONMENTAL

Science.gov (United States)

The Subsurface Volatilization and Ventilation System (SVVS*) is an in-situ vacuum extraction/air sparging and bioremediation technology for the treatment of subsurface organic contamination in soil and groundwater. The technology, developed by Billings and Associates, Inc., and o...

Diffusion and aggregation of subsurface radiation defects in lithium fluoride nanocrystals

Science.gov (United States)

Voitovich, A. P.; Kalinov, V. S.; Martynovich, E. F.; Stupak, A. P.; Runets, L. P.

2015-09-01

Lithium fluoride nanocrystals were irradiated by gamma rays at a temperature below the temperature corresponding to the mobility of anion vacancies. The kinetics of the aggregation of radiation-induced defects in subsurface layers of nanocrystals during annealing after irradiation was elucidated. The processes that could be used to determine the activation energy of the diffusion of anion vacancies were revealed. The value of this energy in subsurface layers was obtained. For subsurface layers, the concentrations ratio of vacancies and defects consisting of one vacancy and two electrons was found. The factors responsible for the differences in the values of the activation energies and concentration ratios in subsurface layers and in the bulk of the crystals were discussed.

Characterizing the Catalytic Potential of Deinococcus, Arthrobacter and other Robust Bacteria in Contaminated Subsurface Environments of the Hanford Site

International Nuclear Information System (INIS)

Daly, Michael J.

2006-01-01

Ionizing Radiation (IR) Resistance in Bacteria. Until recently, there have been no clear physiologic predictors of a cell's ability to recover from ionizing radiation (IR) and other DOE-relevant oxidative stress conditions. In general, the most resistant bacteria have been Gram-positive (e.g., Deinococcus, Arthrobacter, Lactobacillus and Enterococcus spp.) and the most sensitive have been Gram-negative (e.g., Pseudomonas, Shewanella and Neisseria spp.). However, there are several reported exceptions to this paradigm, the Gram-negative cyanobacterium Chroococcidiopsis is extremely resistant to IR, whereas the Gram-positive Micrococcus luteus is sensitive. We have identified biomolecular signatures for radiation sensitivity and resistance which are independent of phylogeny, where very high and very low intracellular Mn/Fe concentration ratios correlated with very high and very low resistances, respectively; and restricting Mn(II) in the famously resistant Deinococcus radiodurans sensitized this eubacterium to IR

Characterizing the Catalytic Potential of Deinococcus, Arthrobacter and other Robust Bacteria in Contaminated Subsurface Environments of the Hanford Site

Energy Technology Data Exchange (ETDEWEB)

Daly, Michael J.

2006-05-01

Ionizing Radiation (IR) Resistance in Bacteria. Until recently, there have been no clear physiologic predictors of a cell's ability to recover from ionizing radiation (IR) and other DOE-relevant oxidative stress conditions. In general, the most resistant bacteria have been Gram-positive (e.g., Deinococcus, Arthrobacter, Lactobacillus & Enterococcus spp.) and the most sensitive have been Gram-negative (e.g., Pseudomonas, Shewanella & Neisseria spp.). However, there are several reported exceptions to this paradigm, the Gram-negative cyanobacterium Chroococcidiopsis is extremely resistant to IR, whereas the Gram-positive Micrococcus luteus is sensitive. We have identified biomolecular signatures for radiation sensitivity and resistance which are independent of phylogeny, where very high and very low intracellular Mn/Fe concentration ratios correlated with very high and very low resistances, respectively; and restricting Mn(II) in the famously resistant Deinococcus radiodurans sensitized this eubacterium to IR.

Quantitative subsurface analysis using frequency modulated thermal wave imaging

Science.gov (United States)

Subhani, S. K.; Suresh, B.; Ghali, V. S.

2018-01-01

Quantitative depth analysis of the anomaly with an enhanced depth resolution is a challenging task towards the estimation of depth of the subsurface anomaly using thermography. Frequency modulated thermal wave imaging introduced earlier provides a complete depth scanning of the object by stimulating it with a suitable band of frequencies and further analyzing the subsequent thermal response using a suitable post processing approach to resolve subsurface details. But conventional Fourier transform based methods used for post processing unscramble the frequencies with a limited frequency resolution and contribute for a finite depth resolution. Spectral zooming provided by chirp z transform facilitates enhanced frequency resolution which can further improves the depth resolution to axially explore finest subsurface features. Quantitative depth analysis with this augmented depth resolution is proposed to provide a closest estimate to the actual depth of subsurface anomaly. This manuscript experimentally validates this enhanced depth resolution using non stationary thermal wave imaging and offers an ever first and unique solution for quantitative depth estimation in frequency modulated thermal wave imaging.

Water masses in the Humboldt Current System: Properties, distribution, and the nitrate deficit as a chemical water mass tracer for Equatorial Subsurface Water off Chile

Science.gov (United States)

Silva, Nelson; Rojas, Nora; Fedele, Aldo

2009-07-01

Three sections are used to analyze the physical and chemical characteristics of the water masses in the eastern South Pacific and their distributions. Oceanographic data were taken from the SCORPIO (May-June 1967), PIQUERO (May-June 1969), and KRILL (June 1974) cruises. Vertical sections of temperature, salinity, σ θ, dissolved oxygen, nitrate, nitrite, phosphate, and silicate were used to analyze the water column structure. Five water masses were identified in the zone through T- S diagrams: Subantarctic Water, Subtropical Water, Equatorial Subsurface Water, Antarctic Intermediate Water, and Pacific Deep Water. Their proportions in the sea water mixture are calculated using the mixing triangle method. Vertical sections were used to describe the geographical distributions of the water mass cores in the upper 1500 m. Several characteristic oceanographic features in the study area were analyzed: the shallow salinity minimum displacement towards the equator, the equatorial subsurface salinity maximum associated with a dissolved oxygen minimum zone and a high nutrient content displacement towards the south, and the equatorward intermediate Antarctic salinity minimum associated with a dissolved oxygen maximum. The nitrate deficit generated in the denitrification area off Peru and northern Chile is proposed as a conservative chemical tracer for the Equatorial Subsurface Waters off the coast of Chile, south of 25°S.

Fossilization of Iron-Oxidizing Bacteria at Hydrothermal Vents: a Useful Biosignature on Mars?

Science.gov (United States)

Leveille, R. J.; Lui, S.

2009-05-01

-concentric growth bands. In the bioreactor cultures, constant conditions led to abundant microbial growth and formation of an iron oxyhydroxide precipitate, either in direct association with the cells or within the growth medium. This suggests that not all of the iron precipitation is biogenic in origin. Cells typically show a filamentous morphology reminiscent of the mineral-encrusted forms observed in the natural samples. Continuing work includes high-resolution TEM observations of cultured organisms, examination of 2-year long in situ seafloor incubation experiments, and bioreactor silicification experiments in order to better understand the roles of iron and silica in the fossilization process. Microaerophilic iron oxidation could have existed on the early Earth in environments containing small amounts of oxygen produced either by locally concentrated photosynthetic microorganisms (e.g., cyanobacteria) or abiotically, as proposed for the subsurface of the Fe-dominated Rio Tinto (Spain) basin system. By analogy, similar subsurface or near-surface microaerophilic environments could have existed on Mars in the past. The distinctive morphologies and mineralization patterns of iron oxidizing bacteria could be a useful biosignature to search for on Mars. Deposits and biogenic features similar to those described here could theoretically be identified on Mars with existing imaging and analytical technologies. Therefore, future missions to Mars should target ancient hydrothermal systems, some of which have been putatively identified already.

Subsurface defects structural evolution in nano-cutting of single crystal copper

International Nuclear Information System (INIS)

Wang, Quanlong; Bai, Qingshun; Chen, Jiaxuan; Sun, Yazhou; Guo, Yongbo; Liang, Yingchun

2015-01-01

Highlights: • An innovative analysis method is adopted to analyze nano-cutting process accurately. • A characteristic SFT and stair-rod dislocation are found in subsurface defect layer. • The formation mechanism of stair-rod dislocation is investigated. • The local atomic structure of subsurface defects is introduced. - Abstract: In this work, molecular dynamics simulation is performed to study the subsurface defects structural distribution and its evolution during nano-cutting process of single crystal copper. The formation mechanism of chip and machined surface is interviewed by analyzing the dislocation evolution and atomic migration. The centro-symmetry parameter and spherical harmonics method are adopted to characterize the distribution and evolution of the subsurface defect structures and local atomic structures. The results show that stacking faults, dislocation loops, “V-shaped” dislocation loops, and plenty of point defects are formed during the machined surface being formed in shear-slip zone. In subsurface damage layers, stair-rod dislocation, stacking fault tetrahedra, atomic cluster defect, and vacancy defect are formed. And the formation mechanism of stair-rod dislocation is investigated by atomic-scale structure evolution. The local atomic structures of subsurface defects are icosahedrons, hexagonal close packed, body-centered cubic, and defect face center cubic, and the variations of local atomic structures are investigated

An impaired metabolic response to hydrostatic pressure explains Alcanivorax borkumensis recorded distribution in the deep marine water column

KAUST Repository

Scoma, Alberto; Barbato, Marta; Borin, Sara; Daffonchio, Daniele; Boon, Nico

2016-01-01

Alcanivorax borkumensis is an ubiquitous model organism for hydrocarbonoclastic bacteria, which dominates polluted surface waters. Its negligible presence in oil-contaminated deep waters (as observed during the Deepwater Horizon accident) raises

Subsurface defects structural evolution in nano-cutting of single crystal copper

Energy Technology Data Exchange (ETDEWEB)

Wang, Quanlong [School of Mechatronics Engineering, Harbin Institute of Technology, Harbin 150001 (China); Center for Precision Engineering, Harbin Institute of Technology, Harbin 150001 (China); Bai, Qingshun [School of Mechatronics Engineering, Harbin Institute of Technology, Harbin 150001 (China); Chen, Jiaxuan, E-mail: wangquanlong0@hit.edu.cn [Center for Precision Engineering, Harbin Institute of Technology, Harbin 150001 (China); Sun, Yazhou [School of Mechatronics Engineering, Harbin Institute of Technology, Harbin 150001 (China); Guo, Yongbo [Center for Precision Engineering, Harbin Institute of Technology, Harbin 150001 (China); Liang, Yingchun [School of Mechatronics Engineering, Harbin Institute of Technology, Harbin 150001 (China)

2015-07-30

Highlights: • An innovative analysis method is adopted to analyze nano-cutting process accurately. • A characteristic SFT and stair-rod dislocation are found in subsurface defect layer. • The formation mechanism of stair-rod dislocation is investigated. • The local atomic structure of subsurface defects is introduced. - Abstract: In this work, molecular dynamics simulation is performed to study the subsurface defects structural distribution and its evolution during nano-cutting process of single crystal copper. The formation mechanism of chip and machined surface is interviewed by analyzing the dislocation evolution and atomic migration. The centro-symmetry parameter and spherical harmonics method are adopted to characterize the distribution and evolution of the subsurface defect structures and local atomic structures. The results show that stacking faults, dislocation loops, “V-shaped” dislocation loops, and plenty of point defects are formed during the machined surface being formed in shear-slip zone. In subsurface damage layers, stair-rod dislocation, stacking fault tetrahedra, atomic cluster defect, and vacancy defect are formed. And the formation mechanism of stair-rod dislocation is investigated by atomic-scale structure evolution. The local atomic structures of subsurface defects are icosahedrons, hexagonal close packed, body-centered cubic, and defect face center cubic, and the variations of local atomic structures are investigated.

Improvement in grade of minerals using simultaneous Bio-oxidation of invisible gold concentrate and deep-sea manganese crust

Science.gov (United States)

Myung, EunJi; Cho, Kang Hee; Kim, Hyun Soo; Park, Cheon Young

2016-04-01

Many sulfides of metal such as galena, sphalerite, chalcopyrite, and pyrite, are semiconductors. When two kinds of such minerals contact each other in an electrolyte, a galvanic couple, where the mineral of lower rest potential as anode, and that of higher rest potential as cathode forms. Manganese dioxide is also a semiconductor with much higher rest potential than all sulfides mentioned above, so that a galvanic couple in which both the minerals would dissolve simultaneously can form, when it contacts with any of the sulfides. The aim of this study was to investigate the improvement in grade of minerals using the simultaneous bio-oxidation of deep-sea manganese crust and invisible gold concentrate. The samples(deep-sea manganese crust and invisible gold concentrate) were characterized by chemical and XRD analysis. The primary components of the invisible gold concentrate was pyrite and quartz and the deep-sea manganese crust was amorphous material, as detected using XRD. The result of chemical analysis showed that Au, Ag, Te contents in the invisible gold concentrate 130.2, 954.1 and 1,043.6 mg/kg, respectively. and that Mn, Ni, Co contents in the deep-sea manganese crust 19,501.5, 151.9, 400.4 mg/kg, respectively. In order to increase the bacteria's tolerance of heavy metals, the bacteria using bio-oxidation experiments were repeatedly subcultured in an Cu adaptation-medium containing of 382.98 mg/l for 20 periods of 21 days. The improvement in grade of samples of in present adapted bacteria condition was greater than another conditions(control and in present non-adapted bacteria). The Au-Ag-Te contents in the invisible gold concentrate was enhanced in the order of physical oxidation, simultaneous/non-adaptive bio-oxidation, adaptive/bio-oxidation, simultaneous/adaptive bio-oxidation. If the bacteria is adapted to heavy metal ions and an optimization of conditions is found in future bio-oxidation-leaching processes. Acknowledgment : "This research was supported

Colonial life under the Humboldt Current System: deep-sea corals from O'Higgins I seamount

OpenAIRE

Cañete,Juan I; Haussermann,Verena

2012-01-01

A benthic community constituted by an assemblage of at least four species of deep-sea corals collected in only one trawl carried-out on the summit of the O'Higgins I seamount, central Chile. The corals were collected in only one trawl carried-out during a Chilean-Japanese cruise onboard the R/V" Koyo Maru" in December 29, 2004. Presence of oxygenated and cold Antarctic Intermediate Water (>400 m depth) on the plateau was recorded under of the Equatorial Subsurface Water associated to the o...

Colonial life under the Humboldt Current System: deep-sea corals from O'Higgins I seamount

OpenAIRE

Cañete, Juan I; Haussermann, Verena

2012-01-01

A benthic community constituted by an assemblage of at least four species of deep-sea corals collected in only one trawl carried-out on the summit of the O'Higgins I seamount, central Chile. The corals were collected in only one trawl carried-out during a Chilean-Japanese cruise onboard the R/V" Koyo Maru" in December 29, 2004. Presence of oxygenated and cold Antarctic Intermediate Water (>400 m depth) on the plateau was recorded under of the Equatorial Subsurface Water associated to the oxyg...

Anaerobic ammonium oxidation by anammox bacteria in the Black Sea RID B-8834-2011

DEFF Research Database (Denmark)

Kuypers, MMM; Sliekers, AO; Lavik, G.

2003-01-01

The availability of fixed inorganic nitrogen (nitrate, nitrite and ammonium) limits primary productivity in many oceanic regions(1). The conversion of nitrate to N(2) by heterotrophic bacteria (denitrification) is believed to be the only important sink for fixed inorganic nitrogen in the ocean(2......). Here we provide evidence for bacteria that anaerobically oxidize ammonium with nitrite to N(2) in the world's largest anoxic basin, the Black Sea. Phylogenetic analysis of 16S ribosomal RNA gene sequences shows that these bacteria are related to members of the order Planctomycetales performing...... the anammox (anaerobic ammonium oxidation) process in ammonium-removing bioreactors(3). Nutrient profiles, fluorescently labelled RNA probes, (15)N tracer experiments and the distribution of specific 'ladderane' membrane lipids(4) indicate that ammonium diffusing upwards from the anoxic deep water is consumed...

Significant Association between Sulfate-Reducing Bacteria and Uranium-Reducing Microbial Communities as Revealed by a Combined Massively Parallel Sequencing-Indicator Species Approach▿ †

OpenAIRE

Cardenas, Erick; Wu, Wei-Min; Leigh, Mary Beth; Carley, Jack; Carroll, Sue; Gentry, Terry; Luo, Jian; Watson, David; Gu, Baohua; Ginder-Vogel, Matthew; Kitanidis, Peter K.; Jardine, Philip M.; Zhou, Jizhong; Criddle, Craig S.; Marsh, Terence L.

2010-01-01

Massively parallel sequencing has provided a more affordable and high-throughput method to study microbial communities, although it has mostly been used in an exploratory fashion. We combined pyrosequencing with a strict indicator species statistical analysis to test if bacteria specifically responded to ethanol injection that successfully promoted dissimilatory uranium(VI) reduction in the subsurface of a uranium contamination plume at the Oak Ridge Field Research Center in Tennessee. Remedi...

Field experiments with subsurface releases of oil and and dyed water

International Nuclear Information System (INIS)

Rye, H.; Brandvik, P.J.; Strom, T.

1998-01-01

A field experiment with a subsurface release of oil and air was carried out in June 1996 close to the Frigg Field in the North Sea area. One of the purposes of this sea trial was to increase the knowledge concerning the behaviour of the oil and gas during a subsurface blowout. This was done by releasing oil and air at 106 meters depth with a realistic gas oil ratio (GOR=67) and release velocity of the oil. In addition to the oil release, several releases with dyed water and gas (GOR=7 - 65) were performed. Important and unique data were collected during these subsurface releases. In particular, the experiments with the dyed water releases combined with air turned out to be an efficient way of obtaining field data for the behaviour of subsurface plumes. The main conclusions from analysis for the data collected are: the field methodology used to study blowout releases in the field appears to be appropriate. The use of dyed water to determine the performance of the subsurface plume proved out to be an efficient way to obtain reliable and useful data. The behaviour of the subsurface plume is very sensitive to gas flow rates. For low gas flow rates, the plume did not reach the sea surface at all due to the presence of stratification in the ambient water. Some discrepancies were found between a numerical model for subsurface releases and field results. These discrepancies are pointed out, and recommendations for possible model improvements are given. (author)

Deep sub-seafloor prokaryotes stimulated at interfaces over geological time RID B-1731-2010 RID A-1877-2008 RID D-2690-2009 RID A-2970-2010

DEFF Research Database (Denmark)

Parkes, RJ; Webster, G.; Cragg, BA

2005-01-01

in numbers of prokaryotes at depth were more restricted but also corresponded to increased activity; however, this time they were associated with repeating layers of diatom-rich sediments ( about 9 Myr old). These results show that deep sedimentary prokaryotes can have high activity, have changing diversity...... Pacific Ocean sites, margin and open ocean, both of which have deep, subsurface stimulation of prokaryotic processes associated with geochemical and/or sedimentary interfaces. At 90 m depth in the margin site, stimulation was such that prokaryote numbers were higher ( about 13-fold) and activity rates...

Potential impact of global climate change on benthic deep-sea microbes.

Science.gov (United States)

Danovaro, Roberto; Corinaldesi, Cinzia; Dell'Anno, Antonio; Rastelli, Eugenio

2017-12-15

Benthic deep-sea environments are the largest ecosystem on Earth, covering ∼65% of the Earth surface. Microbes inhabiting this huge biome at all water depths represent the most abundant biological components and a relevant portion of the biomass of the biosphere, and play a crucial role in global biogeochemical cycles. Increasing evidence suggests that global climate changes are affecting also deep-sea ecosystems, both directly (causing shifts in bottom-water temperature, oxygen concentration and pH) and indirectly (through changes in surface oceans' productivity and in the consequent export of organic matter to the seafloor). However, the responses of the benthic deep-sea biota to such shifts remain largely unknown. This applies particularly to deep-sea microbes, which include bacteria, archaea, microeukaryotes and their viruses. Understanding the potential impacts of global change on the benthic deep-sea microbial assemblages and the consequences on the functioning of the ocean interior is a priority to better forecast the potential consequences at global scale. Here we explore the potential changes in the benthic deep-sea microbiology expected in the coming decades using case studies on specific systems used as test models. © FEMS 2017. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Cultivation-dependent and cultivation-independent characterisation of hydrocarbon-degrading bacteria in Guaymas Basin sediments

Directory of Open Access Journals (Sweden)

Tony eGutierrez

2015-07-01

Full Text Available Marine hydrocarbon-degrading bacteria perform a fundamental role in the biodegradation of crude oil and its petrochemical derivatives in coastal and open ocean environments. However, there is a paucity of knowledge on the diversity and function of these organisms in deep-sea sediment. Here we used stable-isotope probing (SIP, a valuable tool to link the phylogeny and function of targeted microbial groups, to investigate polycyclic aromatic hydrocarbon (PAH-degrading bacteria under aerobic conditions in sediments from Guaymas Basin with uniformly labeled [13C]phenanthrene. The dominant sequences in clone libraries constructed from 13C-enriched bacterial DNA (from phenanthrene enrichments were identified to belong to the genus Cycloclasticus. We used quantitative PCR primers targeting the 16S rRNA gene of the SIP-identified Cycloclasticus to determine their abundance in sediment incubations amended with unlabeled phenanthrene and showed substantial increases in gene abundance during the experiments. We also isolated a strain, BG-2, representing the SIP-identified Cycloclasticus sequence (99.9% 16S rRNA gene sequence identity, and used this strain to provide direct evidence of phenanthrene degradation and mineralization. In addition, we isolated Halomonas, Thalassospira and Lutibacterium spp. with demonstrable phenanthrene-degrading capacity from Guaymas Basin sediment. This study demonstrates the value of coupling SIP with cultivation methods to identify and expand on the known diversity of PAH-degrading bacteria in the deep-sea.

Selection of organic chemicals for subsurface transport. Subsurface transport program interaction seminar series. Summary

International Nuclear Information System (INIS)

Zachara, J.M.; Wobber, F.J.

1984-11-01

Model compounds are finding increasing use in environmental research. These individual compounds are selected as surrogates of important contaminants present in energy/defense wastes and their leachates and are used separately or as mixtures in research to define the anticipated or ''model'' environmental behavior of key waste components and to probe important physicochemical mechanisms involved in transport and fate. A seminar was held in Germantown, Maryland, April 24-25, 1984 to discuss the nature of model organic compounds being used for subsurface transport research. The seminar included participants experienced in the fields of environmental chemistry, microbiology, geohydrology, biology, and analytic chemistry. The objectives of the seminar were two-fold: (1) to review the rationale for the selection of organic compounds adopted by research groups working on the subsurface transport of organics, and (2) to evaluate the use of individual compounds to bracket the behavior of compound classes and compound constructs to approximate the behavior of complex organic mixtures

Subsurface Scattering-Based Object Rendering Techniques for Real-Time Smartphone Games

Directory of Open Access Journals (Sweden)

Won-Sun Lee

2014-01-01

Full Text Available Subsurface scattering that simulates the path of a light through the material in a scene is one of the advanced rendering techniques in the field of computer graphics society. Since it takes a number of long operations, it cannot be easily implemented in real-time smartphone games. In this paper, we propose a subsurface scattering-based object rendering technique that is optimized for smartphone games. We employ our subsurface scattering method that is utilized for a real-time smartphone game. And an example game is designed to validate how the proposed method can be operated seamlessly in real time. Finally, we show the comparison results between bidirectional reflectance distribution function, bidirectional scattering distribution function, and our proposed subsurface scattering method on a smartphone game.

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

Science.gov (United States)

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

Bacterial carbon utilization in vertical subsurface flow constructed wetlands.

Science.gov (United States)

Tietz, Alexandra; Langergraber, Günter; Watzinger, Andrea; Haberl, Raimund; Kirschner, Alexander K T

2008-03-01

Subsurface vertical flow constructed wetlands with intermittent loading are considered as state of the art and can comply with stringent effluent requirements. It is usually assumed that microbial activity in the filter body of constructed wetlands, responsible for the removal of carbon and nitrogen, relies mainly on bacterially mediated transformations. However, little quantitative information is available on the distribution of bacterial biomass and production in the "black-box" constructed wetland. The spatial distribution of bacterial carbon utilization, based on bacterial (14)C-leucine incorporation measurements, was investigated for the filter body of planted and unplanted indoor pilot-scale constructed wetlands, as well as for a planted outdoor constructed wetland. A simple mass-balance approach was applied to explain the bacterially catalysed organic matter degradation in this system by comparing estimated bacterial carbon utilization rates with simultaneously measured carbon reduction values. The pilot-scale constructed wetlands proved to be a suitable model system for investigating microbial carbon utilization in constructed wetlands. Under an ideal operating mode, the bulk of bacterial productivity occurred within the first 10cm of the filter body. Plants seemed to have no significant influence on productivity and biomass of bacteria, as well as on wastewater total organic carbon removal.

Soil Carbon Dioxide Production and Surface Fluxes: Subsurface Physical Controls

Science.gov (United States)

Risk, D.; Kellman, L.; Beltrami, H.

Soil respiration is a critical determinant of landscape carbon balance. Variations in soil temperature and moisture patterns are important physical processes controlling soil respiration which need to be better understood. Relationships between soil respi- ration and physical controls are typically addressed using only surface flux data but other methods also exist which permit more rigorous interpretation of soil respira- tion processes. Here we use a combination of subsurface CO_{2} concentrations, surface CO_{2} fluxes and detailed physical monitoring of the subsurface envi- ronment to examine physical controls on soil CO_{2} production at four climate observatories in Eastern Canada. Results indicate that subsurface CO_{2} produc- tion is more strongly correlated to the subsurface thermal environment than the surface CO_{2} flux. Soil moisture was also found to have an important influence on sub- surface CO_{2} production, particularly in relation to the soil moisture - soil profile diffusivity relationship. Non-diffusive profile CO_{2} transport appears to be im- portant at these sites, resulting in a de-coupling of summertime surface fluxes from subsurface processes and violating assumptions that surface CO_{2} emissions are the result solely of diffusion. These results have implications for the study of soil respiration across a broad range of terrestrial environments.

Subsurface barrier demonstration test strategy and performance specification

International Nuclear Information System (INIS)

Treat, R.L.; Cruse, J.M.

1994-05-01

This document was developed to help specify a major demonstration test project of subsurface barrier systems supporting the Tank Waste Remediation System (TWRS) Program. The document focuses discussion on requirements applicable to demonstration of three subsurface barrier concepts: (1) Injected Material, (2) Cryogenic, and (3) Desiccant. Detailed requirements are provided for initial qualification of a technology proposal followed by the pre-demonstration and demonstration test requirements and specifications. Each requirement and specification is accompanied by a discussion of the rationale for it. The document also includes information on the Hanford Site tank farms and related data; the related and currently active technology development projects within the DOE's EM-50 Program; and the overall demonstration test strategy. Procurement activities and other preparations for actual demonstration testing are on hold until a decision is made regarding further development of subsurface barriers. Accordingly, this document is being issued for information only

Food web flows through a sub-arctic deep-sea benthic community

Science.gov (United States)

Gontikaki, E.; van Oevelen, D.; Soetaert, K.; Witte, U.

2011-11-01

The benthic food web of the deep Faroe-Shetland Channel (FSC) was modelled by using the linear inverse modelling methodology. The reconstruction of carbon pathways by inverse analysis was based on benthic oxygen uptake rates, biomass data and transfer of labile carbon through the food web as revealed by a pulse-chase experiment. Carbon deposition was estimated at 2.2 mmol C m -2 d -1. Approximately 69% of the deposited carbon was respired by the benthic community with bacteria being responsible for 70% of the total respiration. The major fraction of the labile detritus flux was recycled within the microbial loop leaving merely 2% of the deposited labile phytodetritus available for metazoan consumption. Bacteria assimilated carbon at high efficiency (0.55) but only 24% of bacterial production was grazed by metazoans; the remaining returned to the dissolved organic matter pool due to viral lysis. Refractory detritus was the basal food resource for nematodes covering ∼99% of their carbon requirements. On the contrary, macrofauna seemed to obtain the major part of their metabolic needs from bacteria (49% of macrofaunal consumption). Labile detritus transfer was well-constrained, based on the data from the pulse-chase experiment, but appeared to be of limited importance to the diet of the examined benthic organisms (preferred prey, in this case, was other macrofaunal animals rather than nematodes. Bacteria and detritus contributed 53% and 12% to the total carbon ingestion of carnivorous polychaetes suggesting a high degree of omnivory among higher consumers in the FSC benthic food web. Overall, this study provided a unique insight into the functioning of a deep-sea benthic community and demonstrated how conventional data can be exploited further when combined with state-of-the-art modelling approaches.

Diversity and role of plasmids in adaptation of bacteria inhabiting the Lubin copper mine in Poland, an environment rich in heavy metals

Directory of Open Access Journals (Sweden)