Subsurface microbial diversity in deep-granitic-fracture water in Colorado

Science.gov (United States)

Sahl, J.W.; Schmidt, R.; Swanner, E.D.; Mandernack, K.W.; Templeton, A.S.; Kieft, Thomas L.; Smith, R.L.; Sanford, W.E.; Callaghan, R.L.; Mitton, J.B.; Spear, J.R.

2008-01-01

A microbial community analysis using 16S rRNA gene sequencing was performed on borehole water and a granite rock core from Henderson Mine, a >1,000-meter-deep molybdenum mine near Empire, CO. Chemical analysis of borehole water at two separate depths (1,044 m and 1,004 m below the mine entrance) suggests that a sharp chemical gradient exists, likely from the mixing of two distinct subsurface fluids, one metal rich and one relatively dilute; this has created unique niches for microorganisms. The microbial community analyzed from filtered, oxic borehole water indicated an abundance of sequences from iron-oxidizing bacteria (Gallionella spp.) and was compared to the community from the same borehole after 2 weeks of being plugged with an expandable packer. Statistical analyses with UniFrac revealed a significant shift in community structure following the addition of the packer. Phospholipid fatty acid (PLFA) analysis suggested that Nitrosomonadales dominated the oxic borehole, while PLFAs indicative of anaerobic bacteria were most abundant in the samples from the plugged borehole. Microbial sequences were represented primarily by Firmicutes, Proteobacteria, and a lineage of sequences which did not group with any identified bacterial division; phylogenetic analyses confirmed the presence of a novel candidate division. This "Henderson candidate division" dominated the clone libraries from the dilute anoxic fluids. Sequences obtained from the granitic rock core (1,740 m below the surface) were represented by the divisions Proteobacteria (primarily the family Ralstoniaceae) and Firmicutes. Sequences grouping within Ralstoniaceae were also found in the clone libraries from metal-rich fluids yet were absent in more dilute fluids. Lineage-specific comparisons, combined with phylogenetic statistical analyses, show that geochemical variance has an important effect on microbial community structure in deep, subsurface systems. Copyright ?? 2008, American Society for Microbiology

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

Science.gov (United States)

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

1999-10-01

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

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 life from North Pond: enrichment, isolation, characterization and genomes of heterotrophic bacteria

Directory of Open Access Journals (Sweden)

Joseph A. Russell

2016-05-01

Full Text Available Studies of subsurface microorganisms have yielded few environmentally relevant isolates for laboratory studies. In order to address this lack of cultivated microorganisms, we initiated several enrichments on sediment and underlying basalt samples from North Pond, a sediment basin ringed by basalt outcrops underlying an oligotrophic water-column west of the Mid-Atlantic Ridge at 22°N. In contrast to anoxic enrichments, growth was observed in aerobic, heterotrophic enrichments from sediment of IODP site U1382B at 4 and 68 meters below seafloor (mbsf. These sediment depths, respectively, correspond to the fringes of oxygen penetration from overlying seawater in the top of the sediment column and upward migration of oxygen from oxic seawater from the basalt aquifer below the sediment. Here we report the enrichment, isolation, and initial characterizations of three isolated aerobic heterotrophs from North Pond sediments; an Arthrobacter species from 4 mbsf, and Paracoccus and Pseudomonas species from 68 mbsf. These cultivated bacteria are represented in the amplicon 16S rRNA gene libraries created from whole sediments, albeit at low (up to 2% relative abundance. We provide genomic evidence from our isolates demonstrating that the Arthrobacter and Pseudomonas isolates have the potential to respire nitrate and oxygen, though dissimilatory nitrate reduction could not be confirmed in laboratory cultures. The cultures from this study represent members of environmentally significant phyla, and allow for further studies into geochemical factors impacting life in the deep subsurface.

Deep Subsurface Life from North Pond: Enrichment, Isolation, Characterization and Genomes of Heterotrophic Bacteria.

Science.gov (United States)

Russell, Joseph A; León-Zayas, Rosa; Wrighton, Kelly; Biddle, Jennifer F

2016-01-01

Studies of subsurface microorganisms have yielded few environmentally relevant isolates for laboratory studies. In order to address this lack of cultivated microorganisms, we initiated several enrichments on sediment and underlying basalt samples from North Pond, a sediment basin ringed by basalt outcrops underlying an oligotrophic water-column west of the Mid-Atlantic Ridge at 22°N. In contrast to anoxic enrichments, growth was observed in aerobic, heterotrophic enrichments from sediment of IODP Hole U1382B at 4 and 68 m below seafloor (mbsf). These sediment depths, respectively, correspond to the fringes of oxygen penetration from overlying seawater in the top of the sediment column and upward migration of oxygen from oxic seawater from the basalt aquifer below the sediment. Here we report the enrichment, isolation, initial characterization and genomes of three isolated aerobic heterotrophs from North Pond sediments; an Arthrobacter species from 4 mbsf, and Paracoccus and Pseudomonas species from 68 mbsf. These cultivated bacteria are represented in the amplicon 16S rRNA gene libraries created from whole sediments, albeit at low (up to 2%) relative abundance. We provide genomic evidence from our isolates demonstrating that the Arthrobacter and Pseudomonas isolates have the potential to respire nitrate and oxygen, though dissimilatory nitrate reduction could not be confirmed in laboratory cultures. The cultures from this study represent members of abundant phyla, as determined by amplicon sequencing of environmental DNA extracts, and allow for further studies into geochemical factors impacting life in the deep subsurface.

Physiologically anaerobic microorganisms of the deep subsurface. Progress report, June 1, 1991--May 31, 1992

Energy Technology Data Exchange (ETDEWEB)

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

1992-06-01

A variety of different media were used to isolate facultatively (FAB) and obligately anaerobic bacteria (OAB). These bacteria were isolated from core subsamples obtained from boreholes at the Idaho National Engineering Lab. (INEL) or at the Hanford Lab. (Yakima). Core material was sampled at various depths to 600 feet below the surface. All core samples with culturable bacteria contained at least FAB making thisthe most common physiological type of anaerobic bacteria present in the deep subsurface at these two sites. INEL core samples are characterized by isolates of both FAB and OAB. No isolates of acetogenic, methanogenic, or sulfate reducing bacteria were obtained. Yakima core samples are characterized by a marked predominance of FAB in comparison to OAB. In addition, isolates of acetogenic, methanogenic, and sulfate reducing bacteria were obtained. The Yakima site has the potential for complete anaerobic mineralization of organic compounds whereas this potential appears to be lacking at INEL.

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

different pHs and pressures on the metabolic activities of M. wolfeii, we also calculated their growth rate by measuring methane concentration in the headspace gas samples at regular intervals. In acidic conditions, the growth rate (γ) of M. wolfeii increased with the increase in pressure. In neutral and alkaline conditions, the growth rate (γ) of M. wolfeii initially increased with pressure, but decreased upon further increase of pressure. To investigate the effect of combined pH, pressure, and temperature on the morphology of M. wolfeii, we took phase contrast images of the cells. We did not find any obvious significant alteration in the morphology of M. wolfeii cells. Methanogens, chemolithoautotrophic anaerobic microorganisms, are considered as ideal model microorganisms for Mars. In light of research presented here, we suggest that at least one methanogen, M. wolfeii, could survive in the deep subsurface environment of Mars.

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.

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.

Microbial communities in the deep subsurface

Science.gov (United States)

Krumholz, Lee R.

The diversity of microbial populations and microbial communities within the earth's subsurface is summarized in this review. Scientists are currently exploring the subsurface and addressing questions of microbial diversity, the interactions among microorganisms, and mechanisms for maintenance of subsurface microbial communities. Heterotrophic anaerobic microbial communities exist in relatively permeable sandstone or sandy sediments, located adjacent to organic-rich deposits. These microorganisms appear to be maintained by the consumption of organic compounds derived from adjacent deposits. Sources of organic material serving as electron donors include lignite-rich Eocene sediments beneath the Texas coastal plain, organic-rich Cretaceous shales from the southwestern US, as well as Cretaceous clays containing organic materials and fermentative bacteria from the Atlantic Coastal Plain. Additionally, highly diverse microbial communities occur in regions where a source of organic matter is not apparent but where igneous rock is present. Examples include the basalt-rich subsurface of the Columbia River valley and the granitic subsurface regions of Sweden and Canada. These subsurface microbial communities appear to be maintained by the action of lithotrophic bacteria growing on H2 that is chemically generated within the subsurface. Other deep-dwelling microbial communities exist within the deep sediments of oceans. These systems often rely on anaerobic metabolism and sulfate reduction. Microbial colonization extends to the depths below which high temperatures limit the ability of microbes to survive. Energy sources for the organisms living in the oceanic subsurface may originate as oceanic sedimentary deposits. In this review, each of these microbial communities is discussed in detail with specific reference to their energy sources, their observed growth patterns, and their diverse composition. This information is critical to develop further understanding of subsurface

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,

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

Immobilization of uranium and neptunium by microorganisms in subsurface crystalline rock environments

Energy Technology Data Exchange (ETDEWEB)

Krawczyk-Baersch, Evelyn; Schmeide, Katja; Bok, Frank [Helmholtz-Zentrum Dresden-Rossendorf, Institute of Resource Ecology, P.O. Box 51 01 19, D-01314 Dresden (Germany); Pedersen, Karsten [Department of Civil and Environmental Engineering, Chalmers University of Technology, SE-412 96 Goeteborg (Sweden)

2014-07-01

In crystalline rock, the dominant transport medium for radionuclides is groundwater flowing through subsurface fractures. Since groundwater is containing microorganisms, fracture surfaces support biological growth of microbial communities, the so-called bio-films. The microbial diversity of these bio-films depends on the microbial consortia and the chemical composition of the fracture water. Subsurface bio-films have a significant effect on the adsorption capacity of host rock formations by forming a barrier between the rock surface and the groundwater. They can significantly affect subsurface biogeochemical interactions, leading to the immobilization and adsorption of radionuclides. Microbial studies were performed to evaluate the relevance of microbial processes for the immobilization of radionuclides in a deep crystalline repository for high-level radioactive waste. Studies were performed in Olkiluoto, in the rock characterization facility ONKALO in Finland, and in the Aespoe Hard Rock Laboratory (HRL) in Sweden. Massive 5-10-mm thick bio-films were observed in both sites attached to tunnel walls where groundwater was seeping from bedrock fractures. In experiments the effect of uranium on bio-films was studied on site in the ONKALO tunnel by adding UO{sub 2}(ClO{sub 4}){sub 2} with a final U-concentration of 1.0x10{sup -5} M to the fracture water in a self-constructed flow cell by using detached bio-film samples. bio-film specimens collected for transmission electron microscopy studies indicated that uranium in the bio-film was immobilized intracellularly in microorganisms as needle-shaped uranyl phosphate minerals, similar to meta-Autunite (Ca[UO{sub 2}]{sub 2}[PO{sub 4}]{sub 2}.10-12H{sub 2}O). In contrast, thermodynamic calculation of the theoretical predominant fields of uranium species and time-resolved laser fluorescence spectroscopy showed that the formation of aqueous uranium carbonate species Ca{sub 2}UO{sub 2}(CO{sub 3}){sub 3} and Mg{sub 2}UO{sub 2

Final technical report for project titled Quantitative Characterization of Cell Aggregation/Adhesion as Predictor for Distribution and Transport of Microorganisms in Subsurface Environment

Energy Technology Data Exchange (ETDEWEB)

Gu, April Z. [Northeastern Univ., Boston, MA (United States); Wan, Kai-tak [Northeastern Univ., Boston, MA (United States)

2014-09-02

This project aims to explore and develop enabling methodology and techniques for nano-scale characterization of microbe cell surface contact mechanics, interactions and adhesion quantities that allow for identification and quantification of indicative properties related to microorganism migration and transport behavior in porous media and in subsurface environments. Microbe transport has wide impact and therefore is of great interest in various environmental applications such as in situ or enhanced subsurface bioremediation,filtration processes for water and wastewater treatments and protection of drinking water supplies. Although great progress has been made towards understanding the identities and activities of these microorganisms in the subsurface, to date, little is known of the mechanisms that govern the mobility and transport of microorganisms in DOE’s contaminated sites, making the outcomes of in situ natural attenuation or contaminant stability enhancement unpredictable. Conventionally, movement of microorganisms was believed to follows the rules governing solute (particle) transport. However, recent studies revealed that cell surface properties, especially those pertaining to cell attachment/adhesion and aggregation behavior, can cause the microbe behavior to deviate from non-viable particles and hence greatly influence the mobility and distribution of microorganisms in porous media.This complexity highlights the need to obtain detailed information of cell-cell and cell-surface interactions in order to improve and refine the conceptual and quantitative model development for fate and transport of microorganisms and contaminant in subsurface. Traditional cell surface characterization methods are not sufficient to fully predict the deposition rates and transport behaviors of microorganism observed. A breakthrough of methodology that would allow for quantitative and molecular-level description of intrinsic cell surface properties indicative for cell

Subsurface interactions of actinide species and microorganisms : implications for the bioremediation of actinide-organic mixtures

International Nuclear Information System (INIS)

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

1999-01-01

By reviewing how microorganisms interact with actinides in subsurface environments, we assess how bioremediation controls the fate of actinides. Actinides often are co-contaminants with strong organic chelators, chlorinated solvents, and fuel hydrocarbons. Bioremediation can immobilize the actinides, biodegrade the co-contaminants, or both. Actinides at the IV oxidation state are the least soluble, and microorganisms accelerate precipitation by altering the actinide's oxidation state or its speciation. We describe how microorganisms directly oxidize or reduce actinides and how microbiological reactions that biodegrade strong organic chelators, alter the pH, and consume or produce precipitating anions strongly affect actinide speciation and, therefore, mobility. We explain why inhibition caused by chemical or radiolytic toxicities uniquely affects microbial reactions. Due to the complex interactions of the microbiological and chemical phenomena, mathematical modeling is an essential tool for research on and application of bioremediation involving co-contamination with actinides. We describe the development of mathematical models that link microbiological and geochemical reactions. Throughout, we identify the key research needs

Subsurface interactions of actinide species and microorganisms : implications for the bioremediation of actinide-organic mixtures.

Energy Technology Data Exchange (ETDEWEB)

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

1999-02-12

By reviewing how microorganisms interact with actinides in subsurface environments, we assess how bioremediation controls the fate of actinides. Actinides often are co-contaminants with strong organic chelators, chlorinated solvents, and fuel hydrocarbons. Bioremediation can immobilize the actinides, biodegrade the co-contaminants, or both. Actinides at the IV oxidation state are the least soluble, and microorganisms accelerate precipitation by altering the actinide's oxidation state or its speciation. We describe how microorganisms directly oxidize or reduce actinides and how microbiological reactions that biodegrade strong organic chelators, alter the pH, and consume or produce precipitating anions strongly affect actinide speciation and, therefore, mobility. We explain why inhibition caused by chemical or radiolytic toxicities uniquely affects microbial reactions. Due to the complex interactions of the microbiological and chemical phenomena, mathematical modeling is an essential tool for research on and application of bioremediation involving co-contamination with actinides. We describe the development of mathematical models that link microbiological and geochemical reactions. Throughout, we identify the key research needs.

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.

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

Study of microorganisms present in deep geologic formations

International Nuclear Information System (INIS)

Camus, H.; Lion, R.; Bianchi, A.; Garcin, J.

1987-01-01

This work has been executed in the scope of the studies on high activity radioactive wastes storage in deep geological environments. The authors make reference to an as complete as possible literature on the existence of microorganisms in those environments or under similar conditions. Then they describe the equipment and methods they have implemented to perform their study of the populations present in three deep-reaching drill-holes in Auriat (France), Mol (Belgique) and Troon (Great Britain). The results of the study exhibit the presence of a certain biological activity, well adapted to that particular life environment. Strains appear to be very varied from the taxonomic point of view and seemingly show an important potential of mineral alteration when provided with an adequate source of energy. Complementary studies, using advanced techniques such as those employed during the work forming the basis of this paper, seem necessary for a more accurate evaluation of long-term risks of perturbation of a deep storage site [fr

Subsurface interactions of actinide species and microorganisms. Implications for the bioremediation of actinide-organic mixtures

International Nuclear Information System (INIS)

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

1999-01-01

By reviewing how microorganisms interact with actinides in subsurface environments, the way how bioremediation controls the fate of actinides is assessed. Actinides often are co-contaminants with strong organic chelators, chlorinated solvents, and fuel hydrocarbons. Bioremediation can immobilize the actinides, biodegrade the co-contaminants, or both. Actinides at the IV oxidation state are the least soluble, and microorganisms accelerate precipitation by altering the actinide's oxidation state or its speciation. The way how microorganisms directly oxidize or reduce actinides and how microbiological reactions that biodegrade strong organic chelators, alter the pH, and consume or produce precipitating anions strongly affect actinide speciation and, therefore, mobility is described. Why inhibition caused by chemical or radiolytic toxicities uniquely affects microbial reactions is explained. Due to the complex interactions of the microbiological and chemical phenomena, mathematical modeling is an essential tool for research on and application of bioremediation involving co-contamination with actinides. Development of mathematical models that link microbiological and geochemical reactions is described. Throughout, the key research needs are identified. (author)

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.

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

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

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.

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

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).

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.

Characterization of DNA-repair potential in deep subsurface bacteria challenged by UV light, hydrogen peroxide, and gamma radiation

OpenAIRE

Arrage, Andrew Anthony

1991-01-01

Subsurface bacterial isolates obtained through the DOE Subsurface Science Program were tested for resistance to UV light, gamma radiation and H202. Some deep subsurface bacteria were resistant to UV light, demonstrating â ¥1.0% survival at fluences which resulted in a 0.0001% survival level of E. coli B. The percentage of UV resistant aerobic subsurface bacteria and surface soil bacteria were similar; 30.8% and 25.8% respectively. All of the microaerophilic subsurface isolates ...

Nucleic-acid characterization of the identity and activity of subsurface microorganisms

Science.gov (United States)

Madsen, E. L.

Nucleic-acid approaches to characterizing naturally occurring microorganisms in their habitats have risen to prominence during the last decade. Extraction of deoxyribonucleic-acid (DNA) and ribonucleic-acid (RNA) biomarkers directly from environmental samples provides a new means of gathering information in microbial ecology. This review article defines: (1) the subsurface habitat; (2) what nucleic-acid procedures are; and (3) the types of information nucleic-acid procedures can and cannot reveal. Recent literature examining microbial nucleic acids in the terrestrial subsurface is tabulated and reviewed. The majority of effort to date has focused upon insights into the identity and phylogeny of subsurface microorganisms afforded by analysis of their 16S rRNA genes. Given the power of nucleic-acid-based procedures and their limited application to subsurface habitats to date, many future opportunities await exploration. Au cours des derniers dix ans, les approches basées sur les acides nucléiques sont apparues et devenues essentielles pour caractériser dans leurs habitats les microorganismes existant à l'état naturel. L'extraction directe de l'ADN et de l'ARN, qui sont des biomarqueurs, d'échantillons environnementaux a fourni un nouveau moyen d'obtenir des informations sur l'écologie microbienne. Cet article synthétique définit 1) l'habitat souterrain, 2) ce que sont les procédures basées sur les acides nucléiques, 3) quel type d'informations ces procéedures peuvent et ne peuvent pas révéler. Les travaux récemment publiés concernatn les acides nucléiques microbiens dans le milieu souterrain terrestre sont catalogués et passés en revue. La majorité des efforts pour obtenir es données s'est concentrée sur l'identité et la phylogénie des microorganismes souterrains fournies par l'analyse de leurs gènes 16S rRNA. Étant donné la puissance des procédures basées sur les acides nucléiques et leur application limitée aux habitats souterrains

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

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.

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...

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

[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.

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.

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

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

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

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.

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

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

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.;

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

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.

Improving the biodegradative capacity of subsurface bacteria

International Nuclear Information System (INIS)

Romine, M.F.; Brockman, F.J.

1993-04-01

The continual release of large volumes of synthetic materials into the environment by agricultural and industrial sources over the last few decades has resulted in pollution of the subsurface environment. Cleanup has been difficult because of the relative inaccessibility of the contaminants caused by their wide dispersal in the deep subsurface, often at low concentrations and in large volumes. As a possible solution for these problems, interest in the introduction of biodegradative bacteria for in situ remediation of these sites has increased greatly in recent years (Timmis et al. 1988). Selection of biodegradative microbes to apply in such cleanup is limited to those strains that can survive among the native bacterial and predator community members at the particular pH, temperature, and moisture status of the site (Alexander, 1984). The use of microorganisms isolated from subsurface environments would be advantageous because the organisms are already adapted to the subsurface conditions. The options are further narrowed to strains that are able to degrade the contaminant rapidly, even in the presence of highly recalcitrant anthropogenic waste mixtures, and in conditions that do not require addition of further toxic compounds for the expression of the biodegradative capacity (Sayler et al. 1990). These obstacles can be overcome by placing the genes of well-characterized biodegradative enzymes under the control of promoters that can be regulated by inexpensive and nontoxic external factors and then moving the new genetic constructs into diverse groups of subsurface microbes. ne objective of this research is to test this hypothesis by comparing expression of two different toluene biodegradative enzymatic pathways from two different regulatable promoters in a variety of subsurface isolates

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

Effect of the antimicrobial photodynamic therapy on microorganism reduction in deep caries lesions: a systematic review and meta-analysis

Science.gov (United States)

Ornellas, Pâmela Oliveira; Antunes, Leonardo Santos; Fontes, Karla Bianca Fernandes da Costa; Póvoa, Helvécio Cardoso Corrêa; Küchler, Erika Calvano; Iorio, Natalia Lopes Pontes; Antunes, Lívia Azeredo Alves

2016-09-01

This study aimed to perform a systematic review to assess the effectiveness of antimicrobial photodynamic therapy (aPDT) in the reduction of microorganisms in deep carious lesions. An electronic search was conducted in Pubmed, Web of Science, Scopus, Lilacs, and Cochrane Library, followed by a manual search. The MeSH terms, MeSH synonyms, related terms, and free terms were used in the search. As eligibility criteria, only clinical studies were included. Initially, 227 articles were identified in the electronic search, and 152 studies remained after analysis and exclusion of the duplicated studies; 6 remained after application of the eligibility criteria; and 3 additional studies were found in the manual search. After access to the full articles, three were excluded, leaving six for evaluation by the criteria of the Cochrane Collaboration's tool for assessing risk of bias. Of these, five had some risk of punctuated bias. All results from the selected studies showed a significant reduction of microorganisms in deep carious lesions for both primary and permanent teeth. The meta-analysis demonstrated a significant reduction in microorganism counts in all analyses (p<0.00001). Based on these findings, there is scientific evidence emphasizing the effectiveness of aPDT in reducing microorganisms in deep carious lesions.

A New Sensitive GC-MS-based Method for Analysis of Dipicolinic Acid and Quantifying Bacterial Endospores in Deep Marine Subsurface Sediment

Science.gov (United States)

Fang, J.

2015-12-01

Marine sediments cover more than two-thirds of the Earth's surface and represent a major part of the deep biosphere. Microbial cells and microbial activity appear to be widespread in these sediments. Recently, we reported the isolation of gram-positive anaerobic spore-forming piezophilic bacteria and detection of bacterial endospores in marine subsurface sediment from the Shimokita coalbed, Japan. However, the modern molecular microbiological methods (e.g., DNA-based microbial detection techniques) cannot detect bacterial endospore, because endospores are impermeable and are not stained by fluorescence DNA dyes or by ribosomal RNA staining techniques such as catalysed reporter deposition fluorescence in situ hybridization. Thus, the total microbial cell abundance in the deep biosphere may has been globally underestimated. This emphasizes the need for a new cultivation independent approach for the quantification of bacterial endospores in the deep subsurface. Dipicolinic acid (DPA, pyridine-2,6-dicarboxylic acid) is a universal and specific component of bacterial endospores, representing 5-15wt% of the dry spore, and therefore is a useful indicator and quantifier of bacterial endospores and permits to estimate total spore numbers in the subsurface biosphere. We developed a sensitive analytical method to quantify DPA content in environmental samples using gas chromatography-mass spectrometry. The method is sensitive and more convenient in use than other traditional methods. We applied this method to analyzing sediment samples from the South China Sea (obtained from IODP Exp. 349) to determine the abundance of spore-forming bacteria in the deep marine subsurface sediment. Our results suggest that gram-positive, endospore-forming bacteria may be the "unseen majority" in the deep biosphere.

Nitrogen removal and its relationship with the nitrogen-cycle genes and microorganisms in the horizontal subsurface flow constructed wetlands with different design parameters.

Science.gov (United States)

Chen, Jun; Ying, Guang-Guo; Liu, You-Sheng; Wei, Xiao-Dong; Liu, Shuang-Shuang; He, Liang-Ying; Yang, Yong-Qiang; Chen, Fan-Rong

2017-07-03

This study aims to investigate nitrogen removal and its relationship with the nitrogen-cycle genes and microorganisms in the horizontal subsurface flow constructed wetlands (CWs) with different design parameters. Twelve mesocosm-scale CWs with four substrates and three hydraulic loading rates were set up in the outdoor. The result showed the CWs with zeolite as substrate and HLR of 20 cm/d were selected as the best choice for the TN and NH 3 -N removal. It was found that the single-stage mesocosm-scale CWs were incapable to achieve high removals of TN and NH 3 -N due to inefficient nitrification process in the systems. This was demonstrated by the lower abundance of the nitrification genes (AOA and AOB) than the denitrification genes (nirK and nirS), and the less diverse nitrification microorganisms than the denitrification microorganisms in the CWs. The results also show that microorganism community structure including nitrogen-cycle microorganisms in the constructed wetland systems was affected by the design parameters especially the substrate type. These findings show that nitrification is a limiting factor for the nitrogen removal by CWs.

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.

Sulfide Generation by Dominant Halanaerobium Microorganisms in Hydraulically Fractured Shales

Energy Technology Data Exchange (ETDEWEB)

Booker, Anne E.; Borton, Mikayla A.; Daly, Rebecca A.; Welch, Susan A.; Nicora, Carrie D.; Hoyt, David W.; Wilson, Travis; Purvine, Samuel O.; Wolfe, Richard A.; Sharma, Shikha; Mouser, Paula J.; Cole, David R.; Lipton, Mary S.; Wrighton, Kelly C.; Wilkins, Michael J.; McMahon, Katherine

2017-07-05

Hydraulic fracturing of black shale formations has greatly increased United States oil and natural gas recovery. However, the accumulation of biomass in subsurface reservoirs and pipelines is detrimental because of possible well souring, microbially induced corrosion, and pore clogging. Temporal sampling of produced fluids from a well in the Utica Shale revealed the dominance ofHalanaerobiumstrains within thein situmicrobial community and the potential for these microorganisms to catalyze thiosulfate-dependent sulfidogenesis. From these field data, we investigated biogenic sulfide production catalyzed by aHalanaerobiumstrain isolated from the produced fluids using proteogenomics and laboratory growth experiments. Analysis ofHalanaerobiumisolate genomes and reconstructed genomes from metagenomic data sets revealed the conserved presence of rhodanese-like proteins and anaerobic sulfite reductase complexes capable of converting thiosulfate to sulfide. Shotgun proteomics measurements using aHalanaerobiumisolate verified that these proteins were more abundant when thiosulfate was present in the growth medium, and culture-based assays identified thiosulfate-dependent sulfide production by the same isolate. Increased production of sulfide and organic acids during the stationary growth phase suggests that fermentativeHalanaerobiumuses thiosulfate to remove excess reductant. These findings emphasize the potential detrimental effects that could arise from thiosulfate-reducing microorganisms in hydraulically fractured shales, which are undetected by current industry-wide corrosion diagnostics.

IMPORTANCEAlthough thousands of wells in deep shale formations across the United States have been hydraulically fractured for oil and gas recovery, the impact of microbial metabolism within these environments is poorly understood. Our

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

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.

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

Science.gov (United States)

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

2017-07-04

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

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.

Chemotactic behavior of deep subsurface bacteria toward carbohydrates, amino acids and a chlorinated alkene

Energy Technology Data Exchange (ETDEWEB)

Lopez de Victoria, G. (Puerto Rico Univ., Rio Piedras (Puerto Rico). Dept. of Biology)

1989-02-01

The chemotactic behavior of deep terrestrial subsurface bacteria toward amino acids, carbohydrates and trichloroethylene was assayed using a modification of the capillary method and bacterial enumeration by acridine orange direct counts. Eleven isolates of bacteria isolated from six different geological formations were investigated. A bimodal response rather than an absolute positive or negative response was observed in most assays. Most of the isolates were positively chemotactic to low concentrations of substrates and were repelled by high concentrations of the same substrate. However, this was not the case for trichloroethylene (TCE) which was mostly an attractant and elicited the highest responses in all the isolates when compared with amino acids and carbohydrates. The movement rates of these isolates in aseptic subsurface sediments in the absence and presence of TCE were also determined using a laboratory model. All of the isolates showed distinct response range, peak, and threshold concentrations when exposed to the same substrates suggesting that they are possibly different species as has been inferred from DNA homology studies. 101 refs., 4 figs., 57 tabs.

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.

Identification of subsurface microorganisms at Yucca Mountain

International Nuclear Information System (INIS)

Stetzenbach, L.D.

1994-01-01

Bacteria isolated from ground water samples taken from 31 springs during 1993 were collected and processed according to procedures described in earlier reports. These procedures required aseptic collection of surface water samples in sterile screw-capped containers, transportation to the HRC microbiology laboratory, and culture by spread plating onto R2A medium. The isolates were further processed for identification using a gas chromatographic analysis of fatty acid methyl esters (FAME) extracted from cell membranes. This work generated a presumptive identification of 113 bacterial species distributed among 45 genera using a database obtained from Microbial ID, Inc., Newark, Delaware (MIDI). A preliminary examination of the FAME data was accomplished using cluster analysis and principal component analysis software obtained from MIDI. Typically, bacterial strains that cluster at less than 10 Euclidian distance units have fatty acid patterns consistent among members of the same species. Thus an organism obtained from one source can be recognized if it is isolated again from the same or any other source. This makes it possible to track the distribution of organisms and monitor environmental conditions or fluid transport mechanisms. Microorganisms are seldom found as monocultures in natural environments. They are more likely to be closely associated with other genera with complementary metabolic requirements. An understanding of the indigenous microorganism population is useful in understanding subtle changes in the environment. However, classification of environmental organisms using traditional methods is not ideal because differentiation of species with small variations or genera with very similar taxonomic characteristics is beyond the capabilities of traditional microbiological methods

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.

Denitrifying bacteria from the terrestrial subsurface exposed to mixed waste contamination

International Nuclear Information System (INIS)

Green, Stefan; Prakash, Om; Gihring, Thomas; Akob, Denise M.; Jasrotia, Puja; Jardine, Philip M.; Watson, David B.; Brown, Steven David; Palumbo, Anthony Vito; Kostka, Joel

2010-01-01

In terrestrial subsurface environments where nitrate is a critical groundwater contaminant, few cultivated representatives are available with which to verify the metabolism of organisms that catalyze denitrification. In this study, five species of denitrifying bacteria from three phyla were isolated from subsurface sediments exposed to metal radionuclide and nitrate contamination as part of the U.S. Department of Energy's Oak Ridge Integrated Field Research Challenge (OR-IFRC). Isolates belonged to the genera Afipia and Hyphomicrobium (Alphaproteobacteria), Rhodanobacter (Gammaproteobacteria), Intrasporangium (Actinobacteria) and Bacillus (Firmicutes). Isolates from the phylum Proteobacteria were confirmed as complete denitrifiers, whereas the Gram-positive isolates reduced nitrate to nitrous oxide. Ribosomal RNA gene analyses reveal that bacteria from the genus Rhodanobacter comprise a diverse population of circumneutral to moderately acidophilic denitrifiers at the ORIFRC site, with a high relative abundance in areas of the acidic source zone. Rhodanobacter species do not contain a periplasmic nitrite reductase and have not been previously detected in functional gene surveys of denitrifying bacteria at the OR-IFRC site. Sequences of nitrite and nitrous oxide reductase genes were recovered from the isolates and from the terrestrial subsurface by designing primer sets mined from genomic and metagenomic data and from draft genomes of two of the isolates. We demonstrate that a combination of cultivation, genomic and metagenomic data are essential to the in situ characterization of denitrifiers and that current PCR-based approaches are not suitable for deep coverage of denitrifying microorganisms. Our results indicate that the diversity of denitrifiers is significantly underestimated in the terrestrial subsurface.

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

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

Profiling micro-organic contaminants in groundwater using multi-level piezometers

OpenAIRE

White, Debbie; Lapworth, Dan; Stuart, Marianne; Williams, Peter

2015-01-01

The presence of micro-organic pollutants, including ‘emerging contaminants’ within groundwater is of increasing interest. Robust protocols are required to minimise the introduction of contamination during the sampling process. Below we discuss the sampling protocols used to reduce inputs of plasticisers during the sampling process, as well as the techniques used to characterise the distribution of micro-organic pollutants in the subsurface. In this study multi-level piezometers...

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

Microbiological Transformations of Radionuclides in the Subsurface

International Nuclear Information System (INIS)

Marshall, Matthew J.; Beliaev, Alex S.; Fredrickson, Jim K.

2010-01-01

Microorganisms are ubiquitous in subsurface environments although their populations sizes and metabolic activities can vary considerably depending on energy and nutrient inputs. As a result of their metabolic activities and the chemical properties of their cell surfaces and the exopolymers they produce, microorganisms can directly or indirectly facilitate the biotransformation of radionuclides, thus altering their solubility and overall fate and transport in the environment. Although biosorption to cell surfaces and exopolymers can be an important factor modifying the solubility of some radionuclides under specific conditions, oxidation state is often considered the single most important factor controlling their speciation and, therefore, environmental behavior.

Antibiotic- and heavy-metal resistance in bacteria isolated from deep subsurface in El Callao region, Venezuela

Directory of Open Access Journals (Sweden)

Maura Lina Rojas Pirela

2014-07-01

Full Text Available Título en ingles: Antibiotic- and heavy-metal resistance in bacteria isolated from deep subsurface in El Callao region, Venezuela Título corto: Antibiotic and metal resistance in bacteria from deep subsurface Título en español: Resistencia a antibioticos y metals pesados en bacterias aisladas de subsuelo en la región El Callao, Venezuela Resumen:  Se investigó el efecto de la contaminación con mercurio (Hg en las comunidades bacterianas del subsuelo profundo en la región de El Callao (Estado Bolívar, Venezuela. Se estudiaron comunidades bacterianas de dos niveles de profundidad (-288 m y -388 m en una mina de oro con el propósito de describir las características más relevantes de las bacterias indígenas cultivables que colonizaban esta mina. Se evaluaron los patrones de resistencia a antibióticos y metales pesados, presencia del gen merA y plásmidos en aislados resistentes. Se encontró una elevada frecuencia de bacterias indígenas resistentes al Hg y otros metales pesados. De 76 aislados Hg-resistentes probados 73.7 % fueron adicionalmente resistentes a ampicilina; 86.8 % a cloranfenicol; 67.1 % a tetraciclina; 56.6 % a estreptomicina y 51.3 % a kanamicina. Además, se encontró que 40.74 % (-328 m y 26.53 % (-388 m de las bacterias Hg-resistentes fueron simultáneamente resistentes tanto a cuatro como a cinco de estos antibióticos. Se detectó la presencia de plásmidos de alto y bajo peso molecular y, a pesar de que los aislados mostraban resistencia a compuestos mercuriales, la presencia del gen merA fue detectada solo en 71.05 % de los cepas. Estos resultados sugieren que la exposición a Hg podría ser una presión selectiva en la proliferación de bacterias resistentes a antibióticos y promover el mantenimiento y propagación de estos genes de resistencia. Sin embargo, la existencia de tales resistencias a estas profundidades podría también apoyar la idea de que la resistencia a antibióticos en estas bacterias es

ENGINEERING ISSUE: IN SITU BIOREMEDIATION OF CONTAMINATED UNSATURATED SUBSURFACE SOILS

Science.gov (United States)

An emerging technology for the remediation of unsaturated subsurface soils involves the use of microorganisms to degrade contaminants which are present in such soils. Understanding the processes which drive in situ bioremediation, as well as the effectiveness and efficiency of th...

Microorganisms and their influence on radionuclide migration in igneous rock environments

International Nuclear Information System (INIS)

Pedersen, Karsten

2005-01-01

Microorganisms interact with their surroundings and in some cases they greatly modify the characteristics of their environment. Several such interactions may have a significant influence on the behaviour of radionuclides possibly escaping from underground radioactive waste repositories. Microbes can mobilise trace elements. Unattached microbes may act as large colloids, transporting radionuclides on their cell surfaces with the groundwater flow. Many microbes produce ligands that can mobilise trace elements from solid phases and that can inhibit trace element sorption to solid phases. Bacterial species from the deep subsurface have demonstrated a significant effect on the mobilization of 59 Fe(III), 147 Pm(III), 234 Th(IV) and 241 Am(III) under varying redox conditions. The extent of bacterial immobilisation of radionuclides has been investigated under in situ conditions. Experiments have demonstrated this effect with 60 Co, 147 Pm, 234 Th, 237 Np, and 232 U. A large group of microbes catalyse the formation of iron oxides from dissolved ferrous iron in groundwater that reaches an oxidising environment. Such biological iron oxide systems (BIOS) will have a retardation effect on many radionuclides. Microorganisms execute an important influence on the chemical situation in groundwater. Especially, they may catalyse reactions that stabilise the redox potential in groundwater at a low and, therefore, beneficial level for a radioactive waste repository. (author)

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.

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

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

cultivable microorganism could be isolated. - The genetic exploration of these samples revealed a very low biomass and a poor diversity composed mainly of aerobic and facultative anaerobic mesophilic members of the Bacteria domain. This unexpected microbial community also found in many subsurface ecosystems as well as in extreme ones 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. This study is a part of the program TAPPS2000 (Present and past transfers in a sedimentary aquifer - aquitard system: a 2000 meter deep drill-hole in the Mesozoic of the Paris Basin). (authors)

Some Ecological Mechanisms to Generate Habitability in Planetary Subsurface Areas by Chemolithotrophic Communities: The Ro Tinto Subsurface Ecosystem as a Model System

Science.gov (United States)

Fernández-Remolar, David C.; Gómez, Felipe; Prieto-Ballesteros, Olga; Schelble, Rachel T.; Rodríguez, Nuria; Amiols, Ricardo

2008-02-01

Chemolithotrophic communities that colonize subsurface habitats have great relevance for the astrobiological exploration of our Solar System. We hypothesize that the chemical and thermal stabilization of an environment through microbial activity could make a given planetary region habitable. The MARTE project ground-truth drilling campaigns that sampled cryptic subsurface microbial communities in the basement of the Ro Tinto headwaters have shown that acidic surficial habitats are the result of the microbial oxidation of pyritic ores. The oxidation process is exothermic and releases heat under both aerobic and anaerobic conditions. These microbial communities can maintain the subsurface habitat temperature through storage heat if the subsurface temperature does not exceed their maximum growth temperature. In the acidic solutions of the Ro Tinto, ferric iron acts as an effective buffer for controlling water pH. Under anaerobic conditions, ferric iron is the oxidant used by microbes to decompose pyrite through the production of sulfate, ferrous iron, and protons. The integration between the physical and chemical processes mediated by microorganisms with those driven by the local geology and hydrology have led us to hypothesize that thermal and chemical regulation mechanisms exist in this environment and that these homeostatic mechanisms could play an essential role in creating habitable areas for other types of microorganisms. Therefore, searching for the physicochemical expression of extinct and extant homeostatic mechanisms through physical and chemical anomalies in the Mars crust (i.e., local thermal gradient or high concentration of unusual products such as ferric sulfates precipitated out from acidic solutions produced by hypothetical microbial communities) could be a first step in the search for biological traces of a putative extant or extinct Mars biosphere.

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

Some ecological mechanisms to generate habitability in planetary subsurface areas by chemolithotrophic communities: the Río Tinto subsurface ecosystem as a model system.

Science.gov (United States)

Fernández-Remolar, David C; Gómez, Felipe; Prieto-Ballesteros, Olga; Schelble, Rachel T; Rodríguez, Nuria; Amils, Ricardo

2008-02-01

Chemolithotrophic communities that colonize subsurface habitats have great relevance for the astrobiological exploration of our Solar System. We hypothesize that the chemical and thermal stabilization of an environment through microbial activity could make a given planetary region habitable. The MARTE project ground-truth drilling campaigns that sampled cryptic subsurface microbial communities in the basement of the Río Tinto headwaters have shown that acidic surficial habitats are the result of the microbial oxidation of pyritic ores. The oxidation process is exothermic and releases heat under both aerobic and anaerobic conditions. These microbial communities can maintain the subsurface habitat temperature through storage heat if the subsurface temperature does not exceed their maximum growth temperature. In the acidic solutions of the Río Tinto, ferric iron acts as an effective buffer for controlling water pH. Under anaerobic conditions, ferric iron is the oxidant used by microbes to decompose pyrite through the production of sulfate, ferrous iron, and protons. The integration between the physical and chemical processes mediated by microorganisms with those driven by the local geology and hydrology have led us to hypothesize that thermal and chemical regulation mechanisms exist in this environment and that these homeostatic mechanisms could play an essential role in creating habitable areas for other types of microorganisms. Therefore, searching for the physicochemical expression of extinct and extant homeostatic mechanisms through physical and chemical anomalies in the Mars crust (i.e., local thermal gradient or high concentration of unusual products such as ferric sulfates precipitated out from acidic solutions produced by hypothetical microbial communities) could be a first step in the search for biological traces of a putative extant or extinct Mars biosphere.

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

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 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.

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.

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.

Subsurface microbial communities and degradative capacities during trichloroethylene bioremediation

International Nuclear Information System (INIS)

Pfiffner, S.M.; Ringelberg, D.B.; Hedrick, D.B.; Phelps, T.J.; Palumbo, A.V.

1995-01-01

Subsurface amendments of air, methane, and nutrients were investigated for the in situ stimulation of trichloroethylene- degrading microorganisms at the US DOE Savannah River Integrated Demonstration. Amendments were injected into a lower horizontal well coupled with vacuum extraction from the vadose zone horizontal well. The amendments were sequenced to give increasingly more aggressive treatments. Microbial populations and degradative capacities were monitored in groundwaters samples bimonthly

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.

Biotechnologies for Marine Oil Spill Cleanup: Indissoluble Ties with Microorganisms

KAUST Repository

Mapelli, Francesca; Scoma, Alberto; Michoud, Gregoire; Aulenta, Federico; Boon, Nico; Borin, Sara; Kalogerakis, Nicolas; Daffonchio, Daniele

2017-01-01

The ubiquitous exploitation of petroleum hydrocarbons (HCs) has been accompanied by accidental spills and chronic pollution in marine ecosystems, including the deep ocean. Physicochemical technologies are available for oil spill cleanup, but HCs must ultimately be mineralized by microorganisms. How environmental factors drive the assembly and activity of HC-degrading microbial communities remains unknown, limiting our capacity to integrate microorganism-based cleanup strategies with current physicochemical remediation technologies. In this review, we summarize recent findings about microbial physiology, metabolism and ecology and describe how microbes can be exploited to create improved biotechnological solutions to clean up marine surface and deep waters, sediments and beaches.

Biotechnologies for Marine Oil Spill Cleanup: Indissoluble Ties with Microorganisms

KAUST Repository

Mapelli, Francesca

2017-05-13

The ubiquitous exploitation of petroleum hydrocarbons (HCs) has been accompanied by accidental spills and chronic pollution in marine ecosystems, including the deep ocean. Physicochemical technologies are available for oil spill cleanup, but HCs must ultimately be mineralized by microorganisms. How environmental factors drive the assembly and activity of HC-degrading microbial communities remains unknown, limiting our capacity to integrate microorganism-based cleanup strategies with current physicochemical remediation technologies. In this review, we summarize recent findings about microbial physiology, metabolism and ecology and describe how microbes can be exploited to create improved biotechnological solutions to clean up marine surface and deep waters, sediments and beaches.

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.

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

DEFF Research Database (Denmark)

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

2017-01-01

Biological degradation is the main process for oil degradation in a subsurface oil plume. There is, however, little information on the biodegradation potential of Arctic, marine subsurface environments. We therefore investigated oil biodegradation in microcosms at 2 °C containing Arctic subsurfac...... for the C1-naphthalenes. To conclude, the marine subsurface microorganisms from the Disko Bay had the potential for biodegradation of n-alkanes and isoprenoids while the metabolically complex and toxic PACs and their alkylated homologs remained almost unchanged.......Biological degradation is the main process for oil degradation in a subsurface oil plume. There is, however, little information on the biodegradation potential of Arctic, marine subsurface environments. We therefore investigated oil biodegradation in microcosms at 2 °C containing Arctic subsurface...... seawater from the Disko Bay (Greenland) and crude oil at three concentrations of 2.5-10 mg/L. Within 71 days, the total petroleum hydrocarbon concentration decreased only by 18 ± 18% for an initial concentration of 5 mg/L. The saturated alkanes nC13-nC30 and the isoprenoids iC18-iC21 were biodegraded...

Isoprenoid quinones resolve the stratification of microbial redox processes in a biogeochemical continuum from the photic zone to deep anoxic sediments of the Black Sea.

Science.gov (United States)

Becker, Kevin W; Elling, Felix J; Schröder, Jan M; Lipp, Julius S; Goldhammer, Tobias; Zabel, Matthias; Elvert, Marcus; Overmann, Jörg; Hinrichs, Kai-Uwe

2018-03-09

The stratified water column of the Black Sea serves as a model ecosystem for studying the interactions of microorganisms with major biogeochemical cycles. Here we provide detailed analysis of isoprenoid quinones to study microbial redox processes in the ocean. In a continuum from the photic zone through the chemocline into deep anoxic sediments of the southern Black Sea, diagnostic quinones and inorganic geochemical parameters indicate niche segregation between redox processes and corresponding shifts in microbial community composition. Quinones specific for oxygenic photosynthesis and aerobic respiration dominate oxic waters, while quinones associated with thaumarchaeal ammonia-oxidation and bacterial methanotrophy, respectively, dominate a narrow interval in suboxic waters. Quinone distributions indicate highest metabolic diversity within the anoxic zone, with anoxygenic photosynthesis being a major process in its photic layer. In the dark anoxic layer, quinone profiles indicate occurrence of bacterial sulfur and nitrogen cycling, archaeal methanogenesis, and archaeal methanotrophy. Multiple novel ubiquinone isomers, possibly originating from unidentified intra-aerobic anaerobes, occur in this zone. The respiration modes found in the anoxic zone continue into shallow subsurface sediments, but quinone abundances rapidly decrease within the upper 50 cm below sea floor, reflecting the transition to lower energy availability. In the deep subseafloor sediments, quinone distributions and geochemical profiles indicate archaeal methanogenesis/methanotrophy and potentially bacterial fermentative metabolisms. We observed that sedimentary quinone distributions track lithology, which supports prior hypotheses that deep biosphere community composition and metabolisms are determined by environmental conditions during sediment deposition. Importance Microorganisms play crucial roles in global biogeochemical cycles. Yet, we have only a fragmentary understanding of the diversity

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.

Hydrogen utilization potential in subsurface sediments

Directory of Open Access Journals (Sweden)

Rishi Ram Adhikari

2016-01-01

Full Text Available Subsurface microbial communities undertake many terminal electron-accepting processes, often simultaneously. Using a tritium-based assay, we measured the potential hydrogen oxidation catalyzed by hydrogenase enzymes in several subsurface sedimentary environments (Lake Van, Barents Sea, Equatorial Pacific and Gulf of Mexico with different predominant electron-acceptors. Hydrogenases constitute a diverse family of enzymes expressed by microorganisms that utilize molecular hydrogen as a metabolic substrate, product or intermediate. The assay reveals the potential for utilizing molecular hydrogen and allows qualitative detection of microbial activity irrespective of the predominant electron-accepting process. Because the method only requires samples frozen immediately after recovery, the assay can be used for identifying microbial activity in subsurface ecosystems without the need to preserve live material.We measured potential hydrogen oxidation rates in all samples from multiple depths at several sites that collectively span a wide range of environmental conditions and biogeochemical zones. Potential activity normalized to total cell abundance ranges over five orders of magnitude and varies, dependent upon the predominant terminal electron acceptor. Lowest per-cell potential rates characterize the zone of nitrate reduction and highest per-cell potential rates occur in the methanogenic zone. Possible reasons for this relationship to predominant electron acceptor include (i increasing importance of fermentation in successively deeper biogeochemical zones and (ii adaptation of H2ases to successively higher concentrations of H2 in successively deeper zones.

Microbial transformations of natural organic compounds and radionuclides in subsurface environments

International Nuclear Information System (INIS)

Francis, A.J.

1985-10-01

A major national concern in the subsurface disposal of energy wastes is the contamination of ground and surface waters by waste leachates containing radionuclides, toxic metals, and organic compounds. Microorganisms play an important role in the transformation of organic compounds, radionuclides, and toxic metals present in the waste and affect their mobility in subsurface environments. Microbial processes involved in dissolution, mobilization, and immobilization of toxic metals under aerobic and anaerobic conditions are briefly reviewed. Metal complexing agents and several organic acids produced by microbial action affect mobilization of radionuclides and toxic metals in subsurface environments. Information on the persistence of and biodegradation rates of synthetic as well as microbiologically produced complexing agents is scarce but important in determining the mobility of metal organic complexes in subsoils. Several gaps in knowledge in the area of microbial transformation of naturally occurring organics, radionuclides, and toxic metals have been identified, and further basic research has been suggested. 31 refs., 1 fig., 3 tabs

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

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

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.

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).

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.

Performance Indicators for Uranium Bioremediation in the Subsurface: Basis and Assessment

Energy Technology Data Exchange (ETDEWEB)

Long, Philip E. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Yabusaki, Steven B. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States)

2006-12-29

The purpose of this letter report is to identify performance indicators for in situ engineered bioremediation of subsurface uranium (U) contamination. This report focuses on in situ treatment of groundwater by biostimulation of extant in situ microbial populations (see http://128.3.7.51/NABIR/generalinfo/primers_guides/03_NABIR_primer.pdf for background information on bioremediation of metals and radionuclides). The treatment process involves amendment of the subsurface with an electron donor such as acetate, lactate, ethanol or other organic compound such that in situ microorganisms mediate the reduction of U(VI) to U(IV). U(VI) precipitates as uraninite or other insoluble U phase. Uranium is thus immobilized in place by such processes and is subject to reoxidation that may remobilize the reduced uranium. Related processes include augmenting the extant subsurface microbial populations, addition of electron acceptors, and introduction of chemically reducing materials such as zero-valent Fe. While metrics for such processes may be similar to those for in situ biostimulation, these related processes are not directly in the scope of this letter report.

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

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.

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 ...

Corrosion of copper in oxygen-deficient groundwater with and without deep bedrock micro-organisms: Characterisation of microbial communities and surface processes

Energy Technology Data Exchange (ETDEWEB)

Huttunen-Saarivirta, E., E-mail: elina.huttunen-saarivirta@vtt.fi [VTT Technical Research Centre of Finland, Materials Performance, Kemistintie 3, FI-02044 VTT (Finland); Rajala, P. [VTT Technical Research Centre of Finland, Materials Performance, Kemistintie 3, FI-02044 VTT (Finland); Bomberg, M. [VTT Technical Research Centre of Finland, Geobiotechnology, Tietotie 2, FI-02044 VTT (Finland); Carpén, L. [VTT Technical Research Centre of Finland, Materials Performance, Kemistintie 3, FI-02044 VTT (Finland)

2017-02-28

Highlights: • Copper was exposed to groundwater with and without deep bedrock micro-organisms. • Biofilm composition was determined and correlated with the behaviour of copper. • Under biotic conditions, the film of Cu{sub 2}S formed on copper surfaces. • Bacterial pool was in a key role for the morphology and properties of Cu{sub 2}S film. • Under abiotic conditions, Cu{sub 2}O systematically developed on copper surfaces. - Abstract: Copper specimens were exposed to oxygen-deficient artificial groundwater in the presence and absence of micro-organisms enriched from the deep bedrock of the planned nuclear waste repository site at Olkiluoto island on the western coast of Finland. During the exposure periods of 4 and 10 months, the copper specimens were subjected to electrochemical measurements. The biofilm developed on the specimens and the water used in the exposures were subjected to microbiological analyses. Changes in the water chemistry were also determined and surfaces of the copper specimens were characterized with respect to the morphology and composition of the formed corrosion products. The results showed that under biotic conditions, redox of the water and open circuit potential (OCP) of the copper specimens were generally negative and resulted in the build-up of a copper sulphide, Cu{sub 2}S, layer due to the activity of sulphate-reducing bacteria (SRB) that were included in the system. In the 4-month test, the electrochemical behaviour of the specimens changed during the exposure and alphaproteobactria Rhizobiales were the dominant bacterial group in the biofilm where the highest corrosion rate was observed. In the 10-month test, however, deltaproteobacteria SRB flourished and the initial electrochemical behaviour and the low corrosion rate of the copper were retained until the end of the test period. Under abiotic conditions, the positive water redox potential and specimen OCP correlated with the formation of copper oxide, Cu{sub 2}O

Corrosion of copper in oxygen-deficient groundwater with and without deep bedrock micro-organisms: Characterisation of microbial communities and surface processes

International Nuclear Information System (INIS)

Huttunen-Saarivirta, E.; Rajala, P.; Bomberg, M.; Carpén, L.

2017-01-01

Highlights: • Copper was exposed to groundwater with and without deep bedrock micro-organisms. • Biofilm composition was determined and correlated with the behaviour of copper. • Under biotic conditions, the film of Cu_2S formed on copper surfaces. • Bacterial pool was in a key role for the morphology and properties of Cu_2S film. • Under abiotic conditions, Cu_2O systematically developed on copper surfaces. - Abstract: Copper specimens were exposed to oxygen-deficient artificial groundwater in the presence and absence of micro-organisms enriched from the deep bedrock of the planned nuclear waste repository site at Olkiluoto island on the western coast of Finland. During the exposure periods of 4 and 10 months, the copper specimens were subjected to electrochemical measurements. The biofilm developed on the specimens and the water used in the exposures were subjected to microbiological analyses. Changes in the water chemistry were also determined and surfaces of the copper specimens were characterized with respect to the morphology and composition of the formed corrosion products. The results showed that under biotic conditions, redox of the water and open circuit potential (OCP) of the copper specimens were generally negative and resulted in the build-up of a copper sulphide, Cu_2S, layer due to the activity of sulphate-reducing bacteria (SRB) that were included in the system. In the 4-month test, the electrochemical behaviour of the specimens changed during the exposure and alphaproteobactria Rhizobiales were the dominant bacterial group in the biofilm where the highest corrosion rate was observed. In the 10-month test, however, deltaproteobacteria SRB flourished and the initial electrochemical behaviour and the low corrosion rate of the copper were retained until the end of the test period. Under abiotic conditions, the positive water redox potential and specimen OCP correlated with the formation of copper oxide, Cu_2O. Furthermore, in the absence of

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

Anaerobic microbial transformations of radioactive wastes in subsurface environments

International Nuclear Information System (INIS)

Francis, A.J.

1984-01-01

Radioactive wastes disposed of in subsurface environments contain a variety of radionuclides and organic compounds. Microorganisms play a major role in the transformation of organic and inorganic constituents of the waste and are partly responsible for the problems encountered at the waste disposal sites. These include microbial degradation of waste forms resulting in trench cover subsidence, migration of radionuclides, and production of radioactive gases such as 14 CO 2 , 14 CH 4 , HT, and CH 3 T. Microbial processes involved in solubilization, mobilization, and immobilization of toxic metals under aerobic and anaerobic conditions are reviewed. Complexing agents and several organic acids produced by microbial action affect mobilization of radionuclides and heavy metals from the wastes. Microorganisms play a significant role in the transformation and cycling of tritium in the environment by (i) oxidation of tritium and tritiated methane under aerobic conditions and (ii) production of tritium and tritiated methane from wastes containing tritiated water and organic compounds under anaerobic conditions. 23 references, 2 figures, 2 tables

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.

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

Science.gov (United States)

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

2012-12-01

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

Comparative evolution of the recA gene of surface and deep subsurface microorganisms (an evolutionary clock of intermediate rate). Final report

Energy Technology Data Exchange (ETDEWEB)

Miller, R.V.

1998-04-01

Because of the ability of the recA protein product to maintain both DNA integrity and increase genetic diversity, this gene may be essential to the survival of microorganisms following the damaging effects of numerous environmental stresses such as exposure to solar UV radiation, exposure to gamma radiation, starvation, and changing environments. While the various activities and amino-acid sequence of recA have been highly conserved among the eubacteria and archaea, little is known as to whether a strict structure-function relationship has been conserved. In other words, are the same regions of this highly plastic, functionally heterogeneous protein involved in the same catalytic capacities throughout the bacterial kingdom? While it is reasonable to assume that this type of conservation has also occurred, we felt it necessary to test the assumption by demonstrating that mutations in different genera of bacteria which eliminate similar functions (i.e., lead to similar phenotypes) are caused by changes in the amino-acid sequence in the same regions of their recA proteins. Therefore, we located the changes in nucleotide sequence in two recA mutants of P. aeruginosa which displayed mutant phenotypes in recombination and UV resistance. Our assumption was that if structure-function relationships held, these mutations would be found in areas already identified as essential for the function of the E. coli recA protein.

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

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

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.

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...

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.

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.

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

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

Natural analogue studies of the role of colloids, natural organics and microorganisms on radionuclide transport

International Nuclear Information System (INIS)

McCarthy, J.F.

1994-01-01

Colloids may be important as a geochemical transport mechanism for radionuclides at geological repositories if they are (1) present in the groundwater, (2) stable with respect to both colloidal and chemical stabilities, (3) capable of adsorbing radionuclides, especially if the sorption is irreversible, and (4) mobile in the subsurface. The available evidence from natural analogue and other field studies relevant to these issues is reviewed, as is the potential role of mobile microorganisms (open-quotes biocolloidsclose quotes) on radionuclide migration. Studies have demonstrated that colloids are ubiquitous in groundwater, although colloid concentrations in deep, geochemically stable systems may be too low to affect radionuclide transport. However, even low colloid populations cannot be dismissed as a potential concern because colloids appear to be stable, and many radionuclides that adsorb to colloids are not readily desorbed over long periods. Field studies offer somewhat equivocal evidence concerning colloid mobility and cannot prove or disprove the significance of colloid transport in the far-field environment. Additional research is needed at new sites to properly represent a repository far-field. Performance assessment would benefit from natural analogue studies to examine colloid behavior at sites encompassing a suite of probable groundwater chemistries and that mimic the types of formations selected for radioactive waste repositories

Microorganism immobilization

Science.gov (United States)

Compere, Alicia L.; Griffith, William L.

1981-01-01

Live metabolically active microorganisms are immobilized on a solid support by contacting particles of aggregate material with a water dispersible polyelectrolyte such as gelatin, crosslinking the polyelectrolyte by reacting it with a crosslinking agent such as glutaraldehyde to provide a crosslinked coating on the particles of aggregate material, contacting the coated particles with live microorganisms and incubating the microorganisms in contact with the crosslinked coating to provide a coating of metabolically active microorganisms. The immobilized microorganisms have continued growth and reproduction functions.

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

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

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.

Complex Systems Science for Subsurface Fate and Transport Report from the August 2009 Workshop

Energy Technology Data Exchange (ETDEWEB)

None

2010-03-01

The subsurface environment, which encompasses the vadose and saturated zones, is a heterogeneous, geologically complex domain. Believed to contain a large percentage of Earth's biomass in the form of microorganisms, the subsurface is a dynamic zone where important biogeochemical cycles work to sustain life. Actively linked to the atmosphere and biosphere through the hydrologic and carbon cycles, the subsurface serves as a storage location for much of Earth's fresh water. Coupled hydrological, microbiological, and geochemical processes occurring within the subsurface environment cause the local and regional natural chemical fluxes that govern water quality. These processes play a vital role in the formation of soil, economically important fossil fuels, mineral deposits, and other natural resources. Cleaning up Department of Energy (DOE) lands impacted by legacy wastes and using the subsurface for carbon sequestration or nuclear waste isolation require a firm understanding of these processes and the documented means to characterize the vertical and spatial distribution of subsurface properties directing water, nutrient, and contaminant flows. This information, along with credible, predictive models that integrate hydrological, microbiological, and geochemical knowledge over a range of scales, is needed to forecast the sustainability of subsurface water systems and to devise ways to manage and manipulate dynamic in situ processes for beneficial outcomes. Predictive models provide the context for knowledge integration. They are the primary tools for forecasting the evolving geochemistry or microbial ecology of groundwater under various scenarios and for assessing and optimizing the potential effectiveness of proposed approaches to carbon sequestration, waste isolation, or environmental remediation. An iterative approach of modeling and experimentation can reveal powerful insights into the behavior of subsurface systems. State-of-science understanding codified

Complex Systems Science for Subsurface Fate and Transport Report from the August 2009 Workshop

International Nuclear Information System (INIS)

2010-01-01

The subsurface environment, which encompasses the vadose and saturated zones, is a heterogeneous, geologically complex domain. Believed to contain a large percentage of Earth's biomass in the form of microorganisms, the subsurface is a dynamic zone where important biogeochemical cycles work to sustain life. Actively linked to the atmosphere and biosphere through the hydrologic and carbon cycles, the subsurface serves as a storage location for much of Earth's fresh water. Coupled hydrological, microbiological, and geochemical processes occurring within the subsurface environment cause the local and regional natural chemical fluxes that govern water quality. These processes play a vital role in the formation of soil, economically important fossil fuels, mineral deposits, and other natural resources. Cleaning up Department of Energy (DOE) lands impacted by legacy wastes and using the subsurface for carbon sequestration or nuclear waste isolation require a firm understanding of these processes and the documented means to characterize the vertical and spatial distribution of subsurface properties directing water, nutrient, and contaminant flows. This information, along with credible, predictive models that integrate hydrological, microbiological, and geochemical knowledge over a range of scales, is needed to forecast the sustainability of subsurface water systems and to devise ways to manage and manipulate dynamic in situ processes for beneficial outcomes. Predictive models provide the context for knowledge integration. They are the primary tools for forecasting the evolving geochemistry or microbial ecology of groundwater under various scenarios and for assessing and optimizing the potential effectiveness of proposed approaches to carbon sequestration, waste isolation, or environmental remediation. An iterative approach of modeling and experimentation can reveal powerful insights into the behavior of subsurface systems. State-of-science understanding codified in models

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.

Acetogenesis in the energy-starved deep biosphere - a paradox?

DEFF Research Database (Denmark)

Lever, Mark

2012-01-01

Under anoxic conditions in sediments, acetogens are often thought to be outcompeted by microorganisms performing energetically more favorable metabolic pathways, such as sulfate reduction or methanogenesis. Recent evidence from deep subseafloor sediments suggesting acetogenesis in the presence of...... to be taken into account to understand microbial survival in the energy-depleted deep biosphere....

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

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.

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

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

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.

Micro-Organ Device

Science.gov (United States)

Gonda, Steve R. (Inventor); Chang, Robert C. (Inventor); Starly, Binil (Inventor); Culbertson, Christopher (Inventor); Holtorf, Heidi L. (Inventor); Sun, Wei (Inventor); Leslie, Julia (Inventor)

2013-01-01

A method for fabricating a micro-organ device comprises providing a microscale support having one or more microfluidic channels and one or more micro-chambers for housing a micro-organ and printing a micro-organ on the microscale support using a cell suspension in a syringe controlled by a computer-aided tissue engineering system, wherein the cell suspension comprises cells suspended in a solution containing a material that functions as a three-dimensional scaffold. The printing is performed with the computer-aided tissue engineering system according to a particular pattern. The micro-organ device comprises at least one micro-chamber each housing a micro-organ; and at least one microfluidic channel connected to the micro-chamber, wherein the micro-organ comprises cells arranged in a configuration that includes microscale spacing between portions of the cells to facilitate diffusion exchange between the cells and a medium supplied from the at least one microfluidic channel.

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

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.

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...

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.

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

AquaDiva: Understanding the Link between the Surface and Subsurface Biogeosphere

Science.gov (United States)

Trumbore, S.; Küsel, K.; Totsche, K. U.; Schwab, V.; Herrmann, M.; Nowak, M. E.; Gleixner, G.

2017-12-01

In the collaborative research project AquaDiva, we combine hydrogeochemical, metagemonic and biogeochemical tools to understand how the complex interactions between geologic setting and surface land use influence the function and biodiversity of the subsurface, especially ground water ecosystems. At the Hainich Critical Zone Exploratory in central Germany, we investigate soil and seepage waters in recharge areas and aquifers in a fractured limestone setting characterized by a dynamic water infiltration regime. Within the Exploratory, we have so far identified three distinct biogeochemical zones in which land use and lithologic differences combine to give rise to surprisingly different biotic communities and hydrogeochemical properties with different degrees of connection to the surface. Here we will focus on how we have combined carbon isotopic, organic biomarkers such as phospholipid fatty acids, and `omics' approaches to determine (i) how deep soil-borne microorganisms can be traced into the subsurface, and (ii) which energy sources sustain microbial life in oligotrophic limestone aquifers. With increasing travel distance to the surface, there is a decline in the abundance of microbes, with less than 5% of the taxa identified overlapping with those identified in the soils. Dissolved organic matter also is altered as it passes through soils, demonstrating an overall increase in molecular weight and a change in molecular makeup as well as radiocarbon content. Using the radiocarbon signature (corrected for the influence of carbonate dissolution), as a way to identify if organic C is being supplied recently by plants, atmosphere sources of energy for communities within the aquifer differ for the identified biogeochemical zones and include (i) dominance of inputs of fresh organic carbon from the surface feeding heterotrophy in oxygenic environments; (ii) CO2 fixation linked to nitrogen and sulfur cycling in anoxic environments and (iii) rock-derived organic matter

Geophysical Monitoring of Coupled Microbial and Geochemical Processes During Stimulated Subsurface Bioremediation

International Nuclear Information System (INIS)

Williams, Kenneth H.; Kemna, Andreas; Wilkins, Michael J.; Druhan, Jennifer L.; Arntzen, Evan V.; N'Guessan, A. Lucie; Long, Philip E.; Hubbard, Susan S.; Banfield, Jillian F.

2009-01-01

Understanding how microorganisms alter their physical and chemical environment during bioremediation is hindered by our inability to resolve subsurface microbial activity with high spatial resolution. Here we demonstrate the use of a minimally invasive geophysical technique to monitor stimulated microbial activity during acetate amendment in an aquifer near Rifle, Colorado. During electrical induced polarization (IP) measurements, spatiotemporal variations in the phase response between imposed electric current and the resultant electric field correlated with changes in groundwater geochemistry accompanying stimulated iron and sulfate reduction and sulfide mineral precipitation. The magnitude of the phase response varied with measurement frequency (0.125 and 1 Hz) and was dependent upon the dominant metabolic process. The spectral effect was corroborated using a biostimulated column experiment containing Rifle sediments and groundwater. Fluids and sediments recovered from regions exhibiting an anomalous phase response were enriched in Fe(II), dissolved sulfide, and cell-associated FeS nanoparticles. The accumulation of mineral precipitates and electroactive ions altered the ability of pore fluids to conduct electrical charge, accounting for the anomalous IP response and revealing the usefulness of multifrequency IP measurements for monitoring mineralogical and geochemical changes accompanying stimulated subsurface bioremediation

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.

Microbiology of transitional groundwater of the porous overburden and underlying shallow fractured bedrock aquifers in Olkiluoto, Finland. October 2005 - January 2006

International Nuclear Information System (INIS)

Pedersen, K.

2007-05-01

The subsurface biosphere on Earth appears to be far more expansive and metabolically and phylogenetically complex than previously thought. A diverse suite of subsurface environments has been reported to support microbial ecosystems, extending from a few meters below the surface to several thousand meters. The discovery of a deep biosphere will have several important implications for underground repositories for radioactive wastes. The main potential effects of microorganisms in the context of a KBS-3 type repository for spent fuel in the bedrock of Olkiluoto are: (1) Oxygen reduction and maintenance of anoxic and reduced conditions. (2) Bio-immobilisation and bio-mobilisation of radionuclides, and the effects from microbial metabolism on radionuclide mobility. (3) Sulphate reduction to sulphide and the risk for copper sulphide corrosion. The main objective of this study was to characterize the geochemistry, biomass and microbial diversity of shallow subsurface groundwater at Olkiluoto, from 4.0 m down to 14.9 m. This objective also permitted the determination of whether or not there is any transition in the shallow depths at Olkiluoto to microbial conditions associated with the deep subsurface. This was the second investigation that covered both shallow and some moderately deep groundwater microbiology in Olkiluoto. The analysis of microbiology is very important for proper understanding of the evolution of geochemical processes in and around the underground research facility ONKALO being constructed at Olkiluoto by Posiva since autumn 2004, as well as for the planned KBS-3 type spent fuel repository at Olkiluoto. There are several conclusions from this investigation that are of importance for ONKALO. The following present day conclusions can be drawn. Continued investigations will update and test them: The shallow biosphere was dominated by oxygen consuming microorganisms that block oxygen migration to deeper groundwater. This effect was most pronounced during the

Genomic and Transcriptomic Evidence for Carbohydrate Consumption Among Microorganisms in a Cold Seep Brine Pool

Directory of Open Access Journals (Sweden)

Weipeng Zhang

2016-11-01

Full Text Available The detailed lifestyle of microorganisms in deep-sea brine environments remains largely unexplored. Using a carefully calibrated genome binning approach, we reconstructed partial to nearly-complete genomes of 51 microorganisms in biofilms from the Thuwal cold seep brine pool of the Red Sea. The recovered metagenome-assembled genomes (MAGs belong to six different phyla: Actinobacteria, Proteobacteria, Candidatus Cloacimonetes, Candidatus Marinimicrobia, Bathyarchaeota and Thaumarchaeota. By comparison with close relatives of these microorganisms, we identified a number of unique genes associated with organic carbon metabolism and energy generation. These genes included various glycoside hydrolases, nitrate and sulfate reductases, putative bacterial microcompartment biosynthetic clusters (BMC, and F420H2 dehydrogenases. Phylogenetic analysis suggested that the acquisition of these genes probably occurred through horizontal gene transfer (HGT. Metatranscriptomics illustrated that glycoside hydrolases are among the most highly expressed genes. Our results suggest that the microbial inhabitants are well adapted to this brine environment, and anaerobic carbohydrate consumption mediated by glycoside hydrolases and electron transport systems (ETSs is a dominant process performed by microorganisms from various phyla within this ecosystem.

Genomic and Transcriptomic Evidence for Carbohydrate Consumption among Microorganisms in a Cold Seep Brine Pool

KAUST Repository

Zhang, Weipeng

2016-11-15

The detailed lifestyle of microorganisms in deep-sea brine environments remains largely unexplored. Using a carefully calibrated genome binning approach, we reconstructed partial to nearly-complete genomes of 51 microorganisms in biofilms from the Thuwal cold seep brine pool of the Red Sea. The recovered metagenome-assembled genomes (MAGs) belong to six different phyla: Actinobacteria, Proteobacteria, Candidatus Cloacimonetes, Candidatus Marinimicrobia, Bathyarchaeota, and Thaumarchaeota. By comparison with close relatives of these microorganisms, we identified a number of unique genes associated with organic carbon metabolism and energy generation. These genes included various glycoside hydrolases, nitrate and sulfate reductases, putative bacterial microcompartment biosynthetic clusters (BMC), and F420H2 dehydrogenases. Phylogenetic analysis suggested that the acquisition of these genes probably occurred through horizontal gene transfer (HGT). Metatranscriptomics illustrated that glycoside hydrolases are among the most highly expressed genes. Our results suggest that the microbial inhabitants are well adapted to this brine environment, and anaerobic carbohydrate consumption mediated by glycoside hydrolases and electron transport systems (ETSs) is a dominant process performed by microorganisms from various phyla within this ecosystem.

Characterization of indigenous oil field microorganisms for microbially enhanced oil recovery (MEOR)

Energy Technology Data Exchange (ETDEWEB)

Sitte, J.; Krueger, M. [Bundesanstalt fuer Geowissenschaften und Rohstoffe (BGR), Hannover (Germany); Biegel, E.; Herold, A. [BASF SE, Ludwigshafen (Germany); Alkan, H. [Wintershall Holding GmbH, Kassel (Germany)

2013-08-01

Microbial activities and their resulting metabolites became a focus of attention for enhanced oil recovery (MEOR, microbial enhanced oil recovery) in the recent years. In order to develop a strategy for a MEOR application in a German oil field operated by Wintershall experiments were performed to investigate different sampling strategies and the microbial communities found in these samples. The objectives of this study were (1) to characterize the indigenous microbial communities, (2) to investigate the dependency of microbial activity/diversity on the different sampling strategies, and (3) to study the influence of the in situ pressure on bacterial growth and metabolite production. Fluids were sampled at the well head (surface) and in situ in approx. 785 m depth to collect uncontaminated production water directly from the reservoir horizon and under the in situ pressure of 31 bar (subsurface). In the lab the pressure was either released quickly or slowly to assess the sensitivity of microorganisms to rapid pressure changes. Quantitative PCR resulted in higher microbial cell numbers in the subsurface than in the surface sample. Biogenic CO{sub 2} and CH{sub 4} formation rates were determined under atmospheric and high pressure conditions in the original fluids, with highest rates found in the surface fluid. Interestingly, no methane was formed in the native fluid samples. While nitrate reduction was exclusively detected in the surface samples, sulfide formation also occurred in the subsurface fluids. Increased CO{sub 2} formation was measured after addition of a variety of substrates in the surface fluids, while only fructose and glucose showed a stimulating effect on CO{sub 2} production for the subsurface sample. Stable enrichment cultures were obtained in complex medium inoculated with the subsurface fluid, both under atmospheric and in situ pressure. Growth experiments with constant or changing pressure, and subsequent DGGE analysis of bacterial 16S rRNA genes

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

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.

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.

2500 high-quality genomes reveal that the biogeochemical cycles of C, N, S and H are cross-linked by metabolic handoffs in the terrestrial subsurface

Science.gov (United States)

Anantharaman, K.; Brown, C. T.; Hug, L. A.; Sharon, I.; Castelle, C. J.; Shelton, A.; Bonet, B.; Probst, A. J.; Thomas, B. C.; Singh, A.; Wilkins, M.; Williams, K. H.; Tringe, S. G.; Beller, H. R.; Brodie, E.; Hubbard, S. S.; Banfield, J. F.

2015-12-01

Microorganisms drive the transformations of carbon compounds in the terrestrial subsurface, a key reservoir of carbon on earth, and impact other linked biogeochemical cycles. Our current knowledge of the microbial ecology in this environment is primarily based on 16S rRNA gene sequences that paint a biased picture of microbial community composition and provide no reliable information on microbial metabolism. Consequently, little is known about the identity and metabolic roles of the uncultivated microbial majority in the subsurface. In turn, this lack of understanding of the microbial processes that impact the turnover of carbon in the subsurface has restricted the scope and ability of biogeochemical models to capture key aspects of the carbon cycle. In this study, we used a culture-independent, genome-resolved metagenomic approach to decipher the metabolic capabilities of microorganisms in an aquifer adjacent to the Colorado River, near Rifle, CO, USA. We sequenced groundwater and sediment samples collected across fifteen different geochemical regimes. Sequence assembly, binning and manual curation resulted in the recovery of 2,542 high-quality genomes, 27 of which are complete. These genomes represent 1,300 non-redundant organisms comprising both abundant and rare community members. Phylogenetic analyses involving ribosomal proteins and 16S rRNA genes revealed the presence of up to 34 new phyla that were hitherto unknown. Less than 11% of all genomes belonged to the 4 most commonly represented phyla that constitute 93% of all currently available genomes. Genome-specific analyses of metabolic potential revealed the co-occurrence of important functional traits such as carbon fixation, nitrogen fixation and use of electron donors and electron acceptors. Finally, we predict that multiple organisms are often required to complete redox pathways through a complex network of metabolic handoffs that extensively cross-link subsurface biogeochemical cycles.

Necromass as a source of energy to microorganisms in marine sediments.

Science.gov (United States)

Bradley, J.; Amend, J.; LaRowe, D.

2017-12-01

Marine sediments constitute one of the largest, most energy-limited biospheres on Earth. Despite increasing exploration and interest characterizing microbial communities in marine sediments, the production and role of microbial dead-matter (necromass) has largely been overlooked. Necromass is produced on a global scale, yet its significance as a power source to heterotrophic microorganisms remains unknown. We developed a physical, bio-energetic and geochemical model to quantify the total power supply from necromass oxidation and the total power demand of living microorganisms in marine sediments. This model is first applied to sediments from the oligotrophic South Pacific Gyre (SPG), where organic carbon and biomass concentrations are extremely low, yet microorganisms persist for millions of years in some of the lowest energy states on Earth. We show that necromass does not supply sufficient power to support the total demands of the living community (maintenance demands of microorganisms in marine sediments for up to 60,000 years following burial. Our model assumes that all counted cells are viable. Yet, if only a fraction of counted cells are alive, the role of necromass as an electron donor in fueling microbial metabolisms is even greater. This new insight requires a reassessment of carbon fluxes in the deep biosphere. By extension, we also demonstrate a mechanism for microbial communities to persist by oxidizing necromass over geological timescales, and thereby endure unfavorable, low-energy settings that might be analogous to conditions on early Earth and on other planetary bodies.

Microorganisms implication in the CO2 geologic storage processes

International Nuclear Information System (INIS)

Dupraz, S.

2008-01-01

A first result of this thesis is the building and validation of a circulation reactor named BCC (Bio-mineralization Control Cell). The reactor has the functionality of a biological reactor and allows a monitoring of physico-chemical characteristics such as Eh, pH, electrical conductivity, spectro-photochemical parameters. It also has a capability of percolation through rock cores. It is a first step toward an analogical modeling of interactions between injected CO 2 and deep bio-spheric components. Moreover, a new spectro-photochemical method for monitoring reduced sulfur species has been developed which allows efficient monitoring of sulfate-reducing metabolisms. In the thesis, we have tested four metabolisms relevant to bio-mineralisation or biological assimilation of CO 2 : a reference ureolytic aerobic strain, Bacillus pasteurii, a sulfate-reducing bacterium, Desulfovibrio longus, a sulfate-reducing consortium (DVcons) and an homoacetogenic bacterium, Acetobacterium carbinolicum. In the case of Bacillus pasteurii, which is considered as a model for non photosynthetic prokaryotic carbonate bio-mineralization, we have demonstrated that the biological basification and carbonate bio-mineralization processes can be modelled accurately both analogically and numerically under conditions relevant to deep CO 2 storage, using a synthetic saline groundwater. We have shown that salinity has a positive effect on CO 2 mineral trapping by this bacterium; we have measured the limits of the system in terms of CO 2 pressure and we have shown that the carbonates that nucleate on intracellular calcium phosphates have specific carbon isotope signatures. The studied deep-subsurface strains (Desulfovibrio longus and Acetobacterium carbinolicum) as well as the sulfate-reducing consortium also have capabilities of converting CO 2 into solid carbonates, much less efficient though than in the case of Bacillus pasteurii. However, once inoculated in synthetic saline groundwater and

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.

Microbially catalyzed nitrate-dependent metal/radionuclide oxidation in shallow subsurface sediments

Science.gov (United States)

Weber, K.; Healy, O.; Spanbauer, T. L.; Snow, D. D.

2011-12-01

enumeration of nitrate-dependent U(IV) oxidizing microorganisms demonstrated an abundant community ranging from 1.61x104 to 2.74x104 cells g-1 sediment. Enrichments initiated verified microbial U reduction and U oxidation coupled to nitrate reduction. Sediment slurries were serially diluted and incubated over a period of eight weeks and compared to uninoculated controls. Oxidation (0-4,554 μg/L) and reduction (0-55 μg/L) of U exceeded uninoculated controls further providing evidence of a U biogeochemical cycling in these subsurface sediments. The oxidation of U(IV) could contribute to U mobilization in the groundwater and result in decreased water quality. Not only could nitrate serve as an oxidant, but Fe(III) could also contribute to U mobilization. Nitrate-dependent Fe(II) oxidation is an environmentally ubiquitous process facilitated by a diversity of microorganisms. Additional research is necessary in order to establish a role of biogenic Fe(III) oxides in U geochemical cycling at this site. These microbially mediated processes could also have a confounding effect on uranium mobility in subsurface environments.

The Astrobiology of the Subsurface: Caves and Rock Fracture Habitats on Earth, Mars and Beyond

Science.gov (United States)

Boston, Penelope J.

2017-01-01

The Astrobiology of the Subsurface: Exploring Cave Habitats on Earth, Mars and Beyond. We are using the spectacular underground landscapes of Earth caves as models for the subsurfaces of other planets. Caves have been detected on the Moon and Mars and are strongly suspected for other bodies in the Solar System including some of the ice covered Ocean Worlds that orbit gas giant planets. The caves we explore and study include many extreme conditions of relevance to planetary astrobiology exploration including high and low temperatures, gas atmospheres poisonous to humans but where exotic microbes can fluorish, highly acidic or salty fluids, heavy metals, and high background radiation levels. Some cave microorganisms eat their way through bedrock, some live in battery acid conditions, some produce unusual biominerals and rare cave formations, and many produce compounds of potential pharmaceutical and industrial significance. We study these unique lifeforms and the physical and chemical biosignatures that they leave behind. Such traces can be used to provide a Field Guide to Unknown Organisms for developing life detection space missions.

Aerobic biodegradation potential of subsurface microorganisms from a jet fuel-contaminated aquifer

International Nuclear Information System (INIS)

Aelion, C.M.; Bradley, P.M.

1991-01-01

Current efforts to remediate subsurface contamination have spurred research in the application of in situ bioremediation. In 1975, a leak of 83,000 gallons (314,189 liters) of jet fuel (JP-4) contaminated a shallow water-table aquifer near North Charleston, S.C. Laboratory experiments were conducted with contaminated sediments to assess the aerobic biodegradation potential of the in situ microbial community. Sediments were incubated with 14 C-labeled organic compounds, and the evolution of 14 CO 2 was measured over time. Gas chromatographic analyses were used to monitor CO 2 production and O 2 consumption under aerobic conditions. Results indicated that the microbes from contaminated sediments remained active despite the potentially toxic effects of JP-4. 14 CO 2 was measured from [ 14 C]glucose respiration in unamended and nitrate-amended samples after 1 day of incubation. Total [ 14 C]glucose metabolism was greater in 1 mM nitrate-amended than in unamended samples because of increased cellular incorporation of 14 C label. [ 14 C]benzene and [ 14 C]toluene were not significantly respired after 3 months of incubation. With the addition of 1 mM NO 3 , CO 2 production measured by gas chromatographic analysis increased linearly during 2 months of incubation at a rte of 0.099 μmol g -1 (dry weight) day -1 while oxygen concentration decreased at a rate of 0.124 μmol g -1 (dry weight) day -1 . With no added nitrate, CO 2 production was not different from that in metabolically inhibited control vials. The results suggest that the in situ microbial community is active despite the JP-4 jet fuel contamination and that biodegradation may be compound specific. Also, the community is strongly nitrogen limited, and nitrogen additions may be required to significantly enhance hydrocarbon biodegradation

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 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.

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.

High-pressure hydrogen respiration in hydrothermal vent samples from the deep biosphere

Science.gov (United States)

Morgan-Smith, D.; Schrenk, M. O.

2013-12-01

Cultivation of organisms from the deep biosphere has met with many challenges, chief among them the ability to replicate this extreme environment in a laboratory setting. The maintenance of in situ pressure levels, carbon sources, and gas concentrations are important, intertwined factors which may all affect the growth of subsurface microorganisms. Hydrogen in particular is of great importance in hydrothermal systems, but in situ hydrogen concentrations are largely disregarded in attempts to culture from these sites. Using modified Hungate-type culture tubes (Bowles et al. 2011) within pressure-retaining vessels, which allow for the dissolution of higher concentrations of gas than is possible with other culturing methods, we have incubated hydrothermal chimney and hydrothermally-altered rock samples from the Lost City and Mid-Cayman Rise hydrothermal vent fields. Hydrogen concentrations up to 15 mmol/kg have been reported from Lost City (Kelley et al. 2005), but data are not yet available from the recently-discovered Mid-Cayman site, and the elevated concentration of 30 mmol/kg is being used in all incubations. We are using a variety of media types to enrich for various metabolic pathways including iron and sulfur reduction under anoxic or microaerophilic conditions. Incubations are being carried out at atmospheric (0.1 MPa), in situ (9, 23, or 50 MPa, depending on site), and elevated (50 MPa) pressure levels. Microbial cell concentrations, taxonomic diversity, and metabolic activities are being monitored during the course of these experiments. These experiments will provide insight into the relationships between microbial activities, pressure, and gas concentrations typical of deep biosphere environments. Results will inform further culturing studies from both fresh and archived samples. References cited: Bowles, M.W., Samarkin, V.A., Joye, S.B. 2011. Improved measurement of microbial activity in deep-sea sediments at in situ pressure and methane concentration

Microbially induced corrosion of carbon steel in deep groundwater environment

Directory of Open Access Journals (Sweden)

Pauliina eRajala

2015-07-01

Full Text Available The metallic low and intermediate level radioactive waste generally consists of carbon steel and stainless steels. The corrosion rate of carbon steel in deep groundwater is typically low, unless the water is very acidic or microbial activity in the environment is high. Therefore, the assessment of microbially induced corrosion of carbon steel in deep bedrock environment has become important for evaluating the safety of disposal of radioactive waste. Here we studied the corrosion inducing ability of indigenous microbial community from a deep bedrock aquifer. Carbon steel coupons were exposed to anoxic groundwater from repository site 100 m depth (Olkiluoto, Finland for periods of three and eight months. The experiments were conducted at both in situ temperature and room temperature to investigate the response of microbial population to elevated temperature. Our results demonstrate that microorganisms from the deep bedrock aquifer benefit from carbon steel introduced to the nutrient poor anoxic deep groundwater environment. In the groundwater incubated with carbon steel the planktonic microbial community was more diverse and 100-fold more abundant compared to the environment without carbon steel. The betaproteobacteria were the most dominant bacterial class in all samples where carbon steel was present, whereas in groundwater incubated without carbon steel the microbial community had clearly less diversity. Microorganisms induced pitting corrosion and were found to cluster inside the corrosion pits. Temperature had an effect on the species composition of microbial community and also affected the corrosion deposits layer formed on the surface of carbon steel.

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

Directory of Open Access Journals (Sweden)

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.

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

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

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.

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.

Microbial Communities and Organic Matter Composition in Surface and Subsurface Sediments of the Helgoland Mud Area, North Sea

Science.gov (United States)

Oni, Oluwatobi E.; Schmidt, Frauke; Miyatake, Tetsuro; Kasten, Sabine; Witt, Matthias; Hinrichs, Kai-Uwe; Friedrich, Michael W.

2015-01-01

The role of microorganisms in the cycling of sedimentary organic carbon is a crucial one. To better understand relationships between molecular composition of a potentially bioavailable fraction of organic matter and microbial populations, bacterial and archaeal communities were characterized using pyrosequencing-based 16S rRNA gene analysis in surface (top 30 cm) and subsurface/deeper sediments (30–530 cm) of the Helgoland mud area, North Sea. Fourier Transform Ion Cyclotron Resonance Mass Spectrometry (FT-ICR MS) was used to characterize a potentially bioavailable organic matter fraction (hot-water extractable organic matter, WE-OM). Algal polymer-associated microbial populations such as members of the Gammaproteobacteria, Bacteroidetes, and Verrucomicrobia were dominant in surface sediments while members of the Chloroflexi (Dehalococcoidales and candidate order GIF9) and Miscellaneous Crenarchaeota Groups (MCG), both of which are linked to degradation of more recalcitrant, aromatic compounds and detrital proteins, were dominant in subsurface sediments. Microbial populations dominant in subsurface sediments (Chloroflexi, members of MCG, and Thermoplasmata) showed strong correlations to total organic carbon (TOC) content. Changes of WE-OM with sediment depth reveal molecular transformations from oxygen-rich [high oxygen to carbon (O/C), low hydrogen to carbon (H/C) ratios] aromatic compounds and highly unsaturated compounds toward compounds with lower O/C and higher H/C ratios. The observed molecular changes were most pronounced in organic compounds containing only CHO atoms. Our data thus, highlights classes of sedimentary organic compounds that may serve as microbial energy sources in methanic marine subsurface environments. PMID:26635758

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.

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.

Influence of autochthonous micro-organisms on sorption and remobilization of technetium and selenium. Final report

International Nuclear Information System (INIS)

Maue, G.; Stroetmann, I.; Dott, W.; Taute, T.; Winkler, A.; Pekdeger, A.

1996-01-01

Within this research project the influence of autochthonous mirco-organisms on immobilization and remobilization of Technetium and Selenium was investigated. Both redoxsensitive radionuclides are part of the waste of nuclear fuel (Tc app. 6%). Former investigations have shown, that immobilization behaviour of both elements could be influenced by micro-organisms. It has not been known, if the autochthonous (or in situ) organisms from greater depth do also have an influence on radionuclide mobility. The autochthonous populations of micro-organisms in deep sediments and their influence on the migration of Tc and Se were investigated in this study. For this reason recirculation column experiments were carried out. Absolutely sterile and anaerobic handling was necessary for the sampling and the further treatment of the sediments and waters used in the experiments. Therefore special methods for sampling, storage and handling had been developed. The results of recirculation column test with autochthonous micro-organisms were compared with sterile parallel tests and were verified with the results of an elaborated version of the hydrogeochemical equilibration code PHREEQE. It was shown that the autochthonous micro-organisms had only very little influence on the migration behaviour. The reason is the very low population (less than 10 E+6 CFU). Nevertheless it has to be taken into consideration, that conventional laboratory experiments for the estimation of the retention capacities of sediments for hazardous waste lead to an overestimation, if the sediments are contaminated with allochthonous micro-organisms (CFU=colony forming units). (orig.) [de

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.

Effects of Atrazine on Soil Microorganisms

Directory of Open Access Journals (Sweden)

Ljiljana Radivojević

2006-01-01

Full Text Available Effects of the herbicide atrazine on soil microorganisms was investigated. Trials were set up in laboratory, on a clay loam soil. Atrazine was applied at 8.0, 40.0 and 80.0 mg/kg soil rates. The abundance of total microorganisms, fungi, actinomycetes, cellulolytic microorganisms and amino-heterotrophs was recorded. Soil samples were collected 1, 7, 14, 21, 30 and 60 days after atrazine treatment for microbiological analyses.The results showed that the intensity of atrazine effect on soil microorganisms depended on treatment rate, exposure time and group of microorganisms. Atrazine had an inhibiting effect on cellulolytic microorganisms and amino-heterotrophs. Initially, it inhibited fungiand actinomycetes but its effect turned into a stimulating one once a population recovered. Atrazine had a stimulating effect on total abundance of microorganisms.

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).

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

Science.gov (United States)

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

2009-01-01

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

Geochemical constraints on sources of metabolic energy for chemolithoautotrophy in ultramafic-hosted deep-sea hydrothermal systems.

Science.gov (United States)

McCollom, Thomas M

2007-12-01

Numerical models are employed to investigate sources of chemical energy for autotrophic microbial metabolism that develop during mixing of oxidized seawater with strongly reduced fluids discharged from ultramafic-hosted hydrothermal systems on the seafloor. Hydrothermal fluids in these systems are highly enriched in H(2) and CH(4) as a result of alteration of ultramafic rocks (serpentinization) in the subsurface. Based on the availability of chemical energy sources, inferences are made about the likely metabolic diversity, relative abundance, and spatial distribution of microorganisms within ultramafic-hosted systems. Metabolic reactions involving H(2) and CH(4), particularly hydrogen oxidation, methanotrophy, sulfate reduction, and methanogenesis, represent the predominant sources of chemical energy during fluid mixing. Owing to chemical gradients that develop from fluid mixing, aerobic metabolisms are likely to predominate in low-temperature environments (energy per kilogram of hydrothermal fluid, while anaerobic metabolic reactions can supply about 1 kJ, which is sufficient to support a maximum of approximately 120 mg (dry weight) of primary biomass production by aerobic organisms and approximately 20-30 mg biomass by anaerobes. The results indicate that ultramafic-hosted systems are capable of supplying about twice as much chemical energy as analogous deep-sea hydrothermal systems hosted in basaltic rocks.

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.

A subsurface Fe-silicate weathering microbiome

Science.gov (United States)

Napieralski, S. A.; Buss, H. L.; Roden, E. E.

2017-12-01

Traditional models of microbially mediated weathering of primary Fe-bearing minerals often invoke organic ligands (e.g. siderophores) used for nutrient acquisition. However, it is well known that the oxidation of Fe(II) governs the overall rate of Fe-silicate mineral dissolution. Recent work has demonstrated the ability of lithtrophic iron oxidizing bacteria (FeOB) to grow via the oxidation of structural Fe(II) in biotite as a source of metabolic energy with evidence suggesting a direct enzymatic attack on the mineral surface. This process necessitates the involvement of dedicated outer membrane proteins that interact with insoluble mineral phases in a process known as extracellular electron transfer (EET). To investigate the potential role FeOB in a terrestrial subsurface weathering system, samples were obtained from the bedrock-saprolite interface (785 cm depth) within the Rio Icacos Watershed of the Luquillo Mountains in Puerto Rico. Prior geochemical evidence suggests the flux of Fe(II) from the weathering bedrock supports a robust lithotrophic microbial community at depth. Current work confirms the activity of microorganism in situ, with a marked increase in ATP near the bedrock-saprolite interface. Regolith recovered from the interface was used as inoculum to establish enrichment cultures with powderized Fe(II)-bearing minerals serving as the sole energy source. Monitoring of the Fe(II)/Fe(total) ratio and ATP generation suggests growth of microorganisms coupled to the oxidation of mineral bound Fe(II). Analysis of 16S rRNA gene and shotgun metagenomic libraries from in situ and enrichment culture samples lends further support to FeOB involvement in the weathering process. Multiple metagenomic bins related to known FeOB, including Betaproteobacteria genera, contain homologs to model EET systems, including Cyc2 and MtoAB. Our approach combining geochemistry and metagenomics with ongoing microbiological and genomic characterization of novel isolates obtained

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

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.

Microorganisms in food technology

Energy Technology Data Exchange (ETDEWEB)

Rose, A H

1981-11-01

Man has been using microorganisms for thousands of years to make bread, cheese, beer, wine, etc. Today, microorganisms can be specially grown or genetically manipulated so as to synthesize high-quality proteins even from low-grade basic materials.

Fossil Microorganisms in Archaean

Science.gov (United States)

Astafleva, Marina; Hoover, Richard; Rozanov, Alexei; Vrevskiy, A.

2006-01-01

Ancient Archean and Proterozoic rocks are the model objects for investigation of rocks comprising astromaterials. The first of Archean fossil microorganisms from Baltic shield have been reported at the last SPIE Conference in 2005. Since this confeence biomorphic structures have been revealed in Archean rocks of Karelia. It was determined that there are 3 types of such bion structures: 1. structures found in situ, in other words microorganisms even-aged with rock matrix, that is real Archean fossils biomorphic structures, that is to say forms inhabited early formed rocks, and 3. younger than Archean-Protherozoic minerali microorganisms, that is later contamination. We made attempt to differentiate these 3 types of findings and tried to understand of burial of microorganisms. The structures belongs (from our point of view) to the first type, or real Archean, forms were under examination. Practical investigation of ancient microorganisms from Green-Stone-Belt of Northern Karelia turns to be very perspective. It shows that even in such ancient time as Archean ancient diverse world existed. Moreover probably such relatively highly organized cyanobacteria and perhaps eukaryotic formes existed in Archean world.

Biosurfactants from marine microorganisms

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Suppasil Maneerat

2005-11-01

Full Text Available Biosurfactants are the surface-active molecules synthesized by microorganisms. With the advantage of environmental compatibility, the demand for biosurfactants has been steadily increasing and may eventually replace their chemically synthesized counterparts. Marine biosurfactants produced by some marine microorganisms have been paid more attention, particularly for the bioremediation of the sea polluted by crude oil. This review describes screening of biosurfactant-producing microorganisms, the determination of biosurfactant activity as well as the recovery of marine surfactant. The uses of marine biosurfactants for bioremediation are also discussed.

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

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

Genetic diversity of archaea in deep-sea hydrothermal vent environments.

Science.gov (United States)

Takai, K; Horikoshi, K

1999-08-01

Molecular phylogenetic analysis of naturally occurring archaeal communities in deep-sea hydrothermal vent environments was carried out by PCR-mediated small subunit rRNA gene (SSU rDNA) sequencing. As determined through partial sequencing of rDNA clones amplified with archaea-specific primers, the archaeal populations in deep-sea hydrothermal vent environments showed a great genetic diversity, and most members of these populations appeared to be uncultivated and unidentified organisms. In the phylogenetic analysis, a number of rDNA sequences obtained from deep-sea hydrothermal vents were placed in deep lineages of the crenarchaeotic phylum prior to the divergence of cultivated thermophilic members of the crenarchaeota or between thermophilic members of the euryarchaeota and members of the methanogen-halophile clade. Whole cell in situ hybridization analysis suggested that some microorganisms of novel phylotypes predicted by molecular phylogenetic analysis were likely present in deep-sea hydrothermal vent environments. These findings expand our view of the genetic diversity of archaea in deep-sea hydrothermal vent environments and of the phylogenetic organization of archaea.

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.

Bacterial diversity and biogeography in deep-sea sediments of the South Atlantic Ocean

DEFF Research Database (Denmark)

Schauer, Regina; Bienhold, Christina; Ramette, Alban

2010-01-01

in 1051 sequences. Phylotypes affiliated with Gammaproteobacteria, Deltaproteobacteria and Acidobacteria were present in all three basins. The distribution of these shared phylotypes seemed to be influenced neither by the Walvis Ridge nor by different deep water masses, suggesting a high dispersal......Microbial biogeographic patterns in the deep sea depend on the ability of microorganisms to disperse. One possible limitation to microbial dispersal may be the Walvis Ridge that separates the Antarctic Lower Circumpolar Deep Water from the North Atlantic Deep Water. We examined bacterial...... communities in three basins of the eastern South Atlantic Ocean to determine diversity and biogeography of bacterial communities in deep-sea surface sediments. The analysis of 16S ribosomal RNA (rRNA) gene clone libraries in each basin revealed a high diversity, representing 521 phylotypes with 98% identity...

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

Subsurface ecosystems. Oil triggered life. Opportunities for the petroleum industry

Energy Technology Data Exchange (ETDEWEB)

Van der Kraan, G.M.

2010-10-05

As it is getting more difficult to retrieve oil from the subsurface, there is a renewed interest from the petroleum industry regarding microbial processes in oil-water systems, like oil reservoirs and their associated refineries. Oil fields are specific ecosystems, they are oxygen depleted, contain a variety of hydrocarbons and often have elevated temperatures and pressures. Through human exploitation, active changes in oil field ecosystems are induced. An example is seawater injection to displace oil. Seawater injection causes a decrease in temperature and induces the growth of sulphate reducing bacteria due to the introduction of sulphate and thereby as a consequence the production of harmful H2S. The current idea is that microorganisms detected in, for example, production water from an oil well, hold additional information on the oil field itself and the processes that are occurring in this oil field during exploitation of the field, so-called 'Biomonitoring'. Through the application of 'smart well' technology, viz. clever exploitation of the oil field, more oil can be retrieved from the field. This however requires new information sources from the field itself. Biotechnology might offer an additional information source. Also it is expected that growth of microorganisms in oil field can plug so called 'thief zones' in oil fields, which forces injected water to take an alternative route and thereby displacing more of the oil. This process however has first to be understood on the pore level. This thesis investigates the concept of 'biomonitoring'. To this purpose the microbial community of water and core samples taken from various oil fields, their separation facilities, and other subsurface environments have been investigated with the use of various molecular techniques like denaturing gradient gel electrophoresis (DGGE) and clone library construction of 16S rRNA gene fragments. The presence of several species can be

Deep sea radionuclides

International Nuclear Information System (INIS)

Kanisch, G.; Vobach, M.

1993-01-01

Every year since 1979, either in sping or in summer, the fishing research vessel 'Walther Herwig' goes to the North Atlantic disposal areas of solid radioactive wastes, and, for comparative purposes, to other areas, in order to collect water samples, plankton and nekton, and, from the deep sea bed, sediment samples and benthos organisms. In addition to data on the radionuclide contents of various media, information about the plankton, nekton and benthos organisms living in those areas and about their biomasses could be gathered. The investigations are aimed at acquiring scientifically founded knowledge of the uptake of radioactive substances by microorganisms, and their migration from the sea bottom to the areas used by man. (orig.) [de

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.

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

Microorganisms involved in MIC

Energy Technology Data Exchange (ETDEWEB)

Sorensen, K. [Danish Technological Institute (Denmark)

2011-07-01

Microbiologically influenced corrosion (MIC) is a widespread problem that is difficult to detect and assess because of its complex mechanism. This paper presents the involvement of microorganisms in MIC. Some of the mechanisms that cause MIC include hydrogen consumption, production of acids, anode-cathode formation and electron shuttling. A classic bio-corrosive microorganism in the oil and gas industry is sulphate-reducing prokaryotes (SRP). Methanogens also increase corrosion rates in metals. Some of the phylogenetic orders detected while studying SRP and methanogens are archaeoglobales, clostridiales, methanosarcinales and methanothermococcus. There were some implications, such as growth of SRP not being correlated with growth of methanogens; methanogens were included in MIC risk assessment. A few examples are used to display how microorganisms are involved in topside corrosion and microbial community in producing wells. From the study, it can be concluded that, MIC risk assessment includes system data and empirical knowledge of the distribution and number of microorganisms in the system.

Radionuclide Geomicrobiology of the Deep Biosphere

DEFF Research Database (Denmark)

Anderson, Craig; Johnsson, Anna; Moll, Henry

2011-01-01

aerobic bacterial metabolism, microbial proliferation, biofilm development, and iron oxide formation. In these environments, the stalk-forming bacterium Gallionella may act as a scaffold for iron oxide precipitation on biological material. In situ work in the Aspo Hard Rock Laboratory tunnel indicated......This review summarizes research into interactions between microorganisms and radionuclides under conditions typical of a repository for high-level radioactive waste in deep hard rock environments at a depth of approximately 500 m. The cell-radionuclide interactions of strains of two bacterial...

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

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

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

Radioresistant microorganisms and food irradiation

Energy Technology Data Exchange (ETDEWEB)

Ito, H [Japan Atomic Energy Research Inst., Takasaki, Gunma. Takasaki Radiation Chemistry Research Establishment

1976-01-01

This paper deals with Micrococcus radiodurans, Arthrobacter radiotolerance, etc., which were isolated and discovered as radioresistant microorganisms. As for the explanation of the mechanism of radioresistance of these microorganisms, the consideration that these organisms have marked repair power of the damaged DNA and have many opportunity to repair the damaged DNA because of their long fission term were cited. The relationship between the radioresistance of microorganisms and food irradiation was also mentioned.

Application of an in-situ soil sampler for assessing subsurface biogeochemical dynamics in a diesel-contaminated coastal site during soil flushing operations.

Science.gov (United States)

Kwon, Man Jae; O'Loughlin, Edward J; Ham, Baknoon; Hwang, Yunho; Shim, Moojoon; Lee, Soonjae

2018-01-15

Subsurface biogeochemistry and contaminant dynamics during the remediation of diesel-contamination by in-situ soil flushing were investigated at a site located in a coastal region. An in-situ sampler containing diesel-contaminated soils separated into two size fractions (fraction were much higher than those in the fraction. Increases in soil TPH in DH1 were consistent with the expected outcomes following well pumping and surfactant injection used to enhance TPH extraction. However, the number of diesel-degrading microorganisms decreased after surfactant injection. 16S-rRNA gene-based analysis also showed that the community composition and diversity depended on both particle size and diesel contamination. The multidisciplinary approach to the contaminated site assessments showed that soil flushing with surfactant enhanced diesel extraction, but negatively impacted in-situ diesel biodegradation as well as groundwater quality. The results also suggest that the in-situ sampler can be an effective monitoring tool for subsurface biogeochemistry as well as contaminant dynamics. Copyright © 2017 Elsevier Ltd. All rights reserved.

Influence of autochthonous micro-organisms on sorption and remobilization of technetium and selenium in different aquifer materials. Final report

International Nuclear Information System (INIS)

Rueden, H.; Maue, G.; Stroetmann, I.; Hornemann, C.; Seichter, M.; Pekdeger, A.; Taute, T.; Winkler, A.; Lange, D.; Majerczyk, D.; Meyer, T.

1998-01-01

In this research project the influence of autochthonous micro-organisms on immobilisation and remobilization of Technetium and Selenium was investigated. Both radionuclides are part of the nuclear fuel waste (Tc app. 6%). Former investigations have shown, that immobilisation behaviour of both elements can be influenced by micro-organisms. The autochthonous population of micro-organisms in deep sediments and their influence on immobilisation of Tc and Se was investigated in this study. For this reason recirculation column tests were carried out. Absolutely sterile and anaerobic handling is necessary handling the sediments and waters used for the experiments. Special methods for sampling, storage and handling were developed. More than 30 sediments have been investigated. The number of colony forming units (CFU) has always been relatively low (less than E+06 CFU). The results of recirculation column tests with autochthonous micro-organisms were compared with sterilized (Co-60) parallel tests and were verified with the results of hydrochemical equilibration code PHREEQUE. Instead of the allochthonous micro-orgamisms the autochthonous organisms showed no significant fixation of the radionuclides due to microbial activity. This is true for various temperatures of 10 C (aquifer temperature) and 20 C (normal laboratory temperature). An addition of an inoculum of the autochthonous micro-organisms developed at breeding temperature of 10 and 20 C had no influence on the radionuclide mobility. Performing conventional laboratory experiments you have to consider an overestimated retardation capacity because of an inevitable contamination with allochthonous micro-organisms. (orig.) [de

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

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.

Remediation of petroleum hydrocarbons by inoculation with laboratory-cultured microorganisms

International Nuclear Information System (INIS)

Maxwell, C.R.; Baqai, H.A.

1995-01-01

An unauthorized release of gasoline from an underground storage tank (UST) impacted the soil and groundwater beneath a maintenance and fueling capacity. The property owner attempted to remediate the site by inoculating wells screened within the unsaturated and saturated zones with laboratory-cultured microorganisms. The inoculation was a one-time event. No nutrients were added to the subsurface. Air was injected into all inoculation wells during the project to promote aerobic microbial activity. At the first groundwater sampling event after inoculation, concentrations of petroleum hydrocarbon constituents increased inoculation wells. Measurements of dissolved oxygen in the groundwater appeared to indicate that oxygen consumption, and thus hydrocarbon degradation, was not occurring. Visual and olfactory evidence of the groundwater indicated evidence of decaying organic matter. After approximately 1 year and a thorough purging of the inoculation wells, decaying matter disappeared and dissolved oxygen and hydrocarbon concentrations generally returned to preproject levels. Further contaminant reduction did not occur, indicating temporary degradation of water quality as a result of the project and unsuccessful remediation

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

40 CFR 725.85 - Microorganism identity.

Science.gov (United States)

2010-07-01

... 40 Protection of Environment 30 2010-07-01 2010-07-01 false Microorganism identity. 725.85 Section... to Information § 725.85 Microorganism identity. (a) Claims applicable to the period prior to... specific microorganism identity at the time of submission of the information. This claim will apply only to...

Transformation of nitrogenous fertilizers of surface and deep application in calcareous soil

International Nuclear Information System (INIS)

Zuo Dongfeng

1990-01-01

The transformations of 15 N labelled fertilizer N in calcareous soil were studied under greennhouse conditions. The experimental results indicate that the ratio of fixed ammonium is closely related to the methods of fertilizer application to the soil. When fertilizer N applied as deep dressing the fixation of nitrogen by clay minerals and microorganisms may markedly reduce the losses of nitrogen, but the amount of nitrogen fixed by the clay minerals and that by microorganisms showed negative correlation (r = -0.9185 ** ). The more the amount of fixed nitrogen by clay minerals, the less by microorganisms. No obvious interrelation between the residual utilization of urea, ammonium bicarbonate, ammonium sulfate and the ammount of nitrogen fixed by organisms can be observed, but the residual utilization of these fertilizers by the succeeding crop has been related to the total amount of mineral nitrogen

Respiratory Pathways Reconstructed by Multi-Omics Analysis in Melioribacter roseus, Residing in a Deep Thermal Aquifer of the West-Siberian Megabasin

Science.gov (United States)

Gavrilov, Sergey; Podosokorskaya, Olga; Alexeev, Dmitry; Merkel, Alexander; Khomyakova, Maria; Muntyan, Maria; Altukhov, Ilya; Butenko, Ivan; Bonch-Osmolovskaya, Elizaveta; Govorun, Vadim; Kublanov, Ilya

2017-01-01

Melioribacter roseus, a representative of recently proposed Ignavibacteriae phylum, is a metabolically versatile thermophilic bacterium, inhabiting subsurface biosphere of the West-Siberian megabasin and capable of growing on various substrates and electron acceptors. Genomic analysis followed by inhibitor studies and membrane potential measurements of aerobically grown M. roseus cells revealed the activity of aerobic respiratory electron transfer chain comprised of respiratory complexes I and IV, and an alternative complex III. Phylogeny reconstruction revealed that oxygen reductases belonged to atypical cc(o/b)o3-type and canonical cbb3–type cytochrome oxidases. Also, two molybdoenzymes of M. roseus were affiliated either with Ttr or Psr/Phs clades, but not with typical respiratory arsenate reductases of the Arr clade. Expression profiling, both at transcripts and protein level, allowed us to assign the role of the terminal respiratory oxidase under atmospheric oxygen concentration for the cc(o/b)o3 cytochrome oxidase, previously proposed to serve for oxygen detoxification only. Transcriptomic analysis revealed the involvement of both molybdoenzymes of M. roseus in As(V) respiration, yet differences in the genomic context of their gene clusters allow to hypothesize about their distinct roles in arsenate metabolism with the ‘Psr/Phs’-type molybdoenzyme being the most probable candidate respiratory arsenate reductase. Basing on multi-omics data, the pathways for aerobic and arsenate respiration were proposed. Our results start to bridge the vigorously increasing gap between homology-based predictions and experimentally verified metabolic processes, what is especially important for understudied microorganisms of novel lineages from deep subsurface environments of Eurasia, which remained separated from the rest of the biosphere for several geological periods. PMID:28713355

Respiratory Pathways Reconstructed by Multi-Omics Analysis in Melioribacter roseus, Residing in a Deep Thermal Aquifer of the West-Siberian Megabasin

Directory of Open Access Journals (Sweden)

Sergey Gavrilov

2017-06-01

Full Text Available Melioribacter roseus, a representative of recently proposed Ignavibacteriae phylum, is a metabolically versatile thermophilic bacterium, inhabiting subsurface biosphere of the West-Siberian megabasin and capable of growing on various substrates and electron acceptors. Genomic analysis followed by inhibitor studies and membrane potential measurements of aerobically grown M. roseus cells revealed the activity of aerobic respiratory electron transfer chain comprised of respiratory complexes I and IV, and an alternative complex III. Phylogeny reconstruction revealed that oxygen reductases belonged to atypical cc(o/bo3-type and canonical cbb3–type cytochrome oxidases. Also, two molybdoenzymes of M. roseus were affiliated either with Ttr or Psr/Phs clades, but not with typical respiratory arsenate reductases of the Arr clade. Expression profiling, both at transcripts and protein level, allowed us to assign the role of the terminal respiratory oxidase under atmospheric oxygen concentration for the cc(o/bo3 cytochrome oxidase, previously proposed to serve for oxygen detoxification only. Transcriptomic analysis revealed the involvement of both molybdoenzymes of M. roseus in As(V respiration, yet differences in the genomic context of their gene clusters allow to hypothesize about their distinct roles in arsenate metabolism with the ‘Psr/Phs’-type molybdoenzyme being the most probable candidate respiratory arsenate reductase. Basing on multi-omics data, the pathways for aerobic and arsenate respiration were proposed. Our results start to bridge the vigorously increasing gap between homology-based predictions and experimentally verified metabolic processes, what is especially important for understudied microorganisms of novel lineages from deep subsurface environments of Eurasia, which remained separated from the rest of the biosphere for several geological periods.

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)

THE EXTREMELY HALOPHILIC MICROORGANISMS, A POSSIBLE MODEL FOR LIFE ON OTHER PLANETS

Directory of Open Access Journals (Sweden)

Sergiu Fendrihan

2017-12-01

Full Text Available Abstract The group of halophilic Archaea was discovered in the beginning of XX th century. They are able to live in more than 2-3 M of sodium chloride concentration that can be found in hypersaline natural lakes, in alkaline saline lakes, in man-made hypersaline mats, in rock salt, in very salted foods, on salted fish, on salted hides, in stromatolites, in saline soils. Their adaptations consist in resistance to high ionic contents with internal accumulation of K ions in order to face high Na ion content from the near environment. They belong to the Halobacteriaceae family. Their adaptation and their resistance to UV radiation and their resistance in oligotrophic conditions in rock salt, apparently over geological times, increase the possibility to find similar microorganisms in the Martian subsurface and in meteorites, and to support the panspermia theory. Some of the research of a working group in this field of activity and their possible uses are shortly reviewed here.

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.

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

Survival of microorganisms representing the three Domains of life inside the International Space Station

Science.gov (United States)

Francesco, Canganella; Giovanna, Bianconi

2007-09-01

The present work was mainly focused to study the response of representative non pathogenic microorganisms to the environment inside the space vehicle at different mission stages (10, 56, and 226 days) within the frame of the Italian ENEIDE mission, from Feb to Oct 2005. Microorganisms were chosen according to their phylogenetic position and cell structures; they were representatives of the three taxonomic domains and belonged to different ecosystems (food, soil, intestinal tract, plants, deep-sea). They were the followings: Thermococcus guaymasensis (Domain Archaea); Saccharomyces cerevisiae (Domain Eucarya); Escherichia coli, Bacillus subtilis, Lactobacillus acidophilus, Enterococcus faecium, Pseudomonas fluorescens, and Rhizobium tropici (Domain Bacteria). As main environmental parameters we were interested in: a) space radiations; b) microgravity; c) temperature. The response of microorganisms was investigated in terms of survival rates, cell structure modifications, and genomic damages. The survival of cells was affected by both radiation doses and intrinsec cell features. As expected, only samples kept on the ISS for 226 days showed significant levels of mortality. Asfar as regard the effect on cell structures, these samples showed also remarkable morphological changes, particularly for Escherichia coli, Enterococcus faecium, and Saccharomyces cerevisiae. The data collected allowed to get new insights into the biological traits of microorganisms exposed to space environment during the flight on a spacecraft. Moreover, the result obtained may be important for the improvement of human conditions aboard space vehicles (nutraceuticals for astronauts and disinfections of ISS modules) and also for the potential development of closed systems devoted to vegetable productions and organic recycling.

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.

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.

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)

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

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).

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.

Environmental assessment of the potential effects of aquifer thermal energy storage systems on microorganisms in groundwater

Energy Technology Data Exchange (ETDEWEB)

Hicks, R.J.; Stewart, D.L.

1988-03-01

The primary objective of this study was to evaluate the potential environmental effects (both adverse and beneficials) of aquifer thermal energy storage (ATES) technology pertaining to microbial communities indigenous to subsurface environments (i.e., aquifers) and the propagation, movement, and potential release of pathogenic microorganisms (specifically, Legionella) within ATES systems. Seasonal storage of thermal energy in aquifers shows great promise to reduce peak demand; reduce electric utility load problems; contribute to establishing favorable economics for district heating and cooling systems; and reduce pollution from extraction, refining, and combustion of fossil fuels. However, concerns that the widespread implementation of this technology may have adverse effects on biological systems indigeneous to aquifers, as well as help to propagate and release pathogenic organisms that enter thee environments need to be resolved. 101 refs., 2 tabs.

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

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.

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)

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

Bioplastics from microorganisms.

Science.gov (United States)

Luengo, José M; García, Belén; Sandoval, Angel; Naharro, Germán; Olivera, Elías R

2003-06-01

The term 'biomaterials' includes chemically unrelated products that are synthesised by microorganisms (or part of them) under different environmental conditions. One important family of biomaterials is bioplastics. These are polyesters that are widely distributed in nature and accumulate intracellularly in microorganisms in the form of storage granules, with physico-chemical properties resembling petrochemical plastics. These polymers are usually built from hydroxy-acyl-CoA derivatives via different metabolic pathways. Depending on their microbial origin, bioplastics differ in their monomer composition, macromolecular structure and physical properties. Most of them are biodegradable and biocompatible, which makes them extremely interesting from the biotechnological point of view.

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.

Using Bacterial Surrogates to Assess Pathogen Transport in the Subsurface: Laboratory and Field Indications of Co-Transport Considerations

Science.gov (United States)

Emelko, M.; Stimson, J. R.; McLellan, N. L.; Mesquita, M.

2009-12-01

Prediction of the transport and fate of colloids and nanoparticles in porous media environments remains challenging because factors such as experimental scale, subsurface heterogeneity, and variable flow paths and fluxes have made it difficult to relate laboratory outcomes to field performance. Moreover, field studies have been plagued with inadequate consideration of ground water flow, reliance on unproven “surrogate” parameters, non-detects at the extraction well, and limited sampling. Riverbank filtration (RBF) is an example of an application for which some predictive capacity regarding colloid transport is desirable. RBF is a relatively low-cost, natural water treatment technology in which surface water contaminants are removed or degraded as the infiltrating water flows from a surface source to abstraction wells. RBF has been used for water treatment for at least 200 years and its potential to provide a significant barrier to microorganisms has been demonstrated. Assignment of microbial treatment credits for RBF remains a regulatory challenge because strategies for demonstrating effective subsurface filtration of organisms are not standardized. The potential passage of Giardia lamblia and Cryptosporidium parvum through RBF systems is of particular regulatory concern because these pathogens are known to be resistant to conventional disinfection processes. The transport or relatively small, pathogenic viruses through RBF systems is also a common concern. To comply with the U.S. Long Term 2 Enhanced Surface Water Treatment Rule, utilities with sufficiently high levels of Cryptosporidium oocysts in their source water must amend existing treatment by choosing from a ‘‘toolbox’’ of technologies, including RBF. Aerobic bacterial spores have been evaluated and proposed by some as surrogates for evaluating drinking water treatment plant performance; they also have been proposed as potential surrogates for Cryptosporidium removal during subsurface filtration

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.

Influence of microorganisms on the oxidation state distribution of multivalent actinides under anoxic conditions

International Nuclear Information System (INIS)

Reed, Donald Timothy; Borkowski, Marian; Lucchini, Jean-Francois; Ams, David; Richmann, M.K.; Khaing, H.; Swanson, J.S.

2010-01-01

The fate and potential mobility of multivalent actinides in the subsurface is receiving increased attention as the DOE looks to cleanup the many legacy nuclear waste sites and associated subsurface contamination. Plutonium, uranium and neptunium are the near-surface multivalent contaminants of concern and are also key contaminants for the deep geologic disposal of nuclear waste. Their mobility is highly dependent on their redox distribution at their contamination source as well as along their potential migration pathways. This redox distribution is often controlled, especially in the near-surface where organic/inorganic contaminants often coexist, by the direct and indirect effects of microbial activity. Under anoxic conditions, indirect and direct bioreduction mechanisms exist that promote the prevalence of lower-valent species for multivalent actinides. Oxidation-state-specific biosorption is also an important consideration for long-term migration and can influence oxidation state distribution. Results of ongoing studies to explore and establish the oxidation-state specific interactions of soil bacteria (metal reducers and sulfate reducers) as well as halo-tolerant bacteria and Archaea for uranium, neptunium and plutonium will be presented. Enzymatic reduction is a key process in the bioreduction of plutonium and uranium, but co-enzymatic processes predominate in neptunium systems. Strong sorptive interactions can occur for most actinide oxidation states but are likely a factor in the stabilization of lower-valent species when more than one oxidation state can persist under anaerobic microbiologically-active conditions. These results for microbiologically active systems are interpreted in the context of their overall importance in defining the potential migration of multivalent actinides in the subsurface.

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".

Microorganism identification technique using radioactive and fluorescent agent

International Nuclear Information System (INIS)

Silman, R.E.

1983-01-01

A method for identifying microorganisms is claimed. An emissive agent is added to a specimen of microorganisms to produce a mix of emissive products. These products are detected and characteristic pattern functioning as an identifier for the microorganisms is derived. The identifier is then compared with identifiers representing known microorganisms

A Holographic Microscope for Detection of Microorganisms on Icy Worlds

Science.gov (United States)

Lindensmith, C. A.; Nadeau, J. L.; Deming, J. W.; Showalter, G. M.; Rider, S.; Bedrossian, M.

2015-12-01

Holography is a well-established imaging technique that uses the interference of light to record and reproduce three-dimensional images of objects. Its use began in the 1960s with the invention of the laser. Digital holographic microscopy (DHM) has several advantages over ordinary imaging microscopy which make it ideal for field and astrobiology use, including no need for focus or scanning so that instruments are readily made autonomous. DHM can produce simultaneous bright-field and quantitative phase-contrast images of the same field, providing additional information about transparent objects, e.g., refractive index and/or thickness; thus it inherently supports effective label-free imaging. We have built a fieldable DHM for detection of microorganisms in bodies of water and in brines collected from sea ice. Ice that appears solid to the eye contains interconnected brine-filled microscopic pores and veins which are occupied by populations of prokaryotes and eukaryotes. The presence of life in "solid" ice has important implications for exploration of icy worlds, where it is unlikely that the first missions will be able to access the subsurface oceans. Using this new instrument, we examined several dozen samples from three different sites around Nuuk, Greenland. In all samples, mixed populations of both prokaryotic and eukaryotic microorganisms were observed. Many of the organisms were motile immediately upon extraction from sea ice, and others became motile after warming or addition of sugars and/or amino acids. Meaningful motility was readily distinguished from turbulence or fluid flow. The spatial resolution of the instrument was better than 1 μm, leading to unambiguous recognition of subcellular structures in eukaryotes, including nuclei and chloroplasts. We present mission scenrios for both orbiters and landers in which DHM may be used as a valuable complement to chemical-based life detection techniques for discovery of cellular life on icy worlds.

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

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.

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

Science.gov (United States)

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

2017-06-01

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

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

The Astrobiology of the Subsurface: Exploring Cave Habitats on Earth, Mars and Beyond

Science.gov (United States)

Boston, Penelope Jane

2016-01-01

We are using the spectacular underground landscapes of Earth caves as models for the subsurfaces of other planets. Caves have been detected on the Moon and Mars and are strongly suspected for other bodies in the Solar System including some of the ice covered Ocean Worlds that orbit gas giant planets. The caves we explore and study include many extreme conditions of relevance to planetary astrobiology exploration including high and low temperatures, gas atmospheres poisonous to humans but where exotic microbes can flourish, highly acidic or salty fluids, heavy metals, and high background radiation levels. Some cave microorganisms eat their way through bedrock, some live in battery acid conditions, some produce unusual biominerals and rare cave formations, and many produce compounds of potential pharmaceutical and industrial significance. We study these unique lifeforms and the physical and chemical biosignatures that they leave behind. Such traces can be used to provide a "Field Guide to Unknown Organisms" for developing life detection space missions.

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

In-Situ Anaerobic Biosurfactant Production Process For Remediation Of DNAPL Contamination In Subsurface Aquifers

Science.gov (United States)

Albino, J. D.; Nambi, I. M.

2009-12-01

Microbial Enhanced Oil Recovery (MEOR) and remediation of aquifers contaminated with hydrophobic contaminants require insitu production of biosurfactants for mobilization of entrapped hydrophobic liquids. Most of the biosurfactant producing microorganisms produce them under aerobic condition and hence surfactant production is limited in subsurface condition due to lack of oxygen. Currently bioremediation involves expensive air sparging or excavation followed by exsitu biodegradation. Use of microorganisms which can produce biosurfactants under anaerobic conditions can cost effectively expedite the process of insitu bioremediation or mobilization. In this work, the feasibility of anaerobic biosurfactant production in three mixed anaerobic cultures prepared from groundwater and soil contaminated with chlorinated compounds and municipal sewage sludge was investigated. The cultures were previously enriched under complete anaerobic conditions in the presence of Tetrachloroethylene (PCE) for more than a year before they were studied for biosurfactant production. Biosurfactant production under anaerobic conditions was simulated using two methods: i) induction of starvation in the microbial cultures and ii) addition of complex fermentable substrates. Positive result for biosurfactant production was not observed when the cultures were induced with starvation by adding PCE as blobs which served as the only terminal electron acceptor. However, slight reduction in interfacial tension was noticed which was caused by the adherence of microbes to water-PCE interface. Biosurfactant production was observed in all the three cultures when they were fed with complex fermentable substrates and surface tension of the liquid medium was lowered below 35 mN/m. Among the fermentable substrates tested, vegetable oil yielded highest amount of biosurfactant in all the cultures. Complete biodegradation of PCE to ethylene at a faster rate was also observed when vegetable oil was amended to the

Extracellular electron transfer mechanisms between microorganisms and minerals

Energy Technology Data Exchange (ETDEWEB)

Shi, Liang; Dong, Hailiang; Reguera, Gemma; Beyenal, Haluk; Lu, Anhuai; Liu, Juan; Yu, Han-Qing; Fredrickson, James K.

2016-08-30

Electrons can be transferred from microorganisms to multivalent metal ions that are associated with minerals and vice versa. As the microbial cell envelope is neither physically permeable to minerals nor electrically conductive, microorganisms have evolved strategies to exchange electrons with extracellular minerals. In this Review, we discuss the molecular mechanisms that underlie the ability of microorganisms to exchange electrons, such as c-type cytochromes and microbial nanowires, with extracellular minerals and with microorganisms of the same or different species. Microorganisms that have extracellular electron transfer capability can be used for biotechnological applications, including bioremediation, biomining and the production of biofuels and nanomaterials.

The ability of microbial community of Lake Baikal bottom sediments associated with gas discharge to carry out the transformation of organic matter under thermobaric conditions

Directory of Open Access Journals (Sweden)

Sergei Viktorovich Bukin

2016-05-01

Full Text Available The ability to compare the composition and metabolic potential of microbial communities inhabiting the subsurface sediment in geographically distinct locations is one of the keys to understanding the evolution and function of the subsurface biosphere. Prospective areas for study of the subsurface biosphere are the sites of hydrocarbon discharges on the bottom of the Lake Baikal rift, where ascending fluxes of gas-saturated fluids and oil from deep layers of bottom sediments seep into near-surface sediment. The samples of surface sediments collected in the area of the Posolskaya Bank methane seep were cultured for 17 months under thermobaric conditions (80°С, 5 MPa with the addition of complementary organic substrate, and a different composition for the gas phase. After incubation, the presence of intact cells of microorganisms, organic matter transformation and the formation of oil biomarkers was confirmed in the samples, with the addition of Baikalian diatom alga Synedra acus detritus, and gas mixture СH4:H2:CO2. Taxonomic assignment of the 16S rRNA sequence data indicates that the predominant sequences in the enrichment were Sphingomonas (55.3%, Solirubrobacter (27.5% and Arthrobacter (16.6%. At the same time, in heat-killed sediment and in sediment without any additional substrates, which were cultivated in a CH4 atmosphere, no geochemical changes were detected, nor the presence of intact cells and 16S rRNA sequences of Bacteria and Archaea. This data may suggest that the decomposition of organic matter under culturing conditions could be performed by microorganisms from low-temperature sediment layers. One possible explanation of this phenomenon is migration of the representatives of the deep thermophilic community through fault zones in the near surface sediment layers, together with gas-bearing fluids.

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)

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.

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

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

Microbiology of transitional groundwater of the porous overburden and underlying fractured bedrock aquifers in Olkiluoto 2004, Finland

International Nuclear Information System (INIS)

Pedersen, K.

2006-07-01

The subsurface biosphere on Earth appears to be far more expansive and metabolically and phylogenetically complex than previously thought. A diverse suite of subsurface environments have been reported to support microbial ecosystems, extending from a few meters below the surface to several hundred meters. The discovery of a deep biosphere will have several important effects on underground repositories for radioactive wastes. The main potential effects of microorganisms in the context of a KBS-3 type repository for spent fuel in the bedrock of Olkiluoto are: Oxygen reduction and maintenance of anoxic and reduced conditions; Bio-immobilisation and bio-mobilisation of radionuclides, and the effects from microbial metabolism on radionuclide mobility; Sulphate reduction to sulphide and the potential for copper sulphide corrosion. The first main objective of this study was to characterize the geochemistry, biomass and microbial diversity of shallow subsurface groundwater at Olkiluoto, from 4.0 m down to 24.5 m. This objective also permitted the determination of whether or not there is any transition in the shallow depths at Olkiluoto to microbial conditions associated with the deep subsurface. The second main objective was to continue the study of biomass and microbial metabolic diversity in deep groundwater of Olkiluoto to a maximal depth of 525 m, using cultivation methods similar to those applied to the shallow groundwater. This was the first investigation that covered both shallow and deep groundwater microbiology. The analysis of microbiology is very important for proper understanding of the evolution of geochemical processes in and around the underground research facility ONKALO being constructed at Olkiluoto by Posiva since autumn 2004, as well as for the planned KBS-3 type spent fuel repository at Olkiluoto. There are several conclusions and hypotheses with respect to the microbiology that are of great importance for ONKALO and for the spent fuel repository. The

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

Final Report Coupled In Silico Microbial and Geochemical Reactive Transport Models: Extension to Multi-Organism Communities, Upscaling, and Experimental Validation

Energy Technology Data Exchange (ETDEWEB)

Lovley, Derek R.

2014-03-05

The project was highly successful in improving the understanding of physiological and ecological factors controlling the growth and interaction of subsurface microorganisms and in developing better strategies for in silico modeling of the interactions of subsurface microorganisms with other species and their environment.

Airborne microorganisms from waste containers.

Science.gov (United States)

Jedlicka, Sabrina S; Stravitz, David M; Lyman, Charles E

2012-01-01

In physician's offices and biomedical labs, biological waste is handled every day. This waste is disposed of in waste containers designed for holding red autoclave bags. The containers used in these environments are closed hands-free containers, often with a step pedal. While these containers protect the user from surface-borne microorganisms, the containers may allow airborne microorganisms to escape via the open/close mechanism because of the air current produced upon open/close cycles. In this study, the air current was shown to be sufficient to allow airborne escape of microorganisms held in the container, including Aspergillus niger. However, bacterial cultures, such as Escherichia coli and Lactococcus lactis did not escape. This may be due to the choice of bacterial cultures and the absence of solid waste, such as dust or other particulate matter in the waste containers, that such strains of bacteria could travel on during aerosolization. We compared these results to those obtained using a re-designed receptacle, which mimimizes air currents, and detected no escaping microorganisms. This study highlights one potential source of airborne contamination in labs, hospitals, and other environments that dispose of biological waste.

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

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

Doppler speedometer for micro-organisms

International Nuclear Information System (INIS)

Penkov, F.; Tuleushev, A.; Lisitsyn, V.; Kim, S.; Tuleushev, Yu.

1996-01-01

Objective of Investigations: Development and creation of the Doppler speedometer for micro-organisms which allows to evaluate, in a real temporal scale, variations in the state of water suspension of micro-organisms under the effect of chemical, physical and other external actions. Statement of the Problem The main problem is absence of reliable, accessible for users and simple, in view of application, Doppler speedometers for micro-organisms. Nevertheless, correlation Doppler spectrometry in the regime of heterodyning the supporting and cell-scattered laser radiation is welt known. The main idea is that the correlation function of photo-current pulses bears an information on the averages over the assembly of cell velocities. For solving the biological problems, construction of auto-correlation function in the real-time regime with the delay time values comprising, function in the real-time regime with the delay time values comprising, nearly, 100 me (10 khz) or higher is needed. Computers of high class manage this problem using but the program software. Due to this, one can simplify applications of the proposed techniques provided he creates the Doppler speedometer for micro-organism on a base of the P entium . Expected Result Manufactured operable mock-up of the Doppler speedometer for micro-organisms in a form of the auxiliary computer block which allows to receive an information, in the real time scale, on the results of external effects of various nature on the cell assembly in transparent medium with a small volume of the studied cell suspension

Inactivation of Microorganisms

Science.gov (United States)

Alzamora, Stella Maris; Guerrero, Sandra N.; Schenk, Marcela; Raffellini, Silvia; López-Malo, Aurelio

Minimal processing techniques for food preservation allow better retention of product flavor, texture, color, and nutrient content than comparable conventional treatments. A wide range of novel alternative physical factors have been intensely investigated in the last two decades. These physical factors can cause inactivation of microorganisms at ambient or sublethal temperatures (e.g., high hydrostatic pressure, pulsed electric fields, ultrasound, pulsed light, and ultraviolet light). These technologies have been reported to reduce microorganism population in foods while avoiding the deleterious effects of severe heating on quality. Among technologies, high-energy ultrasound (i.e., intensities higher than 1 W/cm2, frequencies between 18 and 100 kHz) has attracted considerable interest for food preservation applications (Mason et al., 1996; Povey and Mason, 1998).

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

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

Biofouling of marbles by oxygenic photosynthetic microorganisms.

Science.gov (United States)

Karaca, Zeki; Öztürk, Ayten; Çolak, Emel

2015-08-01

Phototrophic microorganisms disfigure the surfaces of different types of stone. Stone structure is damaged by the activity of photoautotrophic and other microorganisms. However, to date few, investigations have been undertaken into the relationship between microorganisms and the properties of different types of marble. In this study, biological activity of photoautotrophic microorganisms on three types of marble (Yatagan White, Giallo Anticato and Afyon White) was investigated under laboratory conditions over a short period of time. The three types of marble supported the growth of phototrophic microbial communities on their outer and inner layers, turning their original colour from white to a yellowish green colour. The porosity of the marble types facilitated filamentous microbial growth in the presence of water. Scanning electron microscope analysis revealed the accumulation of aggregates such as small spherical, fibrillar, calcified globular bodies on the inner surfaces of the marbles. This suggests that the microscopic characteristics of particular marble types may stimulate the growth of certain types of microorganisms.

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.)

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

Radiation resistance of microorganisms on unsterilized infusion sets

DEFF Research Database (Denmark)

Christensen, E. Ahrensburg; Kristensen, H.; Hoborn, J.

1991-01-01

Three different methods were used for detecting and isolating microorganisms with high radiation resistance from the microbial contamination on infusion sets prior to sterilization. By all three methods, microorganisms with a radiation resistance high enough to be a critical factor in a steriliza......Three different methods were used for detecting and isolating microorganisms with high radiation resistance from the microbial contamination on infusion sets prior to sterilization. By all three methods, microorganisms with a radiation resistance high enough to be a critical factor...

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

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.

Isolation and characterization of Arctic microorganisms decomposing bioplastics.

Science.gov (United States)

Urbanek, Aneta K; Rymowicz, Waldemar; Strzelecki, Mateusz C; Kociuba, Waldemar; Franczak, Łukasz; Mirończuk, Aleksandra M

2017-12-01

The increasing amount of plastic waste causes significant environmental pollution. In this study, screening of Arctic microorganisms which are able to degrade bioplastics was performed. In total, 313 microorganisms were isolated from 52 soil samples from the Arctic region (Spitsbergen). Among the isolated microorganisms, 121 (38.66%) showed biodegradation activity. The ability of clear zone formation on emulsified poly(butylene succinate-co-adipate) (PBSA) was observed for 116 microorganisms (95.87%), on poly(butylene succinate) (PBS) for 73 microorganisms (60.33%), and on poly(ɛ-caprolactone) (PCL) for 102 microorganisms (84.3%). Moreover, the growth of microorganisms on poly(lactic acid) (PLA) agar plates was observed for 56 microorganisms (46.28%). Based on the 16S rRNA sequence, 10 bacterial strains which showed the highest ability for biodegradation were identified as species belonging to Pseudomonas sp. and Rhodococcus sp. The isolated fungal strains were tested for polycaprolactone films and commercial corn and potato starch bags degradation under laboratory conditions. Strains 16G (based on the analysis of a partial 18S rRNA sequence, identified as Clonostachys rosea) and 16H (identified as Trichoderma sp.) showed the highest capability for biodegradation. A particularly high capability for biodegradation was observed for the strain Clonostachys rosea, which showed 100% degradation of starch films and 52.91% degradation of PCL films in a 30-day shake flask experiment. The main advantage of the microorganisms isolated from Arctic environment is the ability to grow at low temperature and efficient biodegradation under this condition. The data suggest that C. rosea can be used in natural and laboratory conditions for degradations of bioplastics.

Is Mars a habitable environment for extremophilic microorganisms from Earth?

Science.gov (United States)

Rettberg, Petra; Reitz, Guenther; Flemming, Hans-Curt; Bauermeister, Anja

In the last decades several sucessful space missions to our neighboring planet Mars have deepened our knowledge about its environmental conditions substantially. Orbiters with intruments for remote sensing and landers with sophisticated intruments for in situ investigations resulted in a better understanding of Mars’ radiation climate, atmospheric composition, geology, and mineralogy. Extensive regions of the surface of Mars are covered with sulfate- and ferric oxide-rich layered deposits. These sediments indicate the possible existence of aqueous, acidic environments on early Mars. Similar environments on Earth harbour a specialised community of microorganisms which are adapted to the local stress factors, e.g. low pH, high concentrations of heavy metal ions, oligotrophic conditions. Acidophilic iron-sulfur bacteria isolated from such habitats on Earth could be considered as model organisms for an important part of a potential extinct Martian ecosystem or an ecosystem which might even exist today in protected subsurface niches. Acidithiobacillus ferrooxidans was chosen as a model organism to study the ability of these bacteria to survive or grow under conditions resembling those on Mars. Stress conditions tested included desiccation, radiation, low temperatures, and high salinity. It was found that resistance to desiccation strongly depends on the mode of drying. Biofilms grown on membrane filters can tolerate longer periods of desiccation than planktonic cells dried without any added protectants, and drying under anaerobic conditions is more favourable to survival than drying in the presence of oxygen. Organic compounds such as trehalose and glycine betaine had a positive influence on survival after drying and freezing. A. ferrooxidans was shown to be sensitive to high salt concentrations, ionizing radiation, and UV radiation. However, the bacteria were able to utilize the iron minerals in Mars regolith mixtures as sole energy source. The survival and growth of

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.

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.

Functional microorganisms for functional food quality.

Science.gov (United States)

Gobbetti, M; Cagno, R Di; De Angelis, M

2010-09-01

Functional microorganisms and health benefits represent a binomial with great potential for fermented functional foods. The health benefits of fermented functional foods are expressed either directly through the interactions of ingested live microorganisms with the host (probiotic effect) or indirectly as the result of the ingestion of microbial metabolites synthesized during fermentation (biogenic effect). Since the importance of high viability for probiotic effect, two major options are currently pursued for improving it--to enhance bacterial stress response and to use alternative products for incorporating probiotics (e.g., ice cream, cheeses, cereals, fruit juices, vegetables, and soy beans). Further, it seems that quorum sensing signal molecules released by probiotics may interact with human epithelial cells from intestine thus modulating several physiological functions. Under optimal processing conditions, functional microorganisms contribute to food functionality through their enzyme portfolio and the release of metabolites. Overproduction of free amino acids and vitamins are two classical examples. Besides, bioactive compounds (e.g., peptides, γ-amino butyric acid, and conjugated linoleic acid) may be released during food processing above the physiological threshold and they may exert various in vivo health benefits. Functional microorganisms are even more used in novel strategies for decreasing phenomenon of food intolerance (e.g., gluten intolerance) and allergy. By a critical approach, this review will aim at showing the potential of functional microorganisms for the quality of functional foods.

Characterization of the deep microbial life in the Altmark natural gas reservoir

Science.gov (United States)

Morozova, D.; Alawi, M.; Vieth-Hillebrand, A.; Kock, D.; Krüger, M.; Wuerdemann, H.; Shaheed, M.

2010-12-01

Within the framework of the CLEAN project (CO2 Largescale Enhanced gas recovery in the Altmark Natural gas field) technical basics with special emphasis on process monitoring are explored by injecting CO2 into a gas reservoir. Our study focuses on the investigation of the in-situ microbial community of the Rotliegend natural gas reservoir in the Altmark, located south of the city Salzwedel, Germany. In order to characterize the microbial life in the extreme habitat we aim to localize and identify microbes including their metabolism influencing the creation and dissolution of minerals. The ability of microorganisms to speed up dissolution and formation of minerals might result in changes of the local permeability and the long-term safety of CO2 storage. However, geology, structure and chemistry of the reservoir rock and the cap rock as well as interaction with saline formation water and natural gases and the injected CO2 affect the microbial community composition and activity. The reservoir located at the depth of approximately 3500 m, is characterised by high salinity (420 g/l) and temperatures up to 127°C. It represents an extreme environment for microbial life and therefore the main focus is on hyperthermophilic, halophilic anaerobic microorganisms. In consequence of the injection of large amounts of CO2 in the course of a commercial EGR (Enhanced Gas Recovery), the environmental conditions (e.g. pH, temperature, pressure and solubility of minerals) for the autochthonous microorganisms will change. Genetic profiling of amplified 16S rRNA genes are applied for detecting structural changes in the community by using PCR- SSCP (PCR-Single-Strand-Conformation Polymorphism), DGGE (Denaturing Gradient Gel Electrophoresis) and 16S rRNA cloning. First results of the baseline survey indicate the presence of microorganisms similar to representatives from other deep environments. The sequence analyses revealed the presence of several H2-oxidising bacteria (Hydrogenophaga sp

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 ...

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.

Redox front formation in an uplifting sedimentary rock sequence: An analogue for redox-controlling processes in the geosphere around deep geological repositories for radioactive waste

International Nuclear Information System (INIS)

Yoshida, H.; Metcalfe, R.; Yamamoto, K.; Murakami, Y.; Hoshii, D.; Kanekiyo, A.; Naganuma, T.; Hayashi, T.

2008-01-01

Subsurface redox fronts control the mobilization and fixation of many trace elements, including potential pollutants such as certain radionuclides. Any safety assessment for a deep geological repository for radioactive wastes needs to take into account adequately the long-term redox processes in the geosphere surrounding the repository. To build confidence in understanding these processes, a redox front in a reduced siliceous sedimentary rock distributed in an uplifting area in Japan has been studied in detail. Geochemical analyses show increased concentrations of Fe and trace elements, including rare earth elements (REEs), at the redox front, even though concentrations of reduced rock matrix constituents show little change. Detailed SEM observations revealed that fossilized microorganisms composed of amorphous granules made exclusively of Fe and Si occur in the rock's pore space. Microbial 16S rDNA analysis suggests that there is presently a zonation of different bacterial groups within the redox band, and bacterial zonation played an important role in the concentration of Fe-oxyhydroxides at the redox front. These water-rock-microbe interactions can be considered analogous to the processes occurring in the redox fronts that would develop around geological repositories for radioactive waste. Once formed, the Fe-oxyhydroxides within such a front would be preserved even after reducing conditions resume following repository closure

Redox front formation in an uplifting sedimentary rock sequence: An analogue for redox-controlling processes in the geosphere around deep geological repositories for radioactive waste

Energy Technology Data Exchange (ETDEWEB)

Yoshida, H. [Nagoya University Museum, Material Research Section, Furocho, Nagoya 464-8602 (Japan)], E-mail: dora@num.nagoya-u.ac.jp; Metcalfe, R. [Quintessa Japan, Queen' s Tower A7-707, Minatomirai, Yokohama 220-6007 (Japan); Yamamoto, K. [Nagoya University Museum, Material Research Section, Furocho, Nagoya 464-8602 (Japan); Murakami, Y. [Japan Atomic Energy Agency (JAEA), Tono Geoscience Centre (Japan); Hoshii, D.; Kanekiyo, A.; Naganuma, T. [Hiroshima University, Higashi Hiroshima, Kagamiyama 1-4-4 (Japan); Hayashi, T. [Asahi University, Department of Dental Pharmacology, Hozumi, Gifu (Japan)

2008-08-15

Subsurface redox fronts control the mobilization and fixation of many trace elements, including potential pollutants such as certain radionuclides. Any safety assessment for a deep geological repository for radioactive wastes needs to take into account adequately the long-term redox processes in the geosphere surrounding the repository. To build confidence in understanding these processes, a redox front in a reduced siliceous sedimentary rock distributed in an uplifting area in Japan has been studied in detail. Geochemical analyses show increased concentrations of Fe and trace elements, including rare earth elements (REEs), at the redox front, even though concentrations of reduced rock matrix constituents show little change. Detailed SEM observations revealed that fossilized microorganisms composed of amorphous granules made exclusively of Fe and Si occur in the rock's pore space. Microbial 16S rDNA analysis suggests that there is presently a zonation of different bacterial groups within the redox band, and bacterial zonation played an important role in the concentration of Fe-oxyhydroxides at the redox front. These water-rock-microbe interactions can be considered analogous to the processes occurring in the redox fronts that would develop around geological repositories for radioactive waste. Once formed, the Fe-oxyhydroxides within such a front would be preserved even after reducing conditions resume following repository closure.

Molecular analysis of the metabolic rates of discrete subsurface populations of sulfate reducers

Energy Technology Data Exchange (ETDEWEB)

Miletto, M.; Williams, K.H.; N' Guessan, A.L.; Lovley, D.R.

2011-04-01

Elucidating the in situ metabolic activity of phylogenetically diverse populations of sulfate-reducing microorganisms that populate anoxic sedimentary environments is key to understanding subsurface ecology. Previous pure culture studies have demonstrated that transcript abundance of dissimilatory (bi)sulfite reductase genes is correlated with the sulfate reducing activity of individual cells. To evaluate whether expression of these genes was diagnostic for subsurface communities, dissimilatory (bi)sulfite reductase gene transcript abundance in phylogenetically distinct sulfate-reducing populations was quantified during a field experiment in which acetate was added to uranium-contaminated groundwater. Analysis of dsrAB sequences prior to the addition of acetate indicated that Desulfobacteraceae, Desulfobulbaceae, and Syntrophaceae-related sulfate reducers were the most abundant. Quantifying dsrB transcripts of the individual populations suggested that Desulfobacteraceae initially had higher dsrB transcripts per cell than Desulfobulbaceae or Syntrophaceae populations, and that the activity of Desulfobacteraceae increased further when the metabolism of dissimilatory metal reducers competing for the added acetate declined. In contrast, dsrB transcript abundance in Desulfobulbaceae and Syntrophaceae remained relatively constant, suggesting a lack of stimulation by added acetate. The indication of higher sulfate-reducing activity in the Desulfobacteraceae was consistent with the finding that Desulfobacteraceae became the predominant component of the sulfate-reducing community. Discontinuing acetate additions resulted in a decline in dsrB transcript abundance in the Desulfobacteraceae. These results suggest that monitoring transcripts of dissimilatory (bi)sulfite reductase genes in distinct populations of sulfate reducers can provide insight into the relative rates of metabolism of different components of the sulfate-reducing community and their ability to respond to

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...

[Characteristics of proteins synthesized by hydrogen-oxidizing microorganisms].

Science.gov (United States)

Volova, T G; Barashkov, V A

2010-01-01

The study was conducted to determine the biological value of proteins synthesized by hydrogen-oxidizing microorganisms--the hydrogen bacteria Alcaligenes eutrophus Z1 and Ralstonia eutropha B5786 and the CO-resistant strain of carboxydobacterium Seliberia carboxydohydrogena Z1062. Based on a number of significant parameters characterizing the biological value of a product, the proteins of hydrogen-oxidizing microorganisms have been found to occupy an intermediate position between traditional animal and plant proteins. The high total protein in biomass of these microorganisms, their complete amino acid content, and availability to proteolytic enzymes allow for us to consider these microorganisms as potential protein producers.

Mechanisms of nickel toxicity in microorganisms

Science.gov (United States)

Macomber, Lee

2014-01-01

Summary Nickel has long been known to be an important human toxicant, including having the ability to form carcinomas, but until recently nickel was believed to be an issue only to microorganisms living in nickel-rich serpentine soils or areas contaminated by industrial pollution. This assumption was overturned by the discovery of a nickel defense system (RcnR/RcnA) found in microorganisms that live in a wide range of environmental niches, suggesting that nickel homeostasis is a general biological concern. To date, the mechanisms of nickel toxicity in microorganisms and higher eukaryotes are poorly understood. In this review, we summarize nickel homeostasis processes used by microorganisms and highlight in vivo and in vitro effects of exposure to elevated concentrations of nickel. On the basis of this evidence we propose four mechanisms of nickel toxicity: 1) nickel replaces the essential metal of metalloproteins, 2) nickel binds to catalytic residues of non-metalloenzymes; 3) nickel binds outside the catalytic site of an enzyme to inhibit allosterically, and 4) nickel indirectly causes oxidative stress. PMID:21799955

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.

Investigations on the populations of introduced and resident micro-organisms in deep repositories and their effects on containment of radioactive wastes

International Nuclear Information System (INIS)

West, J.M.; Arme, S.C.; Christofi, N.; Philp, J.C.

1986-01-01

The present study has sought to establish basic facts concerning the importance of microbial presence in a radioactive waste repository. These are: (1) establishing the presence of microbes in relevant geological formations; (2) defining the importance of isolated groups to radioactive waste containment; (3) establishing the ability of sampled microbes to tolerate repository environmental conditions; (4) conducting preliminary work on microbial ability to influence radionuclide migration characteristics; (5) attempting basic modelling of the effects of micro-organisms on containment and radionuclide migration. Results have shown that micro-organisms of significance (e.g. sulphur cycle bacteria) are present in relevant formations. These groups can tolerate repository conditions and influence migration studies. Their growth, however, would seem to be limited by the nutrient availability. Simple modelling has concentrated on conservative calculations on the constraints of maximum effects of microbial contamination of a high-level waste repository

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

Nanocalorimetric characterization of microbial activity in deep subsurface oceanic crustal fluids

Directory of Open Access Journals (Sweden)

Alberto eRobador

2016-04-01

Full Text Available Although fluids within the upper oceanic basaltic crust harbor a substantial fraction of the total prokaryotic cells on Earth, the energy needs of this microbial population are unknown. In this study, a nanocalorimeter (sensitivity down to 4.3 x 10-3 mJ h-1 ml-1 was used to measure the enthalpy of microbially catalyzed reactions as a function of temperature in samples from two distinct crustal fluid aquifers. Microorganisms in unamended, warm (63 °C and geochemically altered anoxic fluids taken from 292 meters sub-basement (msb near the Juan de Fuca Ridge produced 267.3 mJ of heat over the course of 97 hours during a step-wise isothermal scan from 35.5 to 85.0 °C. Most of this heat signal likely stems from the germination of thermophilic endospores (6.66 x 104 cells ml-1FLUID and their subsequent metabolic activity at temperatures greater than 50 °C. The average cellular energy consumption (1.79 x 10-7 kJ h-1 cell-1 reveals the high metabolic potential of a dormant community transported by fluids circulating through the ocean crust. By contrast, samples taken from 293 msb from cooler (3.8 °C, relatively unaltered oxic fluids, produced 12.8 mJ of heat over the course of 14 hours as temperature ramped from 34.8 to 43.0 °C. Corresponding cell-specific energy turnover rates (0.18 pW cell-1 were converted to oxygen uptake rates of 24.5 nmol O2 ml-1FLUID d-1, validating previous model predictions of microbial activity in this environment. Given that the investigated fluids are characteristic of expansive areas of the upper oceanic crust, the measured metabolic heat rates can be used to constrain boundaries of habitability and microbial activity in the oceanic crust.

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

Decomposition of diesel oil by various microorganisms

Energy Technology Data Exchange (ETDEWEB)

Suess, A; Netzsch-Lehner, A

1969-01-01

Previous experiments demonstrated the decomposition of diesel oil in different soils. In this experiment the decomposition of /sup 14/C-n-Hexadecane labelled diesel oil by special microorganisms was studied. The results were as follows: (1) In the experimental soils the microorganisms Mycoccus ruber, Mycobacterium luteum and Trichoderma hamatum are responsible for the diesel oil decomposition. (2) By adding microorganisms to the soil an increase of the decomposition rate was found only in the beginning of the experiments. (3) Maximum decomposition of diesel oil was reached 2-3 weeks after incubation.

Antimicrobial Compounds from Marine Invertebrates-Derived Microorganisms.

Science.gov (United States)

Liu, Juan; Jung, Jee H; Liu, Yonghong

2016-01-01

It is known that marine invertebrates, including sponges, tunicates, cnidaria or mollusks, host affluent and various communities of symbiotic microorganisms. The microorganisms associated with the invertebrates metabolized various biologically active compounds, which could be an important resource for the discovery and development of potentially novel drugs. In this review, the new compounds with antimicrobial activity isolated from marine invertebrate-derived microorganisms in the last decade (2004-2014) will be presented, with focus on the relevant antimicrobial activities, origin of isolation, and information of strain species. New compounds without antimicrobial activity were not revealed.

Transformation of the insecticide teflubenzuron by microorganisms

NARCIS (Netherlands)

Finkelstein, Z.I.; Baskunov, B.P.; Rietjens, I.M.C.M.; Boersma, M.G.; Vervoort, J.; Golovleva, L.A.

2001-01-01

Transformation of teflubenzuron, the active component in the insecticide commercialized as Nomolt, by soil microorganisms was studied. It was shown that microorganisms, belonging to Bacillus, Alcaligenes, Pseudomonas and Acinetobacter genera are capable to perform the hydrolytic cleavage of the

Identification of subsurface microorganisms at Yucca Mountain

International Nuclear Information System (INIS)

Stetzenbach, L.D.

1993-01-01

Bacteria isolated from water samples collected in a series of ground water springs have been isolated, enumerated, and identified from twenty six sites. Ten sites were sampled in Death Valley, California and sixteen sites were sampled in Ash Meadows, Nevada. Replicate samples were collected and tested from four locations. All water samples were collected in conjunction with the HRC chemistry group conducting ground water fingerprinting studies. The protocol for collection of samples, as described in the 3rd quarterly report, specified aseptic collection in sterile screw-capped containers and transportation on ice to the HRC microbiology laboratory. All samples were inoculated by spread plating onto R2A (Difco Laboratories, Detroit, MI) bacterial culture medium. the R2A plates were then incubated at 28 degrees for 5--7 days and colonies wee counted with the aid of a grid template and magnifying lens

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

Fate of indicator microorganisms under nutrient management plan conditions.

Science.gov (United States)

Bradford, Scott A; Segal, Eran

2009-01-01

Nutrient management plans (NMPs) for application of wastewater from concentrated animal feeding operations are designed to meet crop water and nutrient requirements, but implicitly assume that pathogenic microorganisms in the wastewater will be retained and die-off in the root zone. A NMP was implemented on a field plot to test this assumption by monitoring the fate of several fecal indicator microorganisms (Enterococcus, fecal coliforms, somatic coliphage, and total Escherichia coli). When well-water and wastewater were applied to meet measured evapotranspiration (ET), little advective transport of the indicator microorganisms occurred below the root zone and the remaining microorganisms rapidly died-off (within 1 mo). Additional experiments were conducted in the laboratory to better quantify microorganism transport and survival in the field soil. Batch survival experiments revealed much more rapid die-off rates for the bacterial indicator microorganisms in native than in sterilized soil, suggesting that biotic factors controlled survival. Saturated column experiments with packed field soil, demonstrated much greater transport potential for somatic coliphage than bacterial indicators (Enterococcus and total E. coli) and that the retention rates for the indicator microorganisms were not log-linear with depth. A worst case transport scenario of ponded infiltration on a large undistributed soil column from the field was also initiated and indicator microorganisms were not detected in the column outflow or in the soil at a depth of 65 cm. All of these observations support the hypothesis that a NMP at this site will protect groundwater supplies from microorganism contamination, especially when applied water and wastewater meet ET.

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.

Techniques for assessing the performance of in situ bioreduction and immobilization of metals and radionuclides in contaminated subsurface environments

Energy Technology Data Exchange (ETDEWEB)

Jardine, P.M.; Watson, D.B.; Blake, D.A.; Beard, L.P.; Brooks, S.C.; Carley, J.M.; Criddle, C.S.; Doll, W.E.; Fields, M.W.; Fendorf, S.E.; Geesey, G.G.; Ginder-Vogel, M.; Hubbard, S.S.; Istok, J.D.; Kelly, S.; Kemner, K.M.; Peacock, A.D.; Spalding, B.P.; White, D.C.; Wolf, A.; Wu, W.; Zhou, J.

2004-11-14

Department of Energy (DOE) facilities within the weapons complex face a daunting challenge of remediating huge below inventories of legacy radioactive and toxic metal waste. More often than not, the scope of the problem is massive, particularly in the high recharge, humid regions east of the Mississippi river, where the off-site migration of contaminants continues to plague soil water, groundwater, and surface water sources. As of 2002, contaminated sites are closing rapidly and many remediation strategies have chosen to leave contaminants in-place. In situ barriers, surface caps, and bioremediation are often the remedial strategies of chose. By choosing to leave contaminants in-place, we must accept the fact that the contaminants will continue to interact with subsurface and surface media. Contaminant interactions with the geosphere are complex and investigating long term changes and interactive processes is imperative to verifying risks. We must be able to understand the consequences of our action or inaction. The focus of this manuscript is to describe recent technical developments for assessing the performance of in situ bioremediation and immobilization of subsurface metals and radionuclides. Research within DOE's NABIR and EMSP programs has been investigating the possibility of using subsurface microorganisms to convert redox sensitive toxic metals and radionuclides (e.g. Cr, U, Tc, Co) into a less soluble, less mobile forms. Much of the research is motivated by the likelihood that subsurface metal-reducing bacteria can be stimulated to effectively alter the redox state of metals and radionuclides so that they are immobilized in situ for long time periods. The approach is difficult, however, since subsurface media and waste constituents are complex with competing electron acceptors and hydrogeological conditions making biostimulation a challenge. Performance assessment of in situ biostimulation strategies is also difficult and typically requires detailed

Modelling and application of the inactivation of microorganism

International Nuclear Information System (INIS)

Oğuzhan, P.; Yangılar, F.

2013-01-01

Prevention of consuming contaminated food with toxic microorganisms causing infections and consideration of food protection and new microbial inactivation methods are obligatory situations. Food microbiology is mainly related with unwanted microorganisms spoiling foods during processing and transporting stages and causing diseases. Determination of pathogen microorganisms is important for human health to define and prevent dangers and elongate shelf life. Inactivation of pathogen microorganisms can provide food security and reduce nutrient losses. Microbial inactivation which is using methods of food protection such as food safety and fresh. With this aim, various methods are used such as classical thermal processes (pasteurisation, sterilisation), pressured electrical field (PEF), ionised radiation, high pressure, ultrasonic waves and plasma sterilisation. Microbial inactivation modelling is a secure and effective method in food production. A new microbiological application can give useful results for risk assessment in food, inactivation of microorganisms and improvement of shelf life. Application and control methods should be developed and supported by scientific research and industrial applications

Artifical Microorganism Infection in Aviation Kerosene

Directory of Open Access Journals (Sweden)

Dušan Vallo

2004-12-01

Full Text Available The fuel used in the aviation engineering has to be clean and dry, it may not contain mechanical impurities and water. Water inaviation kerosene may occur in soluble and insoluble form. The danger inheres in the insoluble form, which may drop out in the crystallineform and cause various failures, such as those caused by mechanical impurities. The water assists in the biological matter formation createdby various species of microorganisms (bacteria, mould fungi and yeast. The microorganisms, present in water phase occurring on thebottom of tanks or on the interface water phase – kerosene, grow and reproduce and subsequently may pollute (impair the fuel by thebiomass or by the products of their metabolism. There is a possibility to infect the fuel artificially by a selected reference microorganismstrain, which usually occur in contaminated fuel, or by microorganisms which cause a biological contamination of aviation kerosene.Out of the selected reference strains used in the experiments, the reference strains of Proteus vulgaris, Sacharamyces cerevisiae andClostridium perfringens were not cultivated in the sterile aviation kerosene and the propagating nutrient medium. The aviation kerosene actsas a biocide medium for the presented reference microorganism strains.

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.

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.

Final Report Coupling in silico microbial models with reactive transport models to predict the fate of contaminants in the subsurface.

Energy Technology Data Exchange (ETDEWEB)

Lovley, Derek R.

2012-10-31

This project successfully accomplished its goal of coupling genome-scale metabolic models with hydrological and geochemical models to predict the activity of subsurface microorganisms during uranium bioremediation. Furthermore, it was demonstrated how this modeling approach can be used to develop new strategies to optimize bioremediation. The approach of coupling genome-scale metabolic models with reactive transport modeling is now well enough established that it has been adopted by other DOE investigators studying uranium bioremediation. Furthermore, the basic principles developed during our studies will be applicable to much broader investigations of microbial activities, not only for other types of bioremediation, but microbial metabolism in diversity of environments. This approach has the potential to make an important contribution to predicting the impact of environmental perturbations on the cycling of carbon and other biogeochemical cycles.

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

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

Plasma inactivation of food-related microorganisms in liquids

International Nuclear Information System (INIS)

Marsili, Lisa; Espie, Steven; Anderson, J.G.John G.; MacGregor, S.J.Scott J.

2002-01-01

This paper reports on a plasma process that inactivates microorganisms in liquids through the application of high-voltage pulses. These pulses result in breakdown of the gas and liquid layers, producing many active species such as UV photons, ozone, free radicals and free electrons. Several test microorganisms representing a range of problematic microorganisms were investigated. Significant reductions in microbial population were achieved, demonstrating the effectiveness of using the plasma discharge process to treat contaminated liquids

Effective photodynamic therapy against microbial populations in human deep tissue abscess aspirates.

Science.gov (United States)

Haidaris, Constantine G; Foster, Thomas H; Waldman, David L; Mathes, Edward J; McNamara, Joanne; Curran, Timothy

2013-10-01

The primary therapy for deep tissue abscesses is drainage accompanied by systemic antimicrobial treatment. However, the long antibiotic course required increases the probability of acquired resistance, and the high incidence of polymicrobial infections in abscesses complicates treatment choices. Photodynamic therapy (PDT) is effective against multiple classes of organisms, including those displaying drug resistance, and may serve as a useful adjunct to the standard of care by reduction of abscess microbial burden following drainage. Aspirates were obtained from 32 patients who underwent image-guided percutaneous drainage of the abscess cavity. The majority of the specimens (24/32) were abdominal, with the remainder from liver and lung. Conventional microbiological techniques and nucleotide sequence analysis of rRNA gene fragments were used to characterize microbial populations from abscess aspirates. We evaluated the sensitivity of microorganisms to methylene blue-sensitized PDT in vitro both within the context of an abscess aspirate and as individual isolates. Most isolates were bacterial, with the fungus Candida tropicalis also isolated from two specimens. We examined the sensitivity of these microorganisms to methylene blue-PDT. Complete elimination of culturable microorganisms was achieved in three different aspirates, and significant killing (P abscess treatment. © 2013 Wiley Periodicals, Inc.

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

Metal-microorganism interactions

International Nuclear Information System (INIS)

Andres, Y.; Thouand, G.; Redercher, S.; Boualam, M.; Texier, A.Cl.; Hoeffer, R.

1997-01-01

The physico-chemical procedures of treating the metalliferous effluents are not always adapted to de polluting the slightly concentrated industrial wastes. An alternative idea was advanced, implying the ability of some microorganisms to fix in considerable amounts the metal ions present in aqueous solutions, possibly in a selective way. This approach has been investigated thoroughly during the last 30 years, particularly from a mechanistic point of view. The advantage of the microorganisms lies mainly in the large diversity of bacteria and in their chemical state dependent interaction with metals, as well as, in the possibilities of developing their selective and quantitative separation properties. A biomass from Mycobacterium smegmatis, an acidic alcoholic resistant bacteria, has been used to prepare a bio-sorption support allowing the preferential sorption of thorium as compared to uranium and lanthanum. These studies have been extended to biological polymers such as chitosan and to studies related to bioaccumulation mechanisms and/or to the microbial resistances towards metals

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

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

Esterase screening using whole cells of Brazilian soil microorganisms

Energy Technology Data Exchange (ETDEWEB)

Mantovani, Simone M.; Oliveira, Luciana G. de; Marsaioli, Anita J., E-mail: anita@iqm.unicamp.b [Universidade Estadual de Campinas (IQ/UNICAMP), SP (Brazil). Inst. de Quimica

2010-07-01

A miniaturized enzymatic assay using fluorescent probes to reveal esterase producing microorganisms was optimized and applied to screen 64 soil bacterial strains. The best results were validated using traditional non-fluorogenic assays with acetyl and propanoyl phenylethanol to confirm the miniaturized results. The most active microorganisms belong to the genus Bacillus showing esterase activity and good enantiomeric ratios for the resolution of phenylethanol derivatives (E > 30). Part of the microorganisms are kept in our laboratory in glycerol or freezedried and the best microorganisms will be deposited in the CBMAI/CPQBA/UNICAMP culture collection. (author)

An Integrated Assessment of Geochemical and Community Structure Determinants of Metal Reduction Rates in Subsurface Sediments

International Nuclear Information System (INIS)

Kostka, Joel E.

2008-01-01

This project represented a joint effort between Oak Ridge National Laboratory (ORNL), the University of Tennessee (UT), and Florida State University (FSU). ORNL served as the lead in-stitution with Dr. A.V. Palumbo responsible for project coordination, integration, and deliver-ables. In situ uranium bioremediation is focused on biostimulating indigenous microorganisms through a combination of pH neutralization and the addition of large amounts of electron donor. Successful biostimulation of U(VI) reduction has been demonstrated in the field and in the laboratory. However, little data is available on the dynamics of microbial populations capable of U(VI) reduction, and the differences in the microbial community dynamics between proposed electron donors have not been explored. In order to elucidate the potential mechanisms of U(VI) reduction for optimization of bioremediation strategies, structure-function relationships of microbial populations were investigated in microcosms of subsurface materials cocontaminated with radionuclides and nitrate from the Oak Ridge Field Research Center (ORFRC), Oak Ridge, Tennessee.

Pathogenic and opportunistic microorganisms in caves

Directory of Open Access Journals (Sweden)

Sanchez-Moral Sergio

2010-01-01

Full Text Available With today’s leisure tourism, the frequency of visits to many caves makes it necessary to know about possible potentially pathogenic microorganisms in caves, determine their reservoirs, and inform the public about the consequences of such visits. Our data reveal that caves could be a potential danger to visitors because of the presence of opportunistic microorganisms, whose existence and possible development in humans is currently unknown.

PROBIOTICS BASED ON TRANSGENIC MICROORGANISMS

Directory of Open Access Journals (Sweden)

S. А. Starovoitova

2012-02-01

Full Text Available Modern tendencies of recombinant microorganisms creation for obtaining on their basis a new effective biopreparations (probiotics with wider spectrum of biological and therapeutic properties were considered. A lot of attention was focused on the main genera of perspective bacteria for creation of recombinant probiotics particularly: Lactococcus, Bifidobac terium,Bacillus, Escherichia. The main created Ukrainian and foreign gene-modified strains, that are widely used today in creation of effective recombinant biopreparations were characterized. Some fundamental directions and methods of gene-modified strains obtaining, which are used in getting effective biopreparations that used for therapy and prophylactic illness were reported, under which this group of pharmaceutical drugs were not used earlier. The safety matters of probiotics using on basis of genemodified strains were examined. Medical and veterinary biopreparations on basis of recombinant microorganisms could be used directly and effectively for therapy and prophylaxis of different illness, beginning from disbacteriosis up to cardiovascular diseases. It is related with some probiotic microorganisms ability for lowering of serum cholesterol at the host organism.

Secondary metabolites from marine microorganisms.

Science.gov (United States)

Kelecom, Alphonse

2002-03-01

After 40 years of intensive research, chemistry of marine natural products has become a mature field. Since 1995, there are signals of decreased interest in the search of new metabolites from traditional sources such as macroalgae and octocorals, and the number of annual reports on marine sponges stabilized. On the contrary, metabolites from microorganisms is a rapidly growing field, due, at least in part, to the suspicion that a number of metabolites obtained from algae and invertebrates may be produced by associated microorganisms. Studies are concerned with bacteria and fungi, isolated from seawater, sediments, algae, fish and mainly from marine invertebrates such as sponges, mollusks, tunicates, coelenterates and crustaceans. Although it is still to early to define tendencies, it may be stated that the metabolites from microorganisms are in most cases quite different from those produced by the invertebrate hosts. Nitrogenated metabolites predominate over acetate derivatives, and terpenes are uncommon. Among the latter, sesquiterpenes, diterpenes and carotenes have been isolated; among nitrogenated metabolites, amides, cyclic peptides and indole alkaloids predominate.

Secondary metabolites from marine microorganisms

Directory of Open Access Journals (Sweden)

KELECOM ALPHONSE

2002-01-01

Full Text Available After 40 years of intensive research, chemistry of marine natural products has become a mature field. Since 1995, there are signals of decreased interest in the search of new metabolites from traditional sources such as macroalgae and octocorals, and the number of annual reports on marine sponges stabilized. On the contrary, metabolites from microorganisms is a rapidly growing field, due, at least in part, to the suspicion that a number of metabolites obtained from algae and invertebrates may be produced by associated microorganisms. Studies are concerned with bacteria and fungi, isolated from seawater, sediments, algae, fish and mainly from marine invertebrates such as sponges, mollusks, tunicates, coelenterates and crustaceans. Although it is still to early to define tendencies, it may be stated that the metabolites from microorganisms are in most cases quite different from those produced by the invertebrate hosts. Nitrogenated metabolites predominate over acetate derivatives, and terpenes are uncommon. Among the latter, sesquiterpenes, diterpenes and carotenes have been isolated; among nitrogenated metabolites, amides, cyclic peptides and indole alkaloids predominate.

Microorganisms as sources of oils

Directory of Open Access Journals (Sweden)

Thevenieau France

2013-11-01

Full Text Available A number of microorganism belonging to the genera of yeast, fungi, bacteria and microalgae have ability to accumulate substantial amounts of oil, sometimes up to an even in excess of 70% of their biomass weight under specific cultivation conditions. For nearly 100 years, the commercial opportunities of using microorganisms as sources of oils have been continuously examined. Although it was evident that microbial oils could never compete commercially with the major commodity plant oils, there were commercially opportunities for the production of some of the higher valued oils. Today, with the great progress of metabolic and genetic engineering, the developments are focus on the high value oils containing important polyunsaturated or specific fatty acids. Such oils have the potential to be used in different applications area as food, feed and oleochemistry. This review is covering the related researches about different oleaginous microorganisms for lipids production and microbial oils biosynthesis process. In add, the lipid metabolism, metabolic engineering strategies to increase lipid production and the economics of microbial oils production are introduced.

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.

[The Research Advancement and Conception of the Deep-underground Medicine].

Science.gov (United States)

Xie, He-Ping; Liu, Ji-Feng; Gao, Ming-Zhong; Wan, Xue-Hong; Liu, Shi-Xi; Zou, Jian; Wu, Jiang; Ma, Teng-Fei; Liu, Yi-Lin; Bu, Hong; Li, Wei-Min

2018-03-01

The 21th century is the century of exploring and utilizing the underground space. In the future, more and more people will spend more and more time living or/and working in the underground space. However,we know little about the effect on the health of human caused by the underground environment. Herein,we systematically put forward the strategic conception of the deep-underground medicine,in order to reveal relative effects and mechanism of the potential factors in the deep underground space on human's physiological and psychological healthy,and to work out the corresponding countermeasures. The original deep-underground medicine includes the following items. ①To model different depth of underground environment according to various parameters (such as temperature,radiation,air pressure, rock,microorganism), and to explore their quantitative character and effects on human health and mechanism. ② To study the psychological change, maintenance of homeostasis and biothythm of organism in the deep underground space. ③ To learn the association between psychological healthy of human and the depth, structure, physical environment and working time of underground space. ④ To investigate the effect of different terrane and lithology on healthy of human and to deliberate their contribution on organism growth. ⑤ To research the character and their mechanism of growth,metabolism,exchange of energy,response of growth, aging and adaptation of cells living in deep underground space. ⑥ To explore the physiological feature,growth of microbiome and it's interaction with host in the deep underground space. ⑦ To develop deep-underground simulation space, the biologically medical technology and equipments. As a research basis,a deep-underground medical lab under a rock thickness of about 1 470 m has been built,which aims to operate the research of the effect on living organism caused by different depth of underground environment. Copyright© by Editorial Board of Journal

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

Biosurfactants Produced by Marine Microorganisms with Therapeutic Applications.

Science.gov (United States)

Gudiña, Eduardo J; Teixeira, José A; Rodrigues, Lígia R

2016-02-18

Marine microorganisms possess unique metabolic and physiological features and are an important source of new biomolecules, such as biosurfactants. Some of these surface-active compounds synthesized by marine microorganisms exhibit antimicrobial, anti-adhesive and anti-biofilm activity against a broad spectrum of human pathogens (including multi-drug resistant pathogens), and could be used instead of existing drugs to treat infections caused by them. In other cases, these biosurfactants show anti-cancer activity, which could be envisaged as an alternative to conventional therapies. However, marine biosurfactants have not been widely explored, mainly due to the difficulties associated with the isolation and growth of their producing microorganisms. Culture-independent techniques (metagenomics) constitute a promising approach to study the genetic resources of otherwise inaccessible marine microorganisms without the requirement of culturing them, and can contribute to the discovery of novel biosurfactants with significant biological activities. This paper reviews the most relevant biosurfactants produced by marine microorganisms with potential therapeutic applications and discusses future perspectives and opportunities to discover novel molecules from marine environments.

Biosurfactants Produced by Marine Microorganisms with Therapeutic Applications

Directory of Open Access Journals (Sweden)

Eduardo J. Gudiña

2016-02-01

Full Text Available Marine microorganisms possess unique metabolic and physiological features and are an important source of new biomolecules, such as biosurfactants. Some of these surface-active compounds synthesized by marine microorganisms exhibit antimicrobial, anti-adhesive and anti-biofilm activity against a broad spectrum of human pathogens (including multi-drug resistant pathogens, and could be used instead of existing drugs to treat infections caused by them. In other cases, these biosurfactants show anti-cancer activity, which could be envisaged as an alternative to conventional therapies. However, marine biosurfactants have not been widely explored, mainly due to the difficulties associated with the isolation and growth of their producing microorganisms. Culture-independent techniques (metagenomics constitute a promising approach to study the genetic resources of otherwise inaccessible marine microorganisms without the requirement of culturing them, and can contribute to the discovery of novel biosurfactants with significant biological activities. This paper reviews the most relevant biosurfactants produced by marine microorganisms with potential therapeutic applications and discusses future perspectives and opportunities to discover novel molecules from marine environments.

Microorganisms and methods for producing pyruvate, ethanol, and other compounds

Energy Technology Data Exchange (ETDEWEB)

Reed, Jennifer L.; Zhang, Xiaolin

2017-12-26

Microorganisms comprising modifications for producing pyruvate, ethanol, and other compounds. The microorganisms comprise modifications that reduce or ablate activity of one or more of pyruvate dehydrogenase, 2-oxoglutarate dehydrogenase, phosphate acetyltransferase, acetate kinase, pyruvate oxidase, lactate dehydrogenase, cytochrome terminal oxidase, succinate dehydrogenase, 6-phosphogluconate dehydrogenase, glutamate dehydrogenase, pyruvate formate lyase, pyruvate formate lyase activating enzyme, and isocitrate lyase. The microorganisms optionally comprise modifications that enhance expression or activity of pyruvate decarboxylase and alcohol dehydrogenase. The microorganisms are optionally evolved in defined media to enhance specific production of one or more compounds. Methods of producing compounds with the microorganisms are provided.

System for identification of microorganism and detection of infectious disorder

DEFF Research Database (Denmark)

2013-01-01

Methods for the identification of microorganisms or infectious disorders are disclosed, comprising obtaining a suitable sample from sources such as persons, animals, plants, food, water or soil. The methods also comprise providing tailored nucleic acid substrate(s) designed to react with a type 1...... topoisomerase from one or more microorganism(s) or infectious agent(s), and incubating said substrate with said sample, or extracts or preparations from the sample, so that the substrate is processed by said topoisomerase if said microorganism(s) or infectious agent(s) is present in the sample. Finally......, processed substrates are identified and potentially quantified by one or more of a range of standard molecular biology methods and read-out systems. The identification and potential quantification of microorganisms and infectious agents, including but not limited to Plasmodium falciparum and Mycobacterium...

[DIFFERENTIAL SENSITIVITY OF MICROORGANISMS TO POLYHEXAMETHYLENEGUANIDINE].

Science.gov (United States)

Lysytsya, A V; Mandygra, Y M; Bojko, O P; Romanishyna, O O; Mandygra, M S

2015-01-01

Factors identified that affect the sensitivity of microorganisms to polyhexamethyleneguanidine (PHMG). Salts of PHMG chloride, valerate, maleate, succinate was to use. Test strains of Esherichia coli, Staphylococcus aureus, Bacillus cereus, Leptospira interrogans, Paenibacillus larvae, Mycobacterium bovis, M. avium, M. fortuitum, Aspergillus niger and some strains of viruses are taken as objects of research. We have determined that the cytoplasm membrane phospholipids is main "target" for the polycation molecules of PHMG. A differential sensitivity of the microorganisms to this drug is primarily determined by relative amount of lipids in membrane and their accessibility. Such trends exist: increase the relative contents of anionic lipids and more negative surface electric potential of membrane, and reduction of the sizes fat acid remainder of lipids bring to increase of microorganism sensitivity. Types of anion salt PHMG just have a certain value. Biocide activity of PHMG chloride is more, than its salts with organic acid. Feasibility of combining PHMG with other biocides in the multicomponent disinfectants studied and analyzed. This combination does not lead to a significant increase in the sensitivity of microorganisms tested in most cases. Most species of pathogenic bacteria can be quickly neutralized by aqueous solutions of PHMG in less than 1% concentrations.

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

Microorganisms of Grape Berries

Directory of Open Access Journals (Sweden)

Kántor Attila

2017-12-01

Full Text Available Grape surface is an unstable habitat that changes greatly according to the stage of grape ripening. Different bacteria and yeasts can colonise the surface of grape berry and the diversity of microorganisms depends on the stage of ripening, pesticide application and health condition. The aim of this study was to study the microflora of the surface of grape berries. Altogether, 19 grape samples from Slovakia were collected. The spread plate method was applied and a 100 μL inoculum of each dilution (10−2, 10−3 was plated on TSA, MEA, and MRS agar for isolation of microorganisms from grapes. Proteins were extracted from cells by ethanol/formic acid extraction procedure. MALDI-TOF Mass Spectrometry was used for identification of microorganisms. In total, 11 genera of Gram-negative bacteria, 11 of Gram-positive bacteria and nine of yeasts were identified. Among 200 isolates, Gram-negative, Gram-positive bacteria and yeasts represented 11%, 27% and 62% of the total number of isolates studied. The most common genera of isolated yeasts were Hanseniaspora (37%, Metschnikowia (31%, and Rhodotorula (10%. The most frequently isolated among Gram-negative bacteria were Acinetobacter (22%, Pseudomonas (22% and Sphingomonas (13%. The most common genera of Gram-positive bacteria were Bacillus (20%, Lactobacillus (19%, Leuconostoc and Staphylococcus (11%, respectively.

Establishing Drug Resistance in Microorganisms by Mass Spectrometry

Science.gov (United States)

Demirev, Plamen A.; Hagan, Nathan S.; Antoine, Miquel D.; Lin, Jeffrey S.; Feldman, Andrew B.

2013-08-01

A rapid method to determine drug resistance in bacteria based on mass spectrometry is presented. In it, a mass spectrum of an intact microorganism grown in drug-containing stable isotope-labeled media is compared with a mass spectrum of the intact microorganism grown in non-labeled media without the drug present. Drug resistance is determined by predicting characteristic mass shifts of one or more microorganism biomarkers using bioinformatics algorithms. Observing such characteristic mass shifts indicates that the microorganism is viable even in the presence of the drug, thus incorporating the isotopic label into characteristic biomarker molecules. The performance of the method is illustrated on the example of intact E. coli, grown in control (unlabeled) and 13C-labeled media, and analyzed by MALDI TOF MS. Algorithms for data analysis are presented as well.

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.

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

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,

Thaumarchaeal ammonium oxidation and evidence for a nitrogen cycle in a subsurface radioactive thermal spring in the Austrian Central Alps

Directory of Open Access Journals (Sweden)

Friedrich Wolfgang Gerbl

2014-05-01

Full Text Available Previous studies had suggested the presence of ammonium oxidizing Thaumarchaeota as well as nitrite oxidizing Bacteria in the subsurface spring called Franz Josef Quelle (FJQ, a slightly radioactive thermal mineral spring with a temperature of 43.6 - 47oC near the alpine village of Bad Gastein, Austria. The microbiological consortium of the FJQ was investigated for its utilization of nitrogen compounds and the putative presence of a subsurface nitrogen cycle. Microcosm experiments made with samples from the spring water, containing planktonic microorganisms, or from biofilms, were used in this study. Three slightly different media, enriched with vitamins and trace elements, and two incubation temperatures (30 and 40oC, respectively were employed. Under aerobic conditions, high rates of conversion of ammonium to nitrite, as well as nitrite to nitrate were measured. Under oxygen-limited conditions nitrate was converted to gaseous compounds. Stable isotope probing with 15NH4Cl or (15NH42SO4 as sole energy sources revealed incorporation of 15N into community DNA. Genomic DNA as well as RNA were extracted from all microcosms. The following genes or fragments of genes were successfully amplified, cloned and sequenced by standard PCR from DNA extracts: Ammonia monooxygenase subunit A (amoA, nitrite oxidoreductase subunits A and B (nxrA and nxrB, nitrate reductase (narG, nitrite reductase (nirS, nitric oxide reductases (cnorB and qnorB, nitrous oxide reductase (nosZ. Reverse transcription of extracted total RNA and real-time PCR suggested the expression of each of those genes. Nitrogen fixation (as probed with nifH and nifD was not detected. However, a geological origin of NH4+ in the water of the FJQ cannot be excluded, considering the silicate, granite and gneiss containing environment. The data suggested the operation of a nitrogen cycle in the subsurface environment of the FJQ.

Thaumarchaeal ammonium oxidation and evidence for a nitrogen cycle in a subsurface radioactive thermal spring in the Austrian Central Alps.

Science.gov (United States)

Gerbl, Friedrich W; Weidler, Gerhard W; Wanek, Wolfgang; Erhardt, Angelika; Stan-Lotter, Helga

2014-01-01

Previous studies had suggested the presence of ammonium oxidizing Thaumarchaeota as well as nitrite oxidizing Bacteria in the subsurface spring called Franz Josef Quelle (FJQ), a slightly radioactive thermal mineral spring with a temperature of 43.6-47°C near the alpine village of Bad Gastein, Austria. The microbiological consortium of the FJQ was investigated for its utilization of nitrogen compounds and the putative presence of a subsurface nitrogen cycle. Microcosm experiments made with samples from the spring water, containing planktonic microorganisms, or from biofilms, were used in this study. Three slightly different media, enriched with vitamins and trace elements, and two incubation temperatures (30 and 40°C, respectively) were employed. Under aerobic conditions, high rates of conversion of ammonium to nitrite, as well as nitrite to nitrate were measured. Under oxygen-limited conditions nitrate was converted to gaseous compounds. Stable isotope probing with (15)NH4Cl or ((15)NH4)2SO4as sole energy sources revealed incorporation of (15)N into community DNA. Genomic DNA as well as RNA were extracted from all microcosms. The following genes or fragments of genes were successfully amplified, cloned and sequenced by standard PCR from DNA extracts: Ammonia monooxygenase subunit A (amoA), nitrite oxidoreductase subunits A and B (nxrA and nxrB), nitrate reductase (narG), nitrite reductase (nirS), nitric oxide reductases (cnorB and qnorB), nitrous oxide reductase (nosZ). Reverse transcription of extracted total RNA and real-time PCR suggested the expression of each of those genes. Nitrogen fixation (as probed with nifH and nifD) was not detected. However, a geological origin of NH(+) 4 in the water of the FJQ cannot be excluded, considering the silicate, granite and gneiss containing environment. The data suggested the operation of a nitrogen cycle in the subsurface environment of the FJQ.

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.

Biodiesel production by various oleaginous microorganisms from organic wastes.

Science.gov (United States)

Cho, Hyun Uk; Park, Jong Moon

2018-05-01

Biodiesel is a biodegradable and renewable fuel. A large amount of research has considered microbial oil production using oleaginous microorganisms, but the commercialization of microbial lipids produced in this way remains uncertain due to the high cost of feedstock or low lipid yield. Microbial lipids can be typically produced by microalgae, yeasts, and bacteria; the lipid yields of these microorganisms can be improved by using sufficient concentrations of organic carbon sources. Therefore, combining low-cost organic compounds contained in organic wastes with cultivation of oleaginous microorganisms can be a promising approach to obtain commercial viability. However, to achieve effective bioconversion of low-cost substrates to microbial lipids, the characteristics of each microorganism and each substrate should be considered simultaneously. This article discusses recent approaches to developing cost-effective microbial lipid production processes that use various oleaginous microorganisms and organic wastes. Copyright © 2018 Elsevier Ltd. All rights reserved.

Glyphosate-Degrading Microorganisms from Industrial Activated Sludge

OpenAIRE

Balthazor, Terry M.; Hallas, Laurence E.

1986-01-01

A plating medium was developed to isolate N-phosphonomethylglycine (glyphosate)-degrading microorganisms, with glyphosate as the sole phosphorus source. Two industrial biosystems treating glyphosate wastes contained elevated microbial counts on the medium. One purified isolate metabolized glyphosate to aminomethylphosphonic acid, mineralizing this accumulating intermediate during log growth. This microorganism has been identified as a Flavobacterium species.

Bioremediation of Industrial Waste Through Enzyme Producing Marine Microorganisms.

Science.gov (United States)

Sivaperumal, P; Kamala, K; Rajaram, R

Bioremediation process using microorganisms is a kind of nature-friendly and cost-effective clean green technology. Recently, biodegradation of industrial wastes using enzymes from marine microorganisms has been reported worldwide. The prospectus research activity in remediation area would contribute toward the development of advanced bioprocess technology. To minimize industrial wastes, marine enzymes could constitute a novel alternative in terms of waste treatment. Nowadays, the evidence on the mechanisms of bioremediation-related enzymes from marine microorganisms has been extensively studied. This review also will provide information about enzymes from various marine microorganisms and their complexity in the biodegradation of comprehensive range of industrial wastes. © 2017 Elsevier Inc. All rights reserved.

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.

SELECTION OF MICROORGANISMS FOR FERMENTATION OF MEAT MATERIALS

Directory of Open Access Journals (Sweden)

Danylenko S. G.

2014-08-01

Full Text Available Principal criteria for the selection of microorganisms with a wide range of biological and technological properties for fermentation of raw meats are considered. Attention is paid to the main groups of microorganisms such as Micrococсus, Staphylococcus, Lactobacillus, Bifidobacterium and Propionibacterium which are promising for creation of bacterial preparations. To create bacterial preparations, the basic criteria of selection for microorganisms were determined as follows: the ability of microorganisms to be developed within the specific ecological niche (raw meat materials and their influence on flavor characteristics of the final product under the conditions of intensification of production technologies of meat products. Methods used for search and retrieval of technologically promising strains from different natural sources (fresh meats, minced meats, meat, dairy and sour-milk products, vegetables, fruit, brines and mixtures for salting are considered.

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

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

The Oxidative Metabolism of Fossil Hydrocarbons and Sulfide Minerals by the Lithobiontic Microbial Community Inhabiting Deep Subterrestrial Kupferschiefer Black Shale

Directory of Open Access Journals (Sweden)

Agnieszka Włodarczyk

2018-05-01

Full Text Available Black shales are one of the largest reservoirs of fossil organic carbon and inorganic reduced sulfur on Earth. It is assumed that microorganisms play an important role in the transformations of these sedimentary rocks and contribute to the return of organic carbon and inorganic sulfur to the global geochemical cycles. An outcrop of deep subterrestrial ~256-million-year-old Kupferschiefer black shale was studied to define the metabolic processes of the deep biosphere important in transformations of organic carbon and inorganic reduced sulfur compounds. This outcrop was created during mining activity 12 years ago and since then it has been exposed to the activity of oxygen and microorganisms. The microbial processes were described based on metagenome and metaproteome studies as well as on the geochemistry of the rock. The microorganisms inhabiting the subterrestrial black shale were dominated by bacterial genera such as Pseudomonas, Limnobacter, Yonghaparkia, Thiobacillus, Bradyrhizobium, and Sulfuricaulis. This study on black shale was the first to detect archaea and fungi, represented by Nitrososphaera and Aspergillus genera, respectively. The enzymatic oxidation of fossil aliphatic and aromatic hydrocarbons was mediated mostly by chemoorganotrophic bacteria, but also by archaea and fungi. The dissimilative enzymatic oxidation of primary reduced sulfur compounds was performed by chemolithotrophic bacteria. The geochemical consequences of microbial activity were the oxidation and dehydrogenation of kerogen, as well as oxidation of sulfide minerals.

Application of thermotolerant microorganisms for biofertilizer preparation.

Science.gov (United States)

Chen, Kuo-Shu; Lin, Yann-Shying; Yang, Shang-Shyng

2007-12-01

Intensive agriculture is practised in Taiwan, and compost application is very popular as a means of improving the soil physical properties and supplying plant nutrition. We tested the potential of inoculation with thermotolerant microorganisms to shorten the maturity and improve the quality of biofertilizer prepared by composting. Thermotolerant microorganisms were isolated from compost and reinoculated for the preparation of biofertilizer. The physical, chemical and biological properties of the biofertilizer were determined during composting. The effects of biofertilizer application on the growth and yield of rape were also studied. Among 3823 colonies of thermotolerant microorganisms, Streptomyces thermonitrificans NTU-88, Streptococcus sp. NTU-130 and Aspergillus fumigatus NTU-132 exhibited high growth rates and cellulolytic and proteolytic activities. When a mixture of rice straw and swine manure were inoculated with these isolates and composted for 61 days, substrate temperature increased initially and then decreased gradually during composting. Substrate pH increased from 7.3 to 8.5. Microbial inoculation enhanced the rate of maturity, and increased the content of ash and total and immobilized nitrogen, improved the germination rate of alfalfa seed, and decreased the content of total organic carbon and the carbon/nitrogen ratio. Biofertilizer application increased the growth and yield of rape. Inoculation of thermotolerant and thermophilic microorganisms to agricultural waste for biofertilizer preparation enhances the rate of maturity and improves the quality of the resulting biofertilizer. Inoculation of appropriate microorganisms in biofertilizer preparation might be usefully applied to agricultural situations.

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...

Living microbial ecosystems within the active zone of catagenesis: Implications for feeding the deep biosphere

Science.gov (United States)

Horsfield, B.; Schenk, H. J.; Zink, K.; Ondrak, R.; Dieckmann, V.; Kallmeyer, J.; Mangelsdorf, K.; di Primio, R.; Wilkes, H.; Parkes, R. J.; Fry, J.; Cragg, B.

2006-06-01

Earth's largest reactive carbon pool, marine sedimentary organic matter, becomes increasingly recalcitrant during burial, making it almost inaccessible as a substrate for microorganisms, and thereby limiting metabolic activity in the deep biosphere. Because elevated temperature acting over geological time leads to the massive thermal breakdown of the organic matter into volatiles, including petroleum, the question arises whether microorganisms can directly utilize these maturation products as a substrate. While migrated thermogenic fluids are known to sustain microbial consortia in shallow sediments, an in situ coupling of abiotic generation and microbial utilization has not been demonstrated. Here we show, using a combination of basin modelling, kinetic modelling, geomicrobiology and biogeochemistry, that microorganisms inhabit the active generation zone in the Nankai Trough, offshore Japan. Three sites from ODP Leg 190 have been evaluated, namely 1173, 1174 and 1177, drilled in nearly undeformed Quaternary and Tertiary sedimentary sequences seaward of the Nankai Trough itself. Paleotemperatures were reconstructed based on subsidence profiles, compaction modelling, present-day heat flow, downhole temperature measurements and organic maturity parameters. Today's heat flow distribution can be considered mainly conductive, and is extremely high in places, reaching 180 mW/m 2. The kinetic parameters describing total hydrocarbon generation, determined by laboratory pyrolysis experiments, were utilized by the model in order to predict the timing of generation in time and space. The model predicts that the onset of present day generation lies between 300 and 500 m below sea floor (5100-5300 m below mean sea level), depending on well location. In the case of Site 1174, 5-10% conversion has taken place by a present day temperature of ca. 85 °C. Predictions were largely validated by on-site hydrocarbon gas measurements. Viable organisms in the same depth range have been

Nitrogen acquisition by plants and microorganisms in a temperate grassland.

Science.gov (United States)

Liu, Qianyuan; Qiao, Na; Xu, Xingliang; Xin, Xiaoping; Han, Jessie Yc; Tian, Yuqiang; Ouyang, Hua; Kuzyakov, Yakov

2016-03-10

Nitrogen (N) limitation is common in most terrestrial ecosystems, often leading to strong competition between microorganisms and plants. The mechanisms of niche differentiation to reduce this competition remain unclear. Short-term (15)N experiments with NH4(+), NO3(-), and glycine were conducted in July, August and September in a temperate grassland to evaluate the chemical, spatial and temporal niche differentiation by competition between plants and microorganisms for N. Microorganisms preferred NH4(+) and NO3(-), while plants preferred NO3(-). Both plants and microorganisms acquired more N in August and September than in July. The soil depth had no significant effects on microbial uptake, but significantly affected plant N uptake. Plants acquired 67% of their N from the 0-5 cm soil layer and 33% from the 5-15 cm layer. The amount of N taken up by microorganisms was at least seven times than plants. Although microorganisms efficiently compete for N with plants, the competition is alleviated through chemical partitioning mainly in deeper soil layer. In the upper soil layer, neither chemical nor temporal niche separation is realized leading to strong competition between plants and microorganisms that modifies N dynamics in grasslands.

Winter−spring transition in the subarctic Atlantic: microbial response to deep mixing and pre-bloom production

DEFF Research Database (Denmark)

Paulsen, Maria Lund; Riisgaard, Karen; Thingstad, T. Frede

2015-01-01

In temperate, subpolar and polar marine systems, the classical perception is that diatoms initiate the spring bloom and thereby mark the beginning of the productive season. Contrary to this view, we document an active microbial food web dominated by pico- and nanoplankton prior to the diatom bloom......, a period with excess nutrients and deep convection of the water column. During repeated visits to stations in the deep Iceland and Norwegian basins and the shallow Shetland Shelf (26 March to 29 April 2012), we investigated the succession and dynamics of photo - synthetic and heterotrophic microorganisms....... We observed that the early phytoplankton production was followed by a decrease in the carbon:nitrogen ratio of the dissolved organic matter in the deep mixed stations, an increase in heterotrophic prokaryote (bacteria) abundance and activity (indicated by the high nucleic acid:low nucleic acid...

Mechanisms of nickel toxicity in microorganisms

OpenAIRE

Macomber, Lee; Hausinger, Robert P.

2011-01-01

Nickel has long been known to be an important human toxicant, including having the ability to form carcinomas, but until recently nickel was believed to be an issue only to microorganisms living in nickel-rich serpentine soils or areas contaminated by industrial pollution. This assumption was overturned by the discovery of a nickel defense system (RcnR/RcnA) found in microorganisms that live in a wide range of environmental niches, suggesting that nickel homeostasis is a general biological co...

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.

Symbiotic microorganisms in Puto superbus (Leonardi, 1907) (Insecta, Hemiptera, Coccomorpha: Putoidae).

Science.gov (United States)

Szklarzewicz, Teresa; Kalandyk-Kołodziejczyk, Małgorzata; Michalik, Katarzyna; Jankowska, Władysława; Michalik, Anna

2018-01-01

The scale insect Puto superbus (Putoidae) lives in mutualistic symbiotic association with bacteria. Molecular phylogenetic analyses have revealed that symbionts of P. superbus belong to the gammaproteobacterial genus Sodalis. In the adult females, symbionts occur both in the bacteriocytes constituting compact bacteriomes and in individual bacteriocytes, which are dispersed among ovarioles. The bacteriocytes also house a few small, rod-shaped Wolbachia bacteria in addition to the numerous large, elongated Sodalis-allied bacteria. The symbiotic microorganisms are transovarially transmitted from generation to generation. In adult females which have choriogenic oocytes in the ovarioles, the bacteriocytes gather around the basal part of the tropharium. Next, the entire bacteriocytes pass through the follicular epithelium surrounding the neck region of the ovariole and enter the space between oocyte and follicular epithelium (perivitelline space). In the perivitelline space, the bacteriocytes assemble extracellularly in the deep depression of the oolemma at the anterior pole of the oocyte, forming a "symbiont ball".

Survival of thermophilic and hyperthermophilic microorganisms after exposure to UV-C, ionizing radiation and desiccation.

Science.gov (United States)

Beblo, Kristina; Douki, Thierry; Schmalz, Gottfried; Rachel, Reinhard; Wirth, Reinhard; Huber, Harald; Reitz, Günther; Rettberg, Petra

2011-11-01

In this study, we investigated the ability of several (hyper-) thermophilic Archaea and phylogenetically deep-branching thermophilic Bacteria to survive high fluences of monochromatic UV-C (254 nm) and high doses of ionizing radiation, respectively. Nine out of fourteen tested microorganisms showed a surprisingly high tolerance against ionizing radiation, and two species (Aquifex pyrophilus and Ignicoccus hospitalis) were even able to survive 20 kGy. Therefore, these species had a comparable survivability after exposure to ionizing radiation such as Deinococcus radiodurans. In contrast, there was nearly no difference in survival of the tested strains after exposure to UV-C under anoxic conditions. If the cells had been dried in advance of UV-C irradiation, they were more sensitive to UV-C radiation compared with cells irradiated in liquid suspension; this effect could be reversed by the addition of protective material like sulfidic ores before irradiation. By exposure to UV-C, photoproducts were formed in the DNA of irradiated Archaea and Bacteria. The distribution of the main photoproducts was species specific, but the amount of the photoproducts was only partly dependent on the applied fluence. Overall, our results show that tolerance to radiation seems to be a common phenomenon among thermophilic and hyperthermophilic microorganisms.

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

Properties of thermophilic microorganisms

International Nuclear Information System (INIS)

Ljungdahl, L.G.

1984-01-01

Microorganisms are called thermophilic or extreme thermophilic (caldo-active) if they grow and reproduce over 47 0 C and 70 0 C, respectively. A survey of growth characteristics of thermophiles is presented and it includes those which also live at extreme pH. The prevalent but not completely emcompassing theory of the ability of thermophiles to grow at high temperatures is that they have macromolecules and cell organelles with high thermostability. Work on some proteins and cell organelles from thermophiles is reviewed. The thermostabilities of these components are compared with those of the living cells, and factors which may govern optimum as well as minimum growth temperatures of microorganisms are discussed. Examples are from the literature but also include enzymes involved in tetrahydrofolate metabolism and other proteins of acetogenic therhmophilic bacteria which are presently studied in the author's laboratory

Enhancement of uranium-accumulating ability of microorganisms by irradiation

Energy Technology Data Exchange (ETDEWEB)

Sakaguchi, Takashi; Nakajima, Akira; Tsuruta, Takehiko [Miyazaki Medical Coll., Kiyotake (Japan)

1998-01-01

Some microorganisms having excellent ability to accumulate uranium were isolated, from soil and water systems in and around the Ningyo-toge Station of Power Reactor and Nuclear Fuel Development Corporation. The enhancement of uranium-accumulating ability of microorganisms by electron-beam irradiation was examined, and the ability of JW-046 was increased 3-5% by the irradiation. The irradiation affect the growth of some of microorganisms tested. (author)

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...

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

the economic importance of microorganism in food processing

African Journals Online (AJOL)

BSN

This paper attempts to highlight the Economic Importance of microorganisms in food processing and manufacturing; it goes further to differentiate between the desirable ... Desirable importance are those cost saving and revenue generating activities ... Microorganism (yeast) play very useful role in the Bakery industries.

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.

An in Situ method for establishing the presence and predicting the activity of heavy metal-reducing microbes in the subsurface. Final Report

International Nuclear Information System (INIS)

Hatfield, K.

2003-01-01

Tracer method to establish presence and distribution of chromium reducing microbes. The primary objective of this research was to establish an in situ tracer method for detecting the presence. distribution. and activity of subsurface heavy metal-reducing microorganisms. Research focused on microbial systems responsible for the reduction of chromium and a suite of biotracers coupled to the reduction process. The tracer method developed may be used to characterize sites contaminated with chromium or expedite bioremediation: and although research focused on chromium. the method can be easily extended to other metals, organics, and radionuclides. This brief final report contains three major sections. The first identifies specific products of the research effort such as students supported and publications. The second section briefly presents major research findings, while the last section summarizes the overall research effort

In Situ Tracer method for establishing the presence and predicting the activity of heavy metal-reducing microbes in the subsurface. Final Report

Energy Technology Data Exchange (ETDEWEB)

Hatfield, K.

2003-07-01

Tracer method to establish presence and distribution of chromium reducing microbes. The primary objective of this research was to establish an in situ tracer method for detecting the presence. distribution. and activity of subsurface heavy metal-reducing microorganisms. Research focused on microbial systems responsible for the reduction of chromium and a suite of biotracers coupled to the reduction process. The tracer method developed may be used to characterize sites contaminated with chromium or expedite bioremediation: and although research focused on chromium. the method can be easily extended to other metals, organics, and radionuclides. This brief final report contains three major sections. The first identifies specific products of the research effort such as students supported and publications. The second section briefly presents major research findings, while the last section summarizes the overall research effort.

A national-scale assessment of micro-organic contaminants in groundwater of England and Wales.

Science.gov (United States)

Manamsa, Katya; Crane, Emily; Stuart, Marianne; Talbot, John; Lapworth, Dan; Hart, Alwyn

2016-10-15

A large variety of micro-organic (MO) compounds is used in huge quantities for a range of purposes (e.g. manufacturing, food production, healthcare) and is now being frequently detected in the aquatic environment. Interest in the occurrence of MO contaminants in the terrestrial and aquatic environments continues to grow, as well as in their environmental fate and potential toxicity. However, the contamination of groundwater resources by MOs has a limited evidence base compared to other freshwater resources. Of particular concern are newly 'emerging contaminants' such as pharmaceuticals and lifestyle compounds, particularly those with potential endocrine disrupting properties. While groundwater often has a high degree of protection from pollution due to physical, chemical and biological attenuation processes in the subsurface compared to surface aquatic environments, trace concentrations of a large range of compounds are still detected in groundwater and in some cases may persist for decades due to the long residence times of groundwater systems. This study provides the first national-scale assessment of micro-organic compounds in groundwater in England and Wales. A large set of monitoring data was analysed to determine the relative occurrence and detected concentrations of different groups of compounds and to determine relationships with land-use, aquifer type and groundwater vulnerability. MOs detected including emerging compounds such as caffeine, DEET, bisphenol A, anti-microbial agents and pharmaceuticals as well as a range of legacy contaminants including chlorinated solvents and THMs, petroleum hydrocarbons, pesticides and other industrial compounds. There are clear differences in MOs between land-use types, particularly for urban-industrial and natural land-use. Temporal trends of MO occurrence are assessed but establishing long-term trends is not yet possible. Copyright © 2016 British Geological Survey, NERC. Published by Elsevier B.V. All rights reserved.

Degradation of atrazine and isoproturon in surface and sub-surface soil materials undergoing different moisture and aeration conditions.

Science.gov (United States)

Issa, Salah; Wood, Martin

2005-02-01

The influence of different moisture and aeration conditions on the degradation of atrazine and isoproturon was investigated in environmental samples aseptically collected from surface and sub-surface zones of agricultural land. The materials were maintained at two moisture contents corresponding to just above field capacity or 90% of field capacity. Another two groups of samples were adjusted with water to above field capacity, and, at zero time, exposed to drying-rewetting cycles. Atrazine was more persistent (t(1/2) = 22-35 days) than isoproturon (t(1/2) = 5-17 days) in samples maintained at constant moisture conditions. The rate of degradation for both herbicides was higher in samples maintained at a moisture content of 90% of field capacity than in samples with higher moisture contents. The reduction in moisture content in samples undergoing desiccation from above field capacity to much lower than field capacity enhanced the degradation of isoproturon (t(1/2) = 9-12 days) but reduced the rate of atrazine degradation (t(1/2) = 23-35 days). This demonstrates the variability between different micro-organisms in their susceptibility to desiccation. Under anaerobic conditions generated in anaerobic jars, atrazine degraded much more rapidly than isoproturon in materials taken from three soil profiles (0-250 cm depth). It is suggested that some specific micro-organisms are able to survive and degrade herbicide under severe conditions of desiccation. Copyright (c) 2005 Society of Chemical Industry.

Influence of microorganisms on the alteration of glasses

International Nuclear Information System (INIS)

Besnainou, B.; Libert, M.F.

1997-01-01

Under specific conditions, microorganisms may enhance the alteration process of basaltic glass. However bacterial activity in the near field of a glass container would be possible only in environmental conditions provide nutrients and energetic substrates for bacterial growth. Depending of these conditions, microorganisms can: - modify the pH or the medium, - consume or produce soluble organic acids. To qualify the long term behaviour of glass, in presence of microorganisms, a qualitative and quantitative estimation of microbial activity potentialities and their consequences is needed. This must be achieved in studying the availability of the chemical species in the environment. (authors)

Evaluation of meteorites as habitats for terrestrial microorganisms: Results from the Nullarbor Plain, Australia, a Mars analogue site

Science.gov (United States)

Tait, Alastair W.; Wilson, Siobhan A.; Tomkins, Andrew G.; Gagen, Emma J.; Fallon, Stewart J.; Southam, Gordon

2017-10-01

Unambiguous identification of biosignatures on Mars requires access to well-characterized, long-lasting geochemical standards at the planet's surface that can be modified by theoretical martian life. Ordinary chondrites, which are ancient meteorites that commonly fall to the surface of Mars and Earth, have well-characterized, narrow ranges in trace element and isotope geochemistry compared to martian rocks. Given that their mineralogy is more attractive to known chemolithotrophic life than the basaltic rocks that dominate the martian surface, exogenic rocks (e.g., chondritic meteorites) may be good places to look for signs of prior life endemic to Mars. In this study, we show that ordinary chondrites, collected from the arid Australian Nullarbor Plain, are commonly colonized and inhabited by terrestrial microorganisms that are endemic to this Mars analogue site. These terrestrial endolithic and chasmolithic microbial contaminants are commonly found in close association with hygroscopic veins of gypsum and Mg-calcite, which have formed within cracks penetrating deep into the meteorites. Terrestrial bacteria are observed within corrosion cavities, where troilite (FeS) oxidation has produced jarosite [KFe3(SO4)2(OH)6]. Where terrestrial microorganisms have colonized primary silicate minerals and secondary calcite, these mineral surfaces are heavily etched. Our results show that inhabitation of meteorites by terrestrial microorganisms in arid environments relies upon humidity and pH regulation by minerals. Furthermore, microbial colonization affects the weathering of meteorites and production of sulfate, carbonate, Fe-oxide and smectite minerals that can preserve chemical and isotopic biosignatures for thousands to millions of years on Earth. Meteorites are thus habitable by terrestrial microorganisms, even under highly desiccating environmental conditions of relevance to Mars. They may therefore be useful as chemical and isotopic ;standards; that preserve evidence of

[Relationships between air conditioning, airborne microorganisms and health].

Science.gov (United States)

Parat, S; Perdrix, A; Baconnier, P

1999-01-01

Concurrently with the increase of air-conditioning, potentially severe or frequent new diseases have emerged, giving rise to social and economical consequences. The first part of this work is a state of the art review of the relationships between air-conditioning, airborne microorganisms and health, through a technical, metrological and medical approach. The second part presents four studies performed in this field. Two of them deal with the relationship between airborne microorganisms and technical features of air-conditioning. Measurements performed on actual sites demonstrated the benefit of using high efficiency filters and low risk components in air-conditioning systems. The third study was aimed to look for a relationship between airborne microorganisms and sick building syndrome symptoms. Statistical analyses of individual data revealed significant associations between airborne bacteria or fungi and symptoms. These results may be the first step in determining a dose-response relationship, in order to define threshold limit values in this field. In the fourth study, the contribution of particle counting in assessing exposure to airborne microorganisms was explored by monitoring simultaneous variations of microbial and particle concentrations. The results showed that associating particle counting may allow to detect microbial variations instantaneously, and therefore improve the assessment of exposure to airborne microorganisms.

Influence of dissimilatory metal reduction on fate of organic and metal contaminants in the subsurface

Science.gov (United States)

Lovley, Derek R.; Anderson, Robert T.

Dissimilatory Fe(III)-reducing microorganisms have the ability to destroy organic contaminants under anaerobic conditions by oxidizing them to carbon dioxide. Some Fe(III)-reducing microorganisms can also reductively dechlorinate chlorinated contaminants. Fe(III)-reducing microorganisms can reduce a variety of contaminant metals and convert them from soluble forms to forms that are likely to be immobilized in the subsurface. Studies in petroleum-contaminated aquifers have demonstrated that Fe(III)-reducing microorganisms can be effective agents in removing aromatic hydrocarbons from groundwater under anaerobic conditions. Laboratory studies have demonstrated the potential for Fe(III)-reducing microorganisms to remove uranium from contaminated groundwaters. The activity of Fe(III)-reducing microorganisms can be stimulated in several ways to enhance organic contaminant oxidation and metal reduction. Molecular analyses in both field and laboratory studies have demonstrated that microorganisms of the genus Geobacter become dominant members of the microbial community when Fe(III)-reducing conditions develop as the result of organic contamination, or when Fe(III) reduction is artificially stimulated. These results suggest that further understanding of the ecophysiology of Geobacter species would aid in better prediction of the natural attenuation of organic contaminants under anaerobic conditions and in the design of strategies for the bioremediation of subsurface metal contamination. Des micro-organismes simulant la réduction du fer ont la capacité de détruire des polluants organiques dans des conditions anérobies en les oxydant en dioxyde de carbone. Certains micro-organismes réducteurs de fer peuvent aussi dé-chlorer par réduction des polluants chlorés. Des micro-organismes réducteurs de fer peuvent réduire tout un ensemble de métaux polluants et les faire passer de formes solubles à des formes qui sont susceptibles d'être immobilisées dans le milieu

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.

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

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...