Microbial Effects on RepositoryPerformance

This report presents a critical review of the international literature on microbial effects in and around a deep geological repository for higher activity wastes. It is aimed at those who are familiar with the nuclear industry and radioactive waste disposal, but who are not experts in microbiology; they may have a limited knowledge of how microbiology may be integrated into and impact upon radioactive waste disposal safety cases and associated performance assessments (PA).

[1]  M. Rabinovich,et al.  Cellulase activity of a haloalkaliphilic anaerobic bacterium, strain Z-7026 , 2006, Extremophiles.

[2]  S. Ekendahl,et al.  Assimilation of CO2 and introduced organic compounds by bacterial communities in groundwater from southeastern Sweden deep crystalline bedrock , 2004, Microbial Ecology.

[3]  A. V. Chambers,et al.  The chemical and microbial degradation of cellulose in the near field of a repository for radioactive wastes , 2000 .

[4]  R. Christen,et al.  Bacterial diversity in a deep-subsurface clay environment , 1996, Applied and environmental microbiology.

[5]  C. Nakatsu.  Soil Microbial Community Analysis Using Denaturing Gradient Gel Electrophoresis , 2007 .

[6]  E. C. Pires,et al.  Evaluation of the microbial diversity in an UASB reactor treating wastewater from an unbleached pulp plant , 2006 .

[7]  J. Lloyd,et al.  The influence of microbial redox cycling on radionuclide mobility in the subsurface at a low‐level radioactive waste storage site , 2007 .

[8]  E. Madsen,et al.  Field-Based Stable Isotope Probing Reveals the Identities of Benzoic Acid-Metabolizing Microorganisms and Their In Situ Growth in Agricultural Soil , 2008, Applied and Environmental Microbiology.

[9]  J. Knowles.  Enzyme-catalyzed phosphoryl transfer reactions. , 1980, Annual review of biochemistry.

[10]  J. Philp,et al.  Consequences of sulphate-reducing bacterial growth in a lab-simulated waste disposal regime , 1991, Experientia.

[11]  R. Bachofen,et al.  Complexing agents from microorganisms , 1990, Experientia.

[12]  S. Amachi,et al.  Studies with natural and anthropogenic iodine isotopes: iodine distribution and cycling in the global environment. , 2004, Journal of environmental radioactivity.

[13]  I. Banat,et al.  Detection and Quantification of Gene Expression in Environmental Bacteriology , 2004, Applied and Environmental Microbiology.

[14]  A. Uitterlinden,et al.  Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA , 1993, Applied and environmental microbiology.

[15]  Bert Allard,et al.  Alkaline Degradation of Cellulose: Mechanisms and Kinetics , 2003 .

[16]  David E. Crowley,et al.  Microbial Diversity in Natural Asphalts of the Rancho La Brea Tar Pits , 2007, Applied and Environmental Microbiology.

[17]  K. Pedersen.  Chapter 10 Microbial processes in the disposal of high level radioactive waste 500 m underground in Fennoscandian Shield rocks , 2002 .

[18]  J. Lloyd,et al.  The Impact of Fe(III)-reducing Bacteria on Uranium Mobility , 2006 .

[19]  N. Clipson,et al.  Bacterial community structure in soils contaminated by polycyclic aromatic hydrocarbons. , 2007, Chemosphere.

[20]  J. G. Kuenen,et al.  Diversity, Activity, and Abundance of Sulfate-Reducing Bacteria in Saline and Hypersaline Soda Lakes , 2007, Applied and Environmental Microbiology.

[21]  P. J. Chilton,et al.  Aquifers as environments for microbiological activity , 1997, Quarterly Journal of Engineering Geology.

[22]  P. Renault,et al.  Short communication Responses of anaerobic bacteria to soil amendment with selenite , 2007 .

[23]  D. Stahl,et al.  Molecular approaches for the measurement of density, diversity, and phylogeny. , 2007 .

[24]  F. G. Ferris,et al.  Retention of strontium, cesium, lead and uranium by bacterial iron oxides from a subterranean environment , 2000 .

[25]  Guoxiang Zhang.  Nonisothermal hydrobiogeochemical models in porous media , 2001 .

[26]  T. Stevens.  Lithoautotrophy in the subsurface , 1997 .

[27]  J M West,et al.  Microbial studies in the Canadian nuclear fuel waste management program. , 1997, FEMS microbiology reviews.

[28]  Partha Basu,et al.  Arsenic and selenium in microbial metabolism. , 2006, Annual review of microbiology.

[29]  D. Lovley,et al.  A hydrogen-based subsurface microbial community dominated by methanogens , 2002, Nature.

[30]  C. Leang,et al.  Direct Correlation between Rates of Anaerobic Respiration and Levels of mRNA for Key Respiratory Genes in Geobacter sulfurreducens , 2004, Applied and Environmental Microbiology.

[31]  W. Röling,et al.  Bacterial Community Dynamics and Hydrocarbon Degradation during a Field-Scale Evaluation of Bioremediation on a Mudflat Beach Contaminated with Buried Oil , 2004, Applied and Environmental Microbiology.

[33]  A. Hoffmann,et al.  DRINK: a biogeochemical source term model for low level radioactive waste disposal sites. , 1997, FEMS microbiology reviews.

[34]  J. H. Clinton,et al.  Biodegradation of ion-exchange media , 1988 .

[35]  A. McCarthy,et al.  Molecular Biological Detection of Anaerobic Gut Fungi (Neocallimastigales) from Landfill Sites , 2006, Applied and Environmental Microbiology.

[36]  S. Stroes-Gascoyne,et al.  Microbial, redox and organic characteristics of compacted clay-based buffer after 6.5 years of burial at AECL's Underground Research Laboratory , 2002 .

[37]  I. McKinley,et al.  Microbiology in nuclear waste disposal: interfaces and reaction fronts. , 1997, FEMS microbiology reviews.

[38]  Francis H. Chapelle,et al.  Ground-water microbiology and geochemistry , 1993 .

[39]  C. Hennig,et al.  Microbacterium isolates from the vicinity of a radioactive waste depository and their interactions with uranium. , 2007, FEMS microbiology ecology.

[40]  J. M. Thomas,et al.  Lithotrophic and Heterotrophic Bacteria in Deep Subsurface Sediments and Their Relation to Sediment Properties , 1989 .

[41]  Levente Bodrossy,et al.  mRNA-Based Parallel Detection of Active Methanotroph Populations by Use of a Diagnostic Microarray , 2006, Applied and Environmental Microbiology.

[42]  D. Prieur,et al.  Extending the Sub-Sea-Floor Biosphere , 2008, Science.

[43]  F. Brockman,et al.  Desulfotomaculum and Methanobacterium spp. Dominate a 4- to 5-Kilometer-Deep Fault , 2005, Applied and Environmental Microbiology.

[44]  Henry L. Ehrlich,et al.  Microbes as Geologic Agents: Their Role in Mineral Formation , 1999 .

[45]  T. F. Ehrhorn,et al.  Microbial impacts to the near-field environment geochemistry: a model for estimating microbial communities in repository drifts at Yucca Mountain. , 2003, Journal of contaminant hydrology.

[46]  J. Lloyd,et al.  Processes affecting transport of uranium in a suboxic aquifer , 2006 .

[47]  Patricia Wagner,et al.  An overview of microbiologically influenced corrosion of metals and alloys used in the storage of nuclear wastes , 1996 .

[48]  C. T. Green,et al.  Analysis of phospholipid fatty acids (PLFA) to characterize microbial communities in aquifers , 2000 .

[49]  J. Costerton,et al.  Starvation and penetration of bacteria in soils and rocks , 1990, Experientia.

[50]  M. Merroun,et al.  Bacterial interactions with uranium: an environmental perspective. , 2008, Journal of contaminant hydrology.

[51]  C. Mulligan,et al.  Some effects of microbial activity on the evolution of clay-based buffer properties in underground repositories , 2009 .

[52]  T. Ahn,et al.  Understanding long-term corrosion of Alloy 22 container in the potential Yucca Mountain repository for high-level nuclear waste disposal , 2008 .

[53]  Arokiasamy J. Francis,et al.  Microbial gas generation under expected Waste Isolation Pilot Plant repository conditions , 1997 .

[54]  S. Ekendahl,et al.  Occurrence and identification of microorganisms in compacted clay-based buffer material designed for use in a nuclear fuel waste disposal vault. , 1997, Canadian journal of microbiology.

[55]  R. Bachofen.  Gas metabolism of microorganisms , 1991, Experientia.

[56]  E. Madsen.  The use of stable isotope probing techniques in bioreactor and field studies on bioremediation. , 2006, Current opinion in biotechnology.

[57]  T. Naganuma,et al.  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 , 2008 .

[58]  D. White,et al.  Lipid Analyses for Viable Microbial Biomass, Community Composition, Metabolic Status, and In Situ Metabolism , 2007 .

[59]  William Powrie,et al.  Performance of leachate drainage systems , 2001 .

[60]  M. Rillig,et al.  Choice of Methods for Soil Microbial Community Analysis: PLFA Maximizes Power Compared to CLPP and PCR-Based Approaches , 2006 .

[61]  Thomas G Chasteen,et al.  Biomethylation of selenium and tellurium: microorganisms and plants. , 2003, Chemical reviews.

[62]  J. Ward,et al.  Microbial hydrocarbon gases in the Witwatersrand Basin, South Africa: Implications for the deep biosphere 1 1 Associate editor: R. Summons , 2004 .

[63]  K. Horikoshi,et al.  Quantification of mcrA by quantitative fluorescent PCR in sediments from methane seep of the Nankai Trough. , 2006, FEMS microbiology ecology.

[64]  J. Small,et al.  Experimental and modelling investigations of the biogeochemistry of gas production from low and intermediate level radioactive waste , 2008 .

[65]  H. Boukhalfa,et al.  Plutonium(V/VI) Reduction by the Metal-Reducing Bacteria Geobacter metallireducens GS-15 and Shewanella oneidensis MR-1 , 2007, Applied and Environmental Microbiology.

[66]  F. Livens,et al.  Interactions of microorganisms with radionuclides. , 2002 .

[67]  S. Ekendahl,et al.  16S rRNA gene diversity of attached and unattached bacteria in boreholes along the access tunnel to the Äspö hard rock laboratory, Sweden , 1996 .

[68]  D. Valentine,et al.  New perspectives on anaerobic methane oxidation. , 2000, Environmental microbiology.

[69]  A. J. Francis,et al.  Microbial activity of trench leachates from shallow-land, low-level radioactive waste disposal sites , 1980, Applied and environmental microbiology.

[70]  W. Whitman,et al.  Prokaryotes: the unseen majority. , 1998, Proceedings of the National Academy of Sciences of the United States of America.

[71]  H. Boukhalfa,et al.  Biological reduction of Np(V) and Np(V) citrate by metal-reducing bacteria. , 2007, Environmental Science and Technology.

[72]  O. Kandler,et al.  Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya. , 1990, Proceedings of the National Academy of Sciences of the United States of America.

[73]  Mark J. Bailey,et al.  RNA Stable Isotope Probing, a Novel Means of Linking Microbial Community Function to Phylogeny , 2002, Applied and Environmental Microbiology.

[74]  K. Pedersen,et al.  Distribution and activity of methanogens and homoacetogens in deep granitic aquifers at Äspö Hard Rock Laboratory, Sweden , 1998 .

[75]  R. Oremland,et al.  Bacterial respiration of arsenic and selenium. , 1999, FEMS microbiology reviews.

[76]  T. Tsuji,et al.  Investigation of Microorganisms in Bentonite Deposits , 2005 .

[77]  Bacterial community analysis of shallow groundwater undergoing sequential anaerobic and aerobic chloroethene biotransformation. , 2007, FEMS microbiology ecology.

[78]  Derek R. Lovley,et al.  Enzymic uranium precipitation , 1992 .

[79]  I. Kaplan,et al.  Limits of the Natural Environment in Terms of pH and Oxidation-Reduction Potentials , 1960, The Journal of Geology.

[80]  Kelly P. Nevin,et al.  In Situ Expression of nifD in Geobacteraceae in Subsurface Sediments , 2004, Applied and Environmental Microbiology.

[81]  D. Moreno,et al.  Isolation and identification of bacteria from spent nuclear fuel pools , 2005, Journal of Industrial Microbiology and Biotechnology.

[82]  B. Schwyn,et al.  Detection and cultivation of indigenous microorganisms in Mesozoic claystone core samples from the Opalinus Clay Formation (Mont Terri Rock Laboratory) , 2007 .

[83]  D. P. Trivedi,et al.  Criteria for compilation of a site-specific thermodynamic database for geochemical speciation calculations , 1998 .

[84]  Karsten Pedersen,et al.  Autoradiographic Comparisons of Radionuclide Adsorption Between Subsurface Anaerobic Biofilms and Granitic Host Rocks , 2006 .

[85]  K. Konhauser,et al.  Accumulation of Metals by Bacteriogenic Iron Oxides in a Subterranean Environment , 1999 .

[86]  Danilo Ercolini,et al.  Application of FISH technology for microbiological analysis: current state and prospects , 2006, Applied Microbiology and Biotechnology.

[87]  Terry J. Beveridge,et al.  Surface-mediated mineral development by bacteria , 1997 .

[88]  Cindy J. Smith,et al.  Molecular microbial ecology , 2005 .

[89]  C. Rochelle,et al.  The microbiology of the Maqarin site, Jordan -- A natural analogue for cementitious radioactive waste repositories , 1994 .

[90]  Eoin L. Brodie,et al.  Long-Term Sustainability of a High-Energy, Low-Diversity Crustal Biome , 2006, Science.

[91]  Hans H. Cheng,et al.  Characterization of microbial diversity by determining terminal restriction fragment length polymorphisms of genes encoding 16S rRNA , 1997, Applied and environmental microbiology.

[92]  C. Sergeant,et al.  Microorganisms and migration of radionuclides in environment , 2007 .

[93]  Eoin L Brodie,et al.  Application of a High-Density Oligonucleotide Microarray Approach To Study Bacterial Population Dynamics during Uranium Reduction and Reoxidation , 2006, Applied and Environmental Microbiology.

[94]  K. Daly,et al.  Development of oligonucleotide probes and PCR primers for detecting phylogenetic subgroups of sulfate-reducing bacteria. , 2000, Microbiology.

[95]  Karsten Pedersen,et al.  The deep subterranean biosphere , 1993 .

[96]  C. Sergeant,et al.  Microbial Investigations in Opalinus Clay, an Argillaceous Formation under Evaluation as a Potential Host Rock for a Radioactive Waste Repository , 2008 .

[97]  R. Wade,et al.  Thermodynamics of U(VI) sorption onto Shewanellaputrefaciens , 2001 .

[98]  R. Colasanti,et al.  The microbiology programme for UK Nirex , 1991, Experientia.

[99]  S. Stroes-Gascoyne,et al.  THE EFFECT OF BIOFILMS ON RADIONUCLIDE TRANSPORT IN THE GEOSPHERE: RESULTS FROM AN INITIAL INVESTIGATION , 1997 .

[100]  G. Knudsen,et al.  Stable carbon isotopes as indicators of microbial activity in aquifers. , 1997 .

[101]  K. Aoki,et al.  Influence of bacteria on rock-water interaction and clay mineral formation in subsurface granitic environments , 2001, Clay Minerals.

[102]  C. Soares,et al.  Sulphate respiration from hydrogen in Desulfovibrio bacteria: a structural biology overview. , 2005, Progress in biophysics and molecular biology.

[103]  Christopher J. Williams,et al.  Statistical methods for characterizing diversity of microbial communities by analysis of terminal restriction fragment length polymorphisms of 16S rRNA genes. , 2006, Environmental microbiology.

[104]  R. B. Jackson,et al.  Assessment of Soil Microbial Community Structure by Use of Taxon-Specific Quantitative PCR Assays , 2005, Applied and Environmental Microbiology.

[105]  M. Glaus,et al.  Review of the kinetics of alkaline degradation of cellulose in view of its relevance for safety assessment of radioactive waste repositories , 1997 .

[106]  Richard L. Smith,et al.  In situ hydrogen consumption kinetics as an indicator of subsurface microbial activity. , 2007, FEMS microbiology ecology.

[107]  E. Gustafsson,et al.  Hydrological and reactive processes during rapid recharge to fracture zones. The Äspö large scale redox experiment , 1999 .

[108]  C. Anderson,et al.  Influence of in situ biofilm coverage on the radionuclide adsorption capacity of subsurface granite. , 2007, Environmental science & technology.

[109]  J. Lloyd.  Microbial reduction of metals and radionuclides. , 2003, FEMS microbiology reviews.

[110]  B. Ahring,et al.  Anaerobic microbiology of an alkaline Icelandic hot spring , 1997 .

[111]  P. Amy,et al.  Effect of gamma radiation on native endolithic microorganisms from a radioactive waste deposit site. , 1999, Radiation research.

[112]  Dirk Mallants,et al.  Gas generation and migration in Boom Clay, a potential host rock formation for nuclear waste storage , 2002 .

[113]  E. Kandeler,et al.  Abundance of narG, nirS, nirK, and nosZ Genes of Denitrifying Bacteria during Primary Successions of a Glacier Foreland , 2006, Applied and Environmental Microbiology.

[114]  T. Sandén,et al.  Cultivability of microorganisms introduced into a compacted bentonite clay buffer under high-level radioactive waste repository conditions , 2000 .

[115]  E. Schwartz,et al.  The H2-Metabolizing Prokaryotes , 2006 .

[116]  P. Coombs,et al.  The role of biofilms in subsurface transport processes , 2010 .

[117]  S. Giovannoni,et al.  The uncultured microbial majority. , 2003, Annual review of microbiology.

[118]  Todd O. Stevens,et al.  Lithoautotrophic Microbial Ecosystems in Deep Basalt Aquifers , 1995, Science.

[119]  P. Coombs,et al.  Influence of biofilms on transport of fluids in subsurface granitic environments — some mineralogical and petrographical observations of materials from column experiments , 2008, Mineralogical Magazine.

[120]  A. Mills,et al.  Physiological profiling of microbial communities. , 2007 .

[121]  S. Ekendahl,et al.  Characterisation of Yeasts Isolated from Deep Igneous Rock Aquifers of the Fennoscandian Shield , 2003, Microbial Ecology.

[122]  D. Crawford,et al.  Microbial studies of a selenium-contaminated mine site and potential for on-site remediation , 2006, Journal of Industrial Microbiology and Biotechnology.

[123]  J. Lloyd,et al.  Microbial interactions with actinides and long-lived fission products , 2007 .

[124]  Richard L. Smith,et al.  Autotrophic, Hydrogen-Oxidizing, Denitrifying Bacteria in Groundwater, Potential Agents for Bioremediation of Nitrate Contamination , 1994, Applied and environmental microbiology.

[125]  T J Beveridge,et al.  Interactions between biofilms and the environment. , 1997, FEMS microbiology reviews.

[126]  K. Bourtzis,et al.  Kinetics of pure cultures of hydrogen‐oxidizing denitrifying bacteria and modeling of the interactions among them in mixed cultures , 2006, Biotechnology and bioengineering.