National Research Program


Microbial Biogeochemistry of Aquatic Environments

Micro-organisms alter the chemistry and productivity of aquatic environments by performing complex transformations of organic and inorganic molecules. In many cases, microbes can affect the speciation, mobility, bioavailability, and toxicity of toxic elements, such as Se, Hg, and As. The mechanisms by which these reactions proceed, the in situ rates of the transformation, their quantitative significance to element cycling, the responsible microorganisms and their physiology are only poorly understood. In this project, conceptual models of biogeochemical transformations will be developed by the combination of lab and field experimental work. Laboratory work will focus on identification of biochemical pathways, isolation and physiological characterization of relevant microbes. Field work will consist of measuring in situ rates of transformations, based on methods developed in the laboratory. Physical exchanges between components, such as the flux of biogenic gases to or from the atmosphere from water or soil will be quantified.

REPORTS PUBLISHED 2003-2012

Oremland, RS. 2012. Arsenic and life: Bacterial redox reactions associated with arsenic oxyanions. in Drelich, R., ed., Water in Mineral Processing: Society for Mining, Metallurgy, and Exploration, Englewood, CO, p. 17 - 27 .

Hoeft, S.E., Kulp, T.R., Han, S., Lanoil, B., and Oremland, R.S., 2011, Correction - Coupled arsenotrophy in a hot spring photosynthetic biofilm at Mono Lake, California: Applied and Environmental Microbiology, v. 77, no. 15) , p. 5570.

Pearce, C.I., Baesman, S.M., Blum, J.S., Fellows, J.W., and Oremland. R.S., 2011 Nanoparticles formed from bacterial oxyanion reduction of toxic Group 15 and 16 metalloids, in Stolz, J.F., and Oremland, R.S., eds. Microbial Metal and Metalloid Metabolism: Advances and Applications: ASM Press, Washington, DC., p. 297 – 319.

Stolz, J.F., and Oremland, R.S., 2011, Arsenic, in Reitner, J., and Thiel, V., eds., Encyclopedia of GeoBiology: Springer.

Stolz, J.F., and Oremland, R.S., eds., 2011, Microbial Metal and Metalloid Metabolism: Advances and Applications: ASM Press, Washington, DC, 420 p. (on-line book information)

Wolfe-Simon, F., Blum, J.S., Kulp, T.R.,Gordon, G.W., Hoeft, S.E., Pett-Ridge, J., Stolz, J.F., Webb, S.M., Weber, P.K., Davies, P.C.W., Anbar, A.D., and Oremland, R.S., 2011, A Bacterium That Can Grow by Using Arsenic Instead of Phosphorus: Science, v. 332, no. 6034, p. 1163-1166. DOI: 10.1126/science.1197258. (on-line abstract of journal article)

Wolfe-Simon, F., Blum, J.S., Kulp, T.R.,Gordon, G.W., Hoeft, S.E., Pett-Ridge, J., Stolz, J.F., Webb, S.M., Weber, P.K., Davies, P.C.W., Anbar, A.D., and Oremland, R.S., 2011, A response to comments on "Bacterium That Can Grow by Using Arsenic Instead of Phosphorus": Science, v. 332, no. 6034, p. 1149j. DOI: 10.1126/science.1202098  (on-line abstract of reply)

Hoeft, S.E., Kulp, T.R., Han, S., Lanoil, B., and Oremland, R.S., 2010, Coupled Arsenotrophy in a Hot Spring Photosynthetic Biofilm at Mono Lake, California: Applied and Environmental Microbiology, v. 76, p. 4633 - 4639. (on-line abstract of journal article)

Liao, K.-S., Wang, J., Dias, S., Dewald, J., Alley, N.J., Baesman, S.M., Oremland, R.S., Blau, W.J., and Curran, S.A., 2010, Strong nonlinear photonic responses from microbiologically synthesized tellurium nanocomposites: Chemical Physics Letters, v. 484, p. 242–246. (on-line abstract of journal article)

Oremland, R.S., 2010, NO connection with methane: Nature, v. 464, p. 500 - 501.

Stolz, J.F., Basu, P., and Oremland, R.S., 2010, Microbial arsenic metabolism: New twists on an old poison: Microbe, v. 5. p. 53 - 59. (on-line article)

Zargar, K., Hoeft, S., Oremland, R., and Saltikov, C.W., 2010. Genetic identification of a novel arsenite oxidase, arxA, in the haloalkaliphilic, arsenite oxidizing bacterium Alkalilimnicola ehrlichii strain MLHE-1: Journal of Bacteriology, v. 192, no, 14, p. 3755 - 3762. (on-line abstract of journal article)

Baesman, S.M., Stolz, J.F., Kulp, T.R., and Oremland, R.S., 2009, Enrichment and isolation of Bacillus beveridgei sp. nov., a facultative anaerobic haloalkaliphile from Mono Lake, California, that respires oxyanions of tellurium, selenium, and arsenic: Extremophiles, v. 13, no. 4, p. 695 - 705. (on-line abstract of journal article)

Blum, J.S., Han, S., Lanoil, B., Saltikov, C., Witte, B., Tabita, F.R., Langley, S. Beveridge, T.J., Jahnke, L. and Oremland, R.S., 2009, Ecophysiology of "Halarsenatibacter silvermanii" Strain SLAS-1, gen. nov., sp. nov., a facultative chemoautotrophic arsenate respirer from salt-saturated Searles Lake, California: Applied and Environmental Microbiology v. 75, no. 7, p. 1950 - 1960. (on-line abstract of journal article)

Blum, J.S., Han, S., Lanoil, B., Saltikov, C., Witte, B., Tabita, F.R., Langley, S. Beveridge, T.J., Jahnke, L. and Oremland, R.S., 2009, Author's Correction of "Ecophysiology of "Halarsenatibacter silvermanii" Strain SLAS-1, gen. nov., sp. nov., a facultative chemoautotrophic arsenate respirer from salt-saturated Searles Lake, California": Applied and Environmental Microbiology v. 75, no. 16, p. 5437.

Oremland, R.S., Saltikov, C.W., Wolfe-Simon, F., and Stolz, J.F., 2009, Arsenic in the evolution of earth and extraterrestrial ecosystems: Geomicrobiology Journal, v. 26, no. 7, p. 522 - 536. (on-line abstract of journal article)

Oremland, R.S., Stolz, J.F., Madigan, M., Hollibaugh, J.T., and Kulp, T.R., 2009, Response to comment on "Arsenic(III) fuels anoxygenic photosynthesis in hot spring biofilms from Mono Lake, California": Science, v. 323, no. 5914, p. 583d.

Pearce, C.I., Pattrick, R.A.D., Law, N., Charnock, J.M., Coker, V.S., Fellowes, W., Oremland, R.S., and Lloyd, J.R., 2009, Investigating different mechanisms for biogenic selenite transformations: Geobacter sulfurreducens, Shewanella oneidensis and Veillonella atypical: Environmental Technology, v. 30, no.12, p.1313-1326. (on-line abstract of journal article)

Richey, C. , Chovanec, P. , Hoeft, S.E. , Oremland, R.S. , Basu, P. , and Stolz, J.F., 2009, Respiratory arsenate reductase as a bidirectional enzyme: Biochemical and Biophysical Research Communications, v. 382, no. 2, p. 298-302. (on-line abstract of journal article)

Sun, W., Sierra-Alvarez, R., Milner, L., Oremland, R.S., and Field, J.A., 2009, Arsenite and ferrous iron oxidataion linked to chemolithotrophic denitrification for the immobilization of arsenic in anoxic environments: Environmental Science and Technology, v. 43, no. 17, p. 6585–6591. (on-line abstract of journal article)

Kulp, T.R., Hoeft, S.E., Asao, M., Madigan, M.T., Hollibaugh, J.T., Fisher, J.C., Stolz, J.F., Culbertson, C.W., Miller, L.G. and Oremland, R.S., 2008, Arsenic(III) fuels anoxygenic photosynthesis in hot spring biofilms from Mono Lake, California: Science v. 321, p. 967 - 970. (on-line abstract of journal article)

Miller, L.G., and Oremland, R.S, 2008, Electricity generation by anaerobic bacteria and anoxic sediments from hypersaline soda lakes: Extremophiles, v. 12, no. 6, p. 837-848. DOI 10.1007/s00792-008-0191-5.. (on-line abstract of journal article)

Oremland, R.S., and Voytek, M.A., 2008, Acetylene as fast food: Implications for development of life on anoxic primordial Earth and in the outer solar system: Astrobiology, v. 8, no. 1, p. 45-58. (on-line abstract or on-line journal article in pdf format, 213 KB, free issue)

Baesman, S.M., Bullen, T.D., Dewald, J., Zhang, D.H., Curran, S., Islam, F.S., Beveridge, T.J., and Oremland, R.S., 2007, Formation of tellurium nanocrystals during anaerobic growth of bacteria using Te-oxyanions as respiratory electron acceptors: Applied and Environmental Microbiology, v. 73, p. 2,135-2,143. (on-line abstract of journal article)

Hoeft, S.E., Switzer Blum, J., Stolz, J.F., Tabita, F.R., Witte, B., King, G.M., Santini, J.M., and Oremland, R.S., 2007, Alkalilimnicola ehrlichii sp. nov., a novel, arsenite-oxidizing haloalkaliphilic gammaproteobacterium capable of chemoautotrophic or heterotrophic growth with nitrate or oxygen as the electron acceptor: International Journal of Systematic and Evolutionary Microbiology, v. 57, p. 504-512. (on-line abstract of journal article)

Kulp, T.R., Han, S., Saltikov, C.W., Lanoil, B.D., Zargar, K., and Oremland, R.S., 2007, Effects of imposed salinity gradients on dissimilatory arsenate reduction, sulfate reduction, and other microbial processes in sediments from two California soda lakes: Applied and Environmental Microbiology, v. 73, p. 5,130–5,137. (on-line abstract of journal article)

Miller, L.G., 2007, Book review of "Geothermal Biology and Geochemistry in Yellowstone National Park", Inskeep, W.P., and McDermott, J.R., eds.: Geofluids, v. 7, p. 270-271. (on-line review in pdf format, 40 KB, a U.S. Govenment work published by Blackwell Publishing)

Schäfer, H., Miller, L.G., Oremland, R.S., and Murrell, J.C., 2007, Bacterial cycling of methyl halides: Advances in Applied Microbiology, v. 61, p. 307-346.

Kulp, T.R., Hoeft, S.E., Miller, L.G., Saltikov, C., Murphy, J.N., Han, S., Lanoil, B., and Oremland, R.S., 2006, Dissimilatory arsenate and sulfate reduction in sediments of two hypersaline, arsenic-rich soda lakes: Mono and Searles Lakes, California : Applied and Environmental Microbiology, v. 72, p. 6,514-6,526. (on-line abstract of journal article)

Lloyd, J.R., and Oremland, R.S., 2006, Microbial transformations of arsenic in the environment: From soda lakes to aquifers: Elements, v. 2, p. 85-90.

Stolz, J.F., Basu, P., Santini, J.M., and Oremland, R.S., 2006, Arsenic and selenium in microbial metabolism: Annual Review of Microbiology, v. 60, p. 107 - 130.

Welch, A.H., Oremland, R.S., Davis, J.A., and Wilkins, S.A., 2006, Arsenic in groundwater within the CalFed solution area: Current understanding of research needs: San Francisco Estuary and Watershed Science, v. 4, no. 2, 32p. (on-line abstract and to down-load paper in pdf format)

Baesman, S.M., and Miller, L.G., 2005, Laboratory determination of the carbon kinetic isotope effects (KIEs) for reactions of methyl halides with various nucleophiles in solution: Journal of Atmospheric Chemistry, v. 52, no, 2, p. 203-219. (on-line abstract of journal article)

McDonald, I.R., Kampfer, P., Topp, E., Warner, K.L., Cox, M.J., Hancock, T.L.C., Miller, L.G., Larkin, M.J., Ducrocq, V., Coulter, C., Harper, D.B., Murrell, J.C., and Oremland, R.S., 2005, Aminobacter ciceronei sp. nov. and Aminobacter lissarensis sp. nov., isolated from various terrestrial environments: International Journal of Systematic and Evolutionary Microbiology, v. 55, p. 1,827-1,832. (on-line abstract of journal article)

Miller, L.G., Oremland, R.S., and Baesman, S.M., 2005, A bioreactor for the oxidation of the fumigant methyl bromide: Patent Number 6916446. (on-line patent description)

Oremland, R.S., Capone, D.G., Stolz, J.F., and Fuhrman, J., 2005, Whither or wither -- Geomicrobiology in the era of "community metagenomics": Nature Reviews in Microbiology, v. 3, p. 572 - 578. (on-line abstract of journal article)

Oremland, R.S., Kulp, T.R., Blum, J.S., Hoeft, S.E., Baesman, S., Miller, L.G., and Stoltz, J.F., 2005, A microbial arsenic cycle in a salt-saturated, extreme environment: Science, v. 308, p. 1,305-1,308. (on-line abstract of journal article)

Oremland, R.S., and Stolz, J.F., 2005, Arsenic, microbes, and contaminated aquifers: Trends in Microbiology, v. 13, p. 45 - 49. (on-line abstract of journal article)

Stolz, J.F., Oremland, R.S., Paster, B.J., Dewhirst, F.E., and P. Vandamme, P., 2005, Genus Sulfurospirillum, in Garrity, G., Brenner, D.J., Krieg, N.R., and Staley, J.T., eds., Bergey's Manual of Systematic Bacteriology , Second Edition, Part Two: The Proteobacteria, Part C: The Alpha-, Beta, Delta-, and Epsilonproteobacteria: New York, Springer, p. 1165 - 1168.

Hoeft, S.E., Kulp, T.R., Stolz, J.F., Hollibaugh, J.T., and Oremland, R.S., 2004, Dissimilatory arsenate reduction with sulfide as the electron donor: Experiments with Mono Lake water and isolation of strain MLMS-1, a chemoautotrophic, arsenate-respirer: Applied and Environmental Microbiology, v. 70, p. 2,741 - 2,747. (on-line abstract)

Hunerlach, M.P., Alpers, C.N., Marvin-DiPasquale, M., Taylor, H.E., and De Wild, J.F., 2004, Geochemistry of mercury and other trace elements in fluvial tailings upstream of Daguerre Point Dam, Yuba River, California, August 2001: U.S. Geological Survey Scientific Investigations Report 2004-5165. (on-line abstract or on-line report in pdf format, 20,423 KB)

Kulp, T.R., Hoeft, S.E., and Oremland, R.S., 2004, Redox transformations of arsenic oxyanions in periphyton communitiesr: Applied and Environmental Microbiology, v. 70, p. 6,428 - 6,434. (on-line abstract)

Miller, L.G., Warner, K.L., Baesman, S.M., Oremland, R.S., McDonald, I.R., Radajewski, S., and Murrell, J.C., 2004, Degradation of methyl bromide and methyl chloride in soil microcosms: Use of stable C isotope fractionation and stable isotope probing to identify reactions and the responsible microorganisms: Geochimica et Cosmochimica Acta, v. 68, no. 15, p. 3,271-3,283. (on-line abstract)

Oremland, R.S., Herbel, M.J., Switzer Blum, J., Langley, S., Beveridge, T.J., Ajayan, P.M., Sutto, T., Ellis, A.V., and Curran, S., 2004, Structural and spectral features of selenium nanospheres produced by Se-respiring bacteria: Applied and Environmental Microbiology, v. 70, p. 52-60. (on-line abstract)

Oremland, R.S., Stolz, J.F., and Hollibaugh, J.T., 2004, The microbial arsenic cycle in Mono Lake, California: FEMS Microbiology Ecology, v. 48, p. 15 - 27. (on-line abstract or on-line article in pdf format)

Snyder, N.P., Allen, J.R., Dare, C., Hampton, M.A., Schneider, G., Wooley, R.J., Alpers, C.N., and Marvin-DiPasquale, M.C., 2004, Sediment grain-size and loss-on-ignition analyses from 2002 Englebright Lake coring and sampling campaigns: U.S. Geological Survey Open-File Report 2004-1080, 46 p. (on-line abstract or on-line report in pdf format - 1.6MB)

Stamenkovic, J., Gustin, M.S., Marvin-DiPasquale, M.C., Thomas, B.A., and Agee, J.L., 2004, Distribution of total and methyl mercury in sediments along Steamboat Creek (Nevada, USA): Science of The Total Environment, v. 322, no. 1-3, p. 167-177. (on-line abstract)

Topping, B.R., Kuwabara, J.S., Marvin-DiPasquale, M.C., Agee, J.L., Kieu, L.H., Flanders, J.R., Parchaso, F., Hager, S.W., Lopez, C.B., and Krabbenhoft, D.P., 2004, Sediment remobilization of mercury in south San Francisco Bay, California: U.S. Geological Survey Scientific Investigations Report 2004-5196, 27 p. + appendices. (on-line executive summary or on-line report in pdf format, 6.9 MB)

Afkar, E., Lisak, J., Saltikov, C., Basu, P., Oremland, R.S., and Stolz, J.F., 2003, The respiratory arsenate reductase from Bacillus selenitireducens strain MLS10: FEMS Microbiology Letters, v. 226, no. 1, p. 107 - 112. (on-line abstract)

Ellis, A.S., Johnson, T.M., Herbel, M.J., Bullen, T.D., 2003, Stable isotope fractionation of selenium by natural microbial consortia: Chemical Geology, v. 195, no. 1-4, p.119-129. (on-line abstract)

Herbel, M.J., Switzer Blum, J., Borglin, S.E., and Oremland, R.S., 2003, Reduction of elemental selenium to selenide: Experiments with anoxic sediments and bacteria that respire Se-oxyanions: Geomicrobiology Journal, v. 20, p. 587-602. (on-line abstract)

Kuwabara, J.S., Alpers, C.N., Marvin-Dipasquale, M., Topping, B.R., Carter, J.L.,. Stewart, A.R.,. Fend, S.V., Parchaso, F., Moon, G.E., and Krabbenhoft, D.P., 2003, Sediment-water interactions affecting dissolved-mercury distributions in Camp Far West Reservoir, California: U.S. Geological Survey Water-Resources Investigations Report 03-4140. (on-line abstract or on-line report in pdf format, 4.3MB)

Marvin-DiPasquale, M., and Agee, J.L., 2003, Microbial mercury cycling in sediments of the San Francisco Bay-Delta: Estuaries, v. 26, p. 1,517-1,528. (on-line abstract)

Marvin-DiPasquale, M., Agee, J., Bouse, R., and Jaffe, B., 2003, Microbial cycling of mercury in contaminated pelagic and wetland sediments of San Pablo Bay, California: Environmental Geology, v. 43, p. 260-267. (on-line abstract)

Marvin-DiPasquale, M.C., Boynton, W.R., Capone, D.G., 2003, Benthic sulfate reduction along the Chesapeake Bay central channel. II. Temporal controls: Marine Ecology - Progress Series, v. 260, p. 55-70. (on-line abstract)

Miller, L.G., Baesman, S.M., and Oremland, R.S., 2003, Bioreactors for removing methyl bromide following contained fumigations: Environmental Science and Technology, v. 37, no. 8, p. 1698-1704. (on-line abstract or on-line pdf file - published by the American Chemical Society; not subject to U.S. copyright.

Oremland, R.S., and Stoltz, J.F., 2003, The ecology of arsenic: Science, v. 300, p. 939-944. (on-line abstract)

Oremland, R.S., 2003, Biodegradation of atmospheric halocarbons, in Haggblom, M.M., and Bossert, I.D., eds., Dehalogenation: Microbial Processes and Environmental Applications: Dordrecht, Kluwer Academic Publishers, p. 323-345.


FOR ADDITIONAL INFORMATION ON THIS PROJECT, CONTACT:
Ronald S. Oremland (professional profile)
U.S. Geological Survey, 345 Middlefield Rd, MS 480, Menlo Park, CA 94025
Email: roremlan@usgs.gov
Telephone: 650-329-4482

Laurence G Miller (professional profile)
U.S. Geological Survey, 345 Middlefield Rd, MS 480, Menlo Park, CA 94025
Email: lgmiller@usgs.gov
Telephone: 650-329-4475

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