Isolation and microbial reduction of Fe(III) phyllosilicates from subsurface sediments

Environmental Science and Technology

Volumn 46, Issue 21, 2012, Pages 11618-11626

  Wu, Tao ^a   Shelobolina, Evgenya ^a   Xu, Huifang ^a   Konishi, Hiromi ^a   Kukkadapu, Ravi ^b   Roden, Eric E ^a  

^a UNIVERSITY OF WISCONSIN MADISON   (United States)

^b PACIFIC NORTHWEST NATIONAL LABORATORY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AMMONIUM OXALATE; CHEMICAL EXTRACTION METHOD; CITRATE DITHIONITE BICARBONATES; D-SPACING; DENSITY GRADIENT CENTRIFUGATION; GEOBACTER SULFURREDUCENS; IRON REDUCTION; MICROBIAL REDUCTION; NANO PARTICULATES; NATURAL SOILS; OXIDE PHASIS; PHYLLOSILICATE; PHYLLOSILICATE PHASIS; PHYSICAL PARTITIONING; RE-OXIDATION; REDOX SPECIATION; ROOM TEMPERATURE; SOILS AND SEDIMENTS; SUBSURFACE SEDIMENTS; XRD ANALYSIS;

AMMONIUM COMPOUNDS; CENTRIFUGATION; MOSSBAUER SPECTROSCOPY; ROCKS; SEDIMENTOLOGY; SEDIMENTS; SILICATES;

IRON COMPOUNDS;

AMMONIUM DERIVATIVE; BICARBONATE; CITRIC ACID; DITHIONITE; FERRIC HYDROXIDE; HYDROGEN PEROXIDE; IRON; NANOPARTICLE; PHYLLOSILICATE; SILICATE; UNCLASSIFIED DRUG;

ANOXIC CONDITIONS; BACTERIUM; CHEMICAL WEATHERING; IRON; MOSSBAUER SPECTROSCOPY; PHYLLOSILICATE; PRISTINE ENVIRONMENT; REDUCTION; SEDIMENT POLLUTION; SOIL POLLUTION; X-RAY DIFFRACTION;

ARTICLE; CHEMICAL STRUCTURE; DENSITY GRADIENT CENTRIFUGATION; GEOBACTER SULFURREDUCENS; MOSSBAUER SPECTROSCOPY; NONHUMAN; OXIDATION; REDUCTION; ROOM TEMPERATURE; SEDIMENT; TRANSMISSION ELECTRON MICROSCOPY; X RAY DIFFRACTION;

BICARBONATES; CITRIC ACID; FERRIC COMPOUNDS; GEOBACTER; GEOLOGIC SEDIMENTS; HYDROGEN PEROXIDE; OXALIC ACID; OXIDANTS; OXIDATION-REDUCTION; SILICATES; SULFATES;

GEOBACTER SULFURREDUCENS;

EID: 84868589033     PISSN: 0013936X     EISSN: 15205851     Source Type: Journal    
DOI: 10.1021/es302639n     Document Type: Article

References (56)

1. Kukkadapu, R. K.; Zachara, J. M.; Smith, S. C.; Fredrickson, J. K.; Liu, C. Dissimilatory bacterial reduction of Al-substituted goethite in subsurface sediments Geochim. Cosmochim. Acta 2001, 65 (17) 2913-2924
2. Roden, E. E. Geochemical and microbiological controls on dissimilatory iron reduction C. R. Geosci. 2006, 338 (6-7) 456-467
3. Roden, E. E.; Zachara, J. M. Microbial reduction of crystalline iron(III) oxides: Influence of oxide surface area and potential for cell growth Environ. Sci. Technol. 1996, 30 (5) 1618-1628
4. Roden, E. E.; Urrutia, M. M. Influence of biogenic Fe(II) on bacterial crystalline Fe(III) oxide reduction Geomicrobiol. J. 2002, 19 (2) 209-251
5. Fredrickson, J. K.; Zachara, J. M.; Kennedy, D. W.; Dong, H. L.; Onstott, T. C.; Hinman, N. W.; Li, S. M. Biogenic iron mineralization accompanying the dissimilatory reduction of hydrous ferric oxide by a groundwater bacterium Geochim. Cosmochim. Acta 1998, 62 (19-20) 3239-3257
6. Kostka, J. E.; Stucki, J. W.; Nealson, K. H.; Wu, J. Reduction of structural Fe(III) in smectite by a pure culture of Shewanella putrefaciens strain MR-1 Clays Clay Miner. 1996, 44 (4) 522-529
7. Stucki, J. W.; Komadel, P.; Wilkinson, H. T. Microbial reduction of structural iron(III) in smectites Soil Sci. Soc. Am. J. 1987, 51 (6) 1663-1665
8. Kukkadapu, R. K.; Zachara, J. M.; Fredrickson, J. K.; McKinley, J. P.; Kennedy, D. W.; Smith, S. C.; Dong, H. L. Reductive biotransformation of Fe in shale-limestone saprolite containing Fe(III) oxides and Fe(II)/Fe(III) phyllosilicates Geochim. Cosmochim. Acta 2006, 70 (14) 3662-3676
9. Komlos, J.; Peacock, A.; Kukkadapu, R. K.; Jaffe, P. R. Long-term dynamics of uranium reduction/reoxidation under low sulfate conditions Geochim. Cosmochim. Acta 2008, 72 (15) 3603-3615
10. Jaisi, D. P.; Kukkadapu, R.; Eberl, D. D.; Dong, H. L. Control of Fe(III) site occupancy on the rate and extent of microbial reduction of Fe(III) in nontronite Geochim. Cosmochim. Acta 2005, 69 (23) 5429-5440
11. Shelobolina, E. S.; Anderson, R. T.; Vodyanitskii, Y. N.; Sivtsov, A. V.; Yuretich, R.; Lovley, D. R. Importance of clay size minerals for Fe(III) respiration in a petroleum-contaminated aquifer Geobiology 2004, 2 (1) 67-76
12. Dong, H. L.; Jaisi, D. P.; Kim, J.; Zhang, G. X. Microbe-clay mineral interactions Am. Mineral. 2009, 94 (11-12) 1505-1519
13. Shelobolina, E.; Roden, E. E. Microorganisms involved in iron redox cycling in smectite Abstr. Pap. Am. Chem. Soc. 2009, 237, 70-GEOC
14. Stucki, J. W. A review of the effects of iron redox cycles on smectite properties C. R. Geosci. 2011, 343 (2-3) 199-209
15. Stucki, J. W.; Kostka, J. E. Microbial reduction of iron in smectite C. R. Geosci. 2006, 338 (6-7) 468-475
16. Kostka, J. E.; Haefele, E.; Viehweger, R.; Stucki, J. W. Respiration and dissolution of iron(III) containing clay minerals by bacteria Environ. Sci. Technol. 1999, 33 (18) 3127-3133
17. Kim, J. W.; Furukawa, Y.; Dong, H. L.; Newell, S. W. The effect of microbial Fe(III) reduction on smectite flocculation Clays Clay Miner. 2005, 53 (6) 572-579
18. Sawhney, B. L. Interstratification in layer silicates. In Minerals in soil environments, 2 nd ed.; Dixon, J. B.; Weed, S. B., Eds.; Soil Science Society of America: Madison, WI, 1989; pp 789-828.
19. Dixon, J. B. Roles of clay and oxide minerals in soils. In Environmental interactions of clays; Parker, A.; Rae, J. E., Eds.; Springer-Verlag: Berlin, Heidelberg, 1998; pp 37-54.
20. Moon, J. W.; Roh, Y.; Phelps, T. J.; Phillips, D. H.; Watson, D. B.; Kim, Y. J.; Brooks, S. C. Physicochemical and mineralogical characterization of soil-saprolite cores from a field research site, Tennessee J. Environ. Qual. 2006, 35 (5) 1731-1741
21. Komlos, J.; Jaffe, P. R. Effect of iron bioavailability on dissolved hydrogen concentrations during microbial iron reduction Biodegradation 2004, 15 (5) 315-325
22. Akob, D. M.; Mills, H. J.; Gihring, T. M.; Kerkhof, L.; Stucki, J. W.; Anastacio, A. S.; Chin, K. J.; Kusel, K.; Palumbo, A. V.; Watson, D. B.; Kostka, J. E. Functional diversity and electron donor dependence of microbial populations capable of U(VI) reduction in radionuclide-contaminated subsurface sediments Appl. Environ. Microbiol. 2008, 74 (10) 3159-3170
23. Mohanty, S. R.; Kollah, B.; Hedrick, D. B.; Peacock, A. D.; Kukkadapu, R. K.; Roden, E. E. Biogeochemical processes in ethanol stimulated uranium-contaminated suhsurface sediments Environ. Sci. Technol. 2008, 42 (12) 4384-4390
24. Tucker, M. E. Techniques in sedimentology; Blackwell Scientific Publications: 1988.
25. Jaynes, W. F.; Bigham, J. M. Concentration of iron-oxides from soil clays by density gradient centrifugation Soil Sci. Soc. Am. J. 1986, 50 (6) 1633-1639
26. Rockne, K. J.; Liang, W. S.; Young, L. Y.; Taghon, G. L. Toxicity of density separation media to Escherichia coli and Mycobacterium strain PC01: implications for density-separation of soils and sediments FEMS Microbiol. Ecol. 2003, 43 (2) 185-189
27. Schwertmann, U. The differentiation of iron oxide in soils by a photochemical extraction with acid ammonium oxalate Z. Pflanzenernaehr., Dueng., Bodenkd. 1964, 105, 194-201
28. Phillips, E. J. P.; Lovley, D. R.; Roden, E. E. Composition of non-microbially reducible Fe(III) in aquatic sediments Appl. Environ. Microbiol. 1993, 59 (8) 2727-2729
29. Suter, S.; Siffert, C.; Sulzberger, B.; Stumm, W. Catalytic dissolution of iron(III)(hydro)oxides by oxalic acid in the presence of Fe(II) Naturwissenschaften 1988, 75, 571-573
30. Mehra, O. P.; Jackson, M. L. Iron oxide removal from soils and clays by a dithionite-citrate system buffered with sodium bicarbonate Clays Clay Miner. 1980, 7, 317-327
31. Komlos, J.; Kukkadapu, R. K.; Zachara, J. M.; Jaffe, P. R. Biostimulation of iron reduction and subsequent oxidation of sediment containing Fe-silicates and Fe-oxides: Effect of redox cycling on Fe(III) bioreduction Water Res. 2007, 41 (13) 2996-3004
32. Kostka, J. E., III; G., W. L. Partitioning and speciation of solid phase iron in saltmarsh sediments Geochim. Cosmochim. Acta 1994, 58, 1701-1710
33. Stookey, L. L. Ferrozine-a new spectrophotometric reagent for iron Anal. Chem. 1970, 42, 779-781
34. Turner, G. D.; Zachara, J. M.; McKinley, J. P.; Smith, S. C. Surface-charge properties and UO22+ adsorption of a subsurface smectite Geochim. Cosmochim. Acta 1996, 60 (18) 3399-3414
35. 3+ using 1,10-phenanthroline: III. A rapid photochemical method Clays Clay Miner. 1988, 36 (4) 379-381
36. Amonette, J. E.; Templeton, J. C. Improvements to the quantitative assay of nonrefractory minerals for Fe(II) and total Fe using 1,10-phenanthroline Clays Clay Miner. 1998, 46 (1) 51-62
37. Caccavo, F.; Lonergan, D. J.; Lovley, D. R.; Davis, M.; Stolz, J. F.; McInerney, M. J. Geobacter sulfurreducens sp. nov., a hydrogen- and acetate-oxidizing dissimilatory metal-reducing microorganism Appl. Environ. Microbiol. 1994, 60 (10) 3752-3759
38. Methe, B. A.; Nelson, K. E.; Eisen, J. A.; Paulsen, I. T.; Nelson, W.; Heidelberg, J. F.; Wu, D.; Wu, M.; Ward, N.; Beanan, M. J.; Dodson, R. J.; Madupu, R.; Brinkac, L. M.; Daugherty, S. C.; DeBoy, R. T.; Durkin, A. S.; Gwinn, M.; Kolonay, J. F.; Sullivan, S. A.; Haft, D. H.; Selengut, J.; Davidsen, T. M.; Zafar, N.; White, O.; Tran, B.; Romero, C.; Forberger, H. A.; Weidman, J.; Khouri, H.; Feldblyum, T. V.; Utterback, T. R.; Van Aken, S. E.; Lovley, D. R.; Fraser, C. M. Genome of Geobacter sulfurreducens: Metal reduction in subsurface environments Science 2003, 302 (5652) 1967-1969
39. Moore, D. M.; Reynolds, R. C. X-Ray Diffraction and the Identification and Analysis of Clay Minerals; Oxford University Press: 1997.
40. Kukkadapu, R. K.; Zachara, J. M.; Fredrickson, J. K.; Kennedy, D. W. Biotransformation of two-line silica-ferrihydrite by a dissimilatory Fe(III)-reducing bacterium: Formation of carbonate green rust in the presence of phosphate Geochim. Cosmochim. Acta 2004, 68 (13) 2799-2814
41. Totten, M. W.; Hanan, M. A.; Knight, D.; Borges, J. Characteristics of mixed-layer smectite/illite density separates during burial diagenesis Am. Mineral. 2002, 87, 1571-1579
42. Borggaard, O. K. Kinetics and mechanism of soil iron oxide dissolution in EDTA, oxalate and dithionite Mem. Sci. Geol. 1990, 85, 139-148
43. Hering, J. G.; Stumm, W. Oxidative and reductive dissolution of minerals Rev. Miner. 1990, 23, 427-465
44. Van Oorschot, I. H. M.; Dekkers, M. J. Selective dissolution of magnetic iron oxides in the acid-ammonium oxalate/ferrous iron extraction method-I. Synthetic samples Geophys. J. Int. 2001, 145 (3) 740-748
45. Van Oorschot, I. H. M.; Dekkers, M. J.; Havlicek, P. Selective dissolution of magnetic iron oxides with the acid-ammonium-oxalate/ferrous-iron extraction technique-II. Natural loess and palaeosol samples Geophys. J. Int. 2002, 149 (1) 106-117
46. Suter, D.; Banwart, S.; Stumm, W. Dissolution of hydrous iron(III) oxides by reductive mechanisms Langmuir 1991, 7 (4) 809-813
47. Schwertmann, U.; Friedl, J.; Stanjek, H.; Murad, E.; Koch, C. B. Iron oxides and smectites in sediments from the Atlantis II Deep Red Sea Eur. J. Mineral 1998, 10 (5) 953-967
48. Loeppert, R. L.; Inskeep, W. P. Iron. In Methods of Soil Analysis Part 3-Chemical Methods, Sparks, D. L., Ed.; Soil Science Society of America: Madison, 1996; pp 639-664.
49. Borggaard, O. K. Phase identification by phase dissolution techniques. In Iron in soils and clay minerals; Stucki, J. W., Ed.; Reidel: Dordrecht, The Netherlands, 1988; pp 83-98.
50. Jaisi, D. P.; Dong, H. L.; Morton, J. P. Partitioning of Fe(II) in reduced nontronite (NAu-2) to reactive sites: Reactivity in terms of Tc(VII) reduction Clays Clay Miner. 2008, 56 (2) 175-189
51. Fialips, C. I.; Huo, D. F.; Yan, L. B.; Wu, J.; Stucki, J. W. Effect of Fe oxidation state on the IR spectra of Garfield nontronite Am. Mineral. 2002, 87 (5-6) 630-641
52. Manceau, A.; Drits, V. A.; Lanson, B.; Chateigner, D.; Wu, J.; Huo, D.; Gates, W. P.; Stucki, J. W. Oxidation-reduction mechanism of iron in dioctahedral smectites: II. Crystal chemistry of reduced Garfield nontronite Am. Mineral. 2000, 85, 153-172
53. Rancourt, D. G. Mossbauer spectroscopy in clay science Hyperfine Interact. 1998, 117, 3-38
54. Bevington, P. R.; Robinson, D. K. Data reduction and error analysis for the physical sciences; McGraw Hill: New York, 1992.
55. Jaisi, D. P.; Dong, H. L.; Liu, C. X. Influence of biogenic Fe(II) on the extent of microbial reduction of Fe(III) in clay minerals nontronite, illite, and chlorite Geochim. Cosmochim. Acta 2007, 71 (5) 1145-1158
56. Seabaugh, J. L.; Dong, H. L.; Kukkadapu, R. K.; Eberl, D. D.; Morton, J. P.; Kim, J. Microbial reduction of Fe(III) in the Fithian and Muloorina illites: Contrasting extents and rates of bioreduction Clays Clay Miner. 2006, 54 (1) 67-79