Biomineralization associated with microbial reduction of Fe3+ and oxidation of Fe2+ in solid minerals

American Mineralogist

Volumn 94, Issue 7, 2009, Pages 1049-1058

  Zhang, Gengxin ^a   Dong, Hailiang ^a   Jiang, Hongchen ^b   Kukkadapu, Ravi K ^c   Kim, Jinwook ^d   Eberl, Dennis ^e   Xu, Zhiqin ^f  

^a MIAMI UNIVERSITY   (United States)

^b China University of Geosciences   (China)

^c PACIFIC NORTHWEST NATIONAL LABORATORY   (United States)

^d Yonsei University   (South Korea)

^e U S GEOLOGICAL SURVEY   (United States)

^f INSTITUTE OF GEOLOGY   (China)

Author keywords

Ccsd; Iron redox cycling; Nontronite; Subsurface; Thermoanaerobacter ethanolicus

Indexed keywords

BIOMINERALIZATION; IRON COMPOUNDS; MICROORGANISMS; ORGANIC MINERALS; OXIDATION; PHOSPHATE MINERALS;

CCSD; NONTRONITES; REDOX CYCLING; SUBSURFACE; THERMOANAEROBACTER;

SULFUR COMPOUNDS;

BACTERIUM; BIOMINERALIZATION; GEOCHEMICAL CYCLE; IRON; MICROBIAL ACTIVITY; NONTRONITE; OXIDATION; REDUCTION;

ENTEROBACTER; THERMOANAEROBACTER ETHANOLICUS;

EID: 68949116368     PISSN: 0003004X     EISSN: None     Source Type: Journal    
DOI: 10.2138/am.2009.3136     Document Type: Article

References (81)

1. Andrade, S., Hypolito, R., Ulbrich, H.H.G.J., and Silva, M.L. (2002) Iron(II) oxide determination in rocks and minerals. Chemical geology, 182, 85-89.
2. Benz, M., Brune, A., and Schink, B. (1998) Anaerobic and aerobic oxidation of ferrous iron at neutral pH by chemoheterotrophic nitrate-reducing bacteria. Archives of Microbiology, 169, 159-165.
3. Berner, E.K., Berner, R.A., and Moulton, K.L. (2003) Plants and mineral weathering: Present and past. In J.I. Drever, Ed., Treatise on Geochemistry, 5, p. 169-188. Elsevier, Amsterdam.
4. Blake, I.R. and Johnson, D.B. (2000) Phylogenetic and biochemical diversity among acidophylic bacteria that respire iron. In D.R. Lovley, Ed., Environmental Microbe-Mineral Interactions, p. 53-78. American Society for Microbiology (ASM) Press, Washington, D.C.
5. Bottomley, P.J. (1994) Light microscopic methods for studying soil microorganisms. In R.W. Weaver, ed., Methods of Soil Analysis, Part 2. Microbiological and Biochemical Properties, SSSA Book Series, 5, p. 81-105. Soil Science Society of American Publisher, Madison, Wisconsin.
6. Brune, A., Frenzel, P., and Cypionka, H. (2000) Life at the oxic-anoxic interface: Microbial activities and adaptations. FeMS Microbiology Reviews, 24, 691-710.
7. Butler, I.B. and Rickard, D. (2000) Framboidal pyrite formation via the oxidation of iron(II) monosulfide by hydrogen sulfide. geochimica et Cosmochimica Acta, 64, 2665-2672.
8. Chapelle, F.H., O'Neill, K., Bradley, P.M., Methe, B.A., Ciufo, S.A., Knobel, L.L., and Lovley, D.R. (2002) A hydrogen-based subsurface microbial community dominated by methanogens. Nature, 415, 312-315.
9. Dong, H. and yu, B. (2007) geomicrobiological processes in extreme environments: A review. episodes, 30, 202-216.
10. Dong, H., Fredrickson, J.K., Kennedy, D.W., Zachara, J.M., Kukkadapu, R.K., and Onstott, T.C. (2000) Mineral transformation associated with the microbial reduction of magnetite. Chemical Geology, 169, 299-318.
11. Dong, H., Kostka, J.E., and Kim, J.W. (2003a) Microscopic evidence for microbial dissolution of smectite. Clays and Clay Minerals, 51, 502-512.
12. 3+ in illite and goethite by a groundwater bacterium. environmental Science and Technology, 37, 1268-1276.
13. Ehrenreich, A. and Widdel, F. (1994) Anaerobic oxidation of ferrous iron by purple bacteria, a new-type of phototrophic metabolism. Applied and environmental Microbiology, 60, 4517-4526.
14. Emerson, D. and Moyer, C. (1997) Isolation and characterization of novel ironoxidizing bacteria that grow at circumneutral pH. Applied and environmental Microbiology, 63, 4784-4792.
15. Finneran, K.T., Housewright, M.E., and Lovley, D.R. (2002) Multiple influences of nitrate on uranium solubility during bioremediation of uranium-contaminated subsurface sediments. Environmental Microbiology, 4, 510-516.
16. Fortin, D. and Langley, S. (2005) Formation and occurrence of biogenic iron-rich minerals. earth Science Reviews, 72, 1-19.
17. Fredrickson, J.K., Zachara, J.M., Kennedy, D.W., dong, H., Onstott, T.C., Hinman, N.W., and Li, S.M. (1998) Biogenic iron mineralization accompanying the dissimilatory reduction of hydrous ferric oxide by a groundwater bacterium. Geochimica et Cosmochimica Acta, 62, 3239-3257.
18. nd edition. Springer-Verlag, New york.
19. Genthner, B.R.S., Friedman, S.D., and Devereux, R. (1997) Reclassification of Desulfovibrio desulfuricans Norway 4 as Desulfomicrobium norvegicum comb nov and confirmation of Desulfomicrobium escambiense (corrig, formerly "escambium") as a new species in the genus Desulfomicrobium. International Journal of Systematic Bacteriology, 47, 889-892.
20. Ghiorse, W.C. (1984) Biology of iron-depositing and manganese-depositing bacteria. Annual Review of Microbiology, 38, 515-550.
21. Gustafsson, J.P. (2008) Visual MINTeQ. Available at http://www.lwr.kth. se/english/OurSoftware/vminteq/ (accessed 05-12-08).
22. Harrison, A.P. (1984) The acidophilic thiobacilli and other acidophilic bacteria that share their habitat. Annual Review of Microbiology, 38, 265-292.
23. Jaisi, D.P., Kukkadapu, R.K., Eberl, D.D., and Dong, H. (2005) Control of Fe(III) site occupancy on the rate and extent of microbial reduction of Fe(III) in nontronite. Geochimica et Cosmochimica Acta, 69, 5429-5440.
24. Janney, D.E., Cowley, J.M., and Buseck, P.R. (2000) Transmission electron microscopy of synthetic 2- and 6-line ferrihydrite. Clays and Clay Minerals, 48, 111-119.
25. Jiang, H., Dong, H., Zhang, G., Yu, B., Chapman, L.R., and Fields, M.W. (2006) Microbial diversity in water and sediment of Lake Chaka: An athalassohaline hypersaline lake in Northwestern China. Applied and environmental Microbiology, 72, 3832-3845.
26. Jung, H., Park, H., Kim, J., Lee, J.H., Hur, H.G., Myung, N.V., and Choi, H. (2007) Preparation of riotic and abiotic iron oxide nanoparticles (IOnPs) and their properties and applications in heterogeneous catalytic oxidation. Environmental Science and Technology, 41, 4741-4747.
27. 2+-oxidizing photoautotrophic bacteria. Geochimica et Cosmochimica Acta, 68, 1217-1226.
28. Kappler, A. and Straub, K.L. (2005) geomicrobiological cycling of iron. In J.F. Banfield, J. Cervini-Silva, and K.H. Nealson, eds., Molecular geomicrobiology, 59, p. 85-108. Reviews in Mineralogy and geochemistry, Mineralogical Society of America, Chantilly, Virginia.
29. Kennedy, C.B., Scott, S.D., and Ferris, F.G. (2003) Characterization of bacteriogenic iron oxide deposits from Axial Volcano, Juan de Fuca Ridge, northeast Pacific Ocean. Geomicrobiology Journal, 20, 199-214.
30. 3+-reduced nontronite: Environmental cell-transmission electron microscopy study. Clays and Clay Minerals, 51, 382-389.
31. Kostka, J.E. and Nealson, K.H. (1998) Isolation, cultivation, and characterization of iron- and manganese-reducing bacteria. In R.S. Burlage, Ed., Techniques in Microbial Ecology, p. 58-78. Oxford University Press, U.K.
32. Kreller, D.I., Gibson, G., Novak, W., Loon, G.W.V., and Horton, J.H. (2003) Competitive adsorption of phosphate and carboxylate with natural organic matter on hydrous iron oxides as investigated by chemical force microscopy. Colloids and Surfaces A: Physicochemical and Engineering Aspects, 212, 249-264.
33. 2-utilizing bacteria, Desulfomicrobium hypogeium sp. nov. and Acetobacterium psammolithicum sp. nov., and their ecological roles. Applied and Environmental Microbiology, 65, 2300-2306.
34. Krumholz, L.R., Harris, S.H., and Suflita, J.M. (2002) Anaerobic microbial growth from components of cretaceous shales. geomicrobiological Journal, 19, 593-602.
35. Kukkadapu, R.K., Zachara, J.M., Smith, S.C., Fredrickson, J.K., and Liu, C.X. (2001) dissimilatory bacterial reduction of Al-substituted goethite in subsurface sediments. Geochimica et Cosmochimica Acta, 65, 2913-2924.
36. 3+-reducing bacterium: Formation of carbonate green rust in the presence of phosphate. Geochimica et Cosmochimica Acta, 68, 2799-2814.
37. Lee, J.H., Kim, M.G., Yoo, B.Y., Myung, N.V., Maeng, J.S., Lee, T., Dohnalkova, A.C., Fredrickson, J.K., Sadowsky, M.J., and Hur, H.G. (2007) Biogenic formation of photoactive arsenic-sulfide nanotubes by Shewanella sp. strain HN-41. Proceedings of the National Academy of Sciences of the U.S.A., 104, 20410-20415.
38. 3+ reducing bacteria from the deep subsurface: The evolutionary implications. Science, 277, 1106-1109.
39. Lovley, D.R. (1993) dissimilatory Metal Reduction. Annual Review of Microbiology, 47, 263-290.
40. -, (2000a) environmental Microbe-Metal Interactions, 408 p. ASM Press, Washington, D.C.
41. 3+ and Mn(IV) reduction. In D.R. Lovley, ed., environmental Microbe-Metal Interactions, p. 3-30. ASM Press, Washington, D.C.
42. -, (2004) Potential role of dissimilatory iron reduction in the early evolution of microbial respiration. In J. Seckbach, ed., Origins, evolution, and Biodiversity of Microbial Life, p. 299-313. Kluwer, Netherlands.
43. Lovley, D.R. and Chapelle, F.H. (1995) deep subsurface microbial processes. Reviews of geophysics, 33, 365-381.
44. Lovley, D.R., Coates, J.D., Bluent-Harris, E.L., Philips, E.J.P., and Woodward, J.C. (1996) Humic substances as electron acceptors for microbial respiration. Nature, 382, 445-448.
45. Martinez, R.E. and Ferris, F.G. (2005) Review of the surface chemical heterogeneity of bacteriogenic iron oxides: Proton and cadmium sorption. American Journal of Science, 305, 854-871.
46. McCammon, C.A. and Burns, R.G. (1980) The oxidation mechanism of vivianite as studied by Mössbauer spectroscopy. American Mineralogist, 65, 361-366.
47. Michel, C., Brugna, M., Aubert, C., Bernadac, A., and Bruschi, M. (2001) enzymatic reduction of chromate: comparative studies using sulfate-reducing bacteria. Applied Microbiology and Biotechnology, 55, 95-100.
48. Nealson, K.H. and Saffarini, D. (1994) Iron and manganese in anaerobic respiration: environmental significance, physiology, and regulation. Annual Review of Microbiology, 48, 311-343.
49. Neubauer, S.C., Emerson, D., and Megonigal, J.P. (2002) Life at the energetic edge: Kinetics of circumneutral iron oxidation by lithotrophic iron-oxidizing bacteria isolated from the wetland-plant rhizosphere. Applied and environmental Microbiology, 68, 3988-3995.
50. 3+ oxide reduction in sedimentary environments. Geomicrobiological Journal, 19, 141-159.
51. Pedersen, K. (2000) exploration of deep intraterrestrial microbial life: Current perspectives. FeMS Microbiology Letters, 185, 9-16.
52. 2 and the isotopic records of carbon and sulfur. American Journal of Science, 298, 246-262.
53. Pisapia, C., Chaussidon, M., Mustin, C., and Humbert, B. (2007) O and S isotopic composition of dissolved and attached oxidation products of pyrite by Acidithiobacillus ferrooxidans: Comparison with abiotic oxidations. geochimica et Cosmochimica Acta, 71, 2474-2490.
54. Prowe, S.G. and Antranikian, G. (2001) Anaerobranca gottschalkii sp. nov., a novel thermoalkaliphilic bacterium that grows anaerobically at high pH and temperature. International Journal of Systematic and Evolutionary Microbiology, 51, 457-465.
55. Roden, E.E., Sobolev, D., Glazer, B., and Luther, G.W. (2004) Potential for microscale bacterial Fe redox cycling at the aerobic-anaerobic interface. Geomicrobiology Journal, 21, 379-391.
56. Roels, J. and Verstraete, W. (2001) Biological formation of volatile phosphorus compounds. Bioresource Technology, 79, 243-250.
57. Roh, Y., Lauf, R.J., McMillan, A.D., Zhang, C., Rawn, C.J., Bai, J., and Phelps, T.J. (2001) Microbial synthesis and the characterization of metal-substituted magnetites. Solid State Communications, 118, 529-534.
58. Roh, Y., Liu, S.V., Li, G.S., Huang, H.S., Phelps, T.J., and Zhou, J.Z. (2002) Isolation and characterization of metal-reducing Thermoanaerobacter strains from deep subsurface environments of the Piceance Basin, Colorado. Applied and Environmental Microbiology, 68, 6013-6020.
59. nd edition. VCH-Wiley, Weinheim.
60. Schwertmann, U. and Taylor, R.M. (1989) Iron oxides. In J.B. dixon and S.B. Weed, eds., Minerals in Soil environments, 2nd edition, p. 379-438. Soil Science Society of America, Madison, Wisconsin.
61. Shelobolina, E.S., Vanpraagh, C.G., and Lovley, D.R. (2003) Use of ferric and ferrous iron containing minerals for respiration by Desulfitobacterium frappieri. Geomicrobiology Journal, 20, 143-156.
62. Stevens, T. (1997) Lithoautotrophy in the subsurface. FeMS Microbiology Reviews, 20, 327-337.
63. Stevens, T.O. and McKinley, J.P. (1995) Lithoautotrophic microbial ecosystems in deep basalt aquifers. Science, 270, 450-454.
64. 2 production from basalt-water reactions and implications for aquifer biogeochemistry. Environmental Science and Technology, 34, 826-831.
65. Stookey, L.L. (1970) Ferrozine: a new spectrophotometric reagent for iron. Analytical Chemistry, 42, 779-781.
66. Straub, K.L. and Buchholz-Cleven, B.E.E. (1998) Enumeration and Detection of Anaerobic Ferrous Iron-Oxidizing, Nitrate-Reducing Bacteria From Diverse European sediments. Applied and Environmental Microbiology, 64, 4846-4856.
67. Straub, K.L., Benz, M., Schink, B., and Widdel, F. (1996) Anaerobic, nitrate-dependent microbial oxidation of ferrous iron. Applied and Environmental Microbiology, 62, 1458-1460.
68. Straub, K.L., Benz, M., and Schink, B. (2001) Iron metabolism in anoxic environments at near neutral pH. FeMS Microbiology ecology, 34, 181-186.
69. Straub, K.L., Schonhuber, W.A., Buchholz-Cleven, B.E.E., and Schink, B. (2004) diversity of ferrous iron-oxidizing, nitrate-reducing bacteria and their involvement in oxygen-independent iron cycling. Geomicrobiology Journal, 21, 371-378.
70. Stucki, J.W. (2006) Iron redox processes in clay minerals. In F. Bergaya, G. Lagaly, and B.G.K. Theng, Eds., Handbook of Clay Science. Elsevier, Amsterdam.
71. Wang, J.Y., Hu, S.B., yang, W.C., Chen, B.H., Chen, Z.Y., and Li, T.J. (2001) Geothermal measurements in the pilot-boreholes of the China Continental Scientific Drilling. Chinese Science Bulletin, 46, 1745-1748.
72. Weber, K.A., Urrutia, M.M., Churchill, P.F., Kukkadapu, R.K., and Roden, E.E. (2006) Anaerobic redox cycling of iron by freshwater sediment microorganisms. Environmental Microbiology, 8, 100-113.
73. Widdel, F., Schnell, S., Heising, S., ehrenreich, A., Assmus, B., and Schink, B. (1993) Ferrous iron oxidation by anoxygenic phototrophic bacteria. Nature, 362, 834-836.
74. Wiegel, J. and Ljungdahl, L.G. (1981) Thermoanaerobacter ethanolicus gen. nov., spec. nov., a new, extreme thermophilic, anaerobic bacterium. Archives of Microbiology, 128, 343-348.
75. Wigginton, N.S., Haus, K.L., and Hochella, M.F.J. (2007) Aquatic environmental nanoparticles. Journal of Environmental Monitoring, 9, 1285-1432.
76. 2- to goethite and a subsurface sediment. Geochimica et Cosmochimica Acta, 64, 1345-1362.
77. Zhang, G., dong, H., Xu, Z., Zhao, D., and Zhang, C. (2005) Microbial diversity in ultra-high pressure rocks and fluids from the Chinese Continental Scientific Drilling in China. Applied and Environmental Microbiology, 71, 3213-3227.
78. Zhang, G., Dong, H., Jiang, H., Xu, Z., and Eberl, D.D. (2006) Unique microbial community in drilling fluid from Chinese Continental Scientific Deep Drilling. Geomicrobiology Journal, 23, 499-514.
79. 3+ in nontronite by a thermophilic bacterium and its role in promoting the smectite to illite reaction. American Mineralogist, 92, 1411-1419.
80. Zhang, G., Kim, J.W., Dong, H., and Sommer, A.J. (2007b) Microbial effects in promoting the smectite to illite reaction: role of organic matter intercalated in the interlayer. American Mineralogist, 92, 1401-1410.
81. Zheng, Y.F., Fu, B., Gong, B., and Li, L. (2003) Stable isotope geochemistry of ultrahigh pressure metamorphic rocks from the dabie-Sulu orogen in China: implications for geodynamics and fluid regime. earth-Science Reviews, 1276, 1-57.