Isolation and characterization of metal-reducing Thermoanaerobacter strains from deep subsurface environments of the Piceance Basin, Colorado

Applied and Environmental Microbiology

Volumn 68, Issue 12, 2002, Pages 6013-6020

  Roh, Yul ^a   Liu, Shi V ^a,b   Li, Guangshan ^a   Huang, Heshu ^a   Phelps, Tommy J ^a   Zhou, Jizhong ^a  

^a OAK RIDGE NATIONAL LABORATORY   (United States)

^b U S ENVIRONMENTAL PROTECTION AGENCY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CELL CULTURE; CHARACTERIZATION; COMPOSITION; ENZYMES; GENES; RNA;

ELECTRON DONORS;

BACTERIA;

ACETIC ACID; CHROMIUM; COBALT; FERRIC CARBONATE; FERRIC ION; GLUCOSE; HYDROGEN; LACTIC ACID; MAGNETITE; MANGANESE; MINERAL; PYRUVIC ACID; RHODOCHROSITE; SMALL SUBUNIT RIBOSOMAL RNA; SUCCINIC ACID; UNCLASSIFIED DRUG; URANINITE; URANIUM; XYLOSE;

BACTERIUM; IRON-REDUCING BACTERIUM; THERMOPHILIC BACTERIUM;

ANAEROBIC BACTERIUM; ARTICLE; BACTERIUM CULTURE; BACTERIUM ISOLATION; CHEMICAL COMPOSITION; ELECTRON TRANSPORT; GAS; GEOLOGY; HYDROLOGY; NONHUMAN; NUCLEOTIDE SEQUENCE; PRECIPITATION; REDUCTION; SEQUENCE HOMOLOGY; THERMOANAEROBACTER; THERMOANAEROBACTER ETHANOLICUS; THERMOPHILIC BACTERIUM; UNITED STATES;

BACTERIA, ANAEROBIC; IRON; METALS; OXIDATION-REDUCTION; SOIL MICROBIOLOGY;

UNITED STATES;

BACTERIA (MICROORGANISMS); THERMOANAEROBACTER; THERMOANAEROBACTER ETHANOLICUS;

EID: 0036946946     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.68.12.6013-6020.2002     Document Type: Article

References (62)

1. Arnold, R. G., T. J. DiChristina, and M. R. Hoffmann. 1986. Inhibitor studies of dissimilative Fe(III) reduction by Pseudomonas sp. strain 200 ("Pseudomonas ferrireductans"). Appl. Environ. Microbiol. 52:281-289.
2. Baur, M. E., J. M. Hayes, S. A. Studley, and M. R. Walter. 1985. Millimeter-scale variations of stable isotope abundances in carbonates from banded iron-formations in the Hamersley Group of Western Australia. Econ. Geol. 80:270-282.
3. Bell, P. E., A. L. Mills, and J. S. Herman. 1987. Biogeochemical conditions favoring magnetite formation during anaerobic iron reduction. Appl. Environ. Microbiol. 53:2610-2616.
4. Boone, D. R., Y. T. Liu, Z. J. Zhao, D. L. Balkwill, G. R. Drake, T. O. Stevens, and H. C. Aldrich. 1995. Bacillus infernus sp. nov.: an Fe(III)- and Mn(IV)-reducing anaerobe from the deep terrestrial subsurface. Int. J. Syst. Bacteriol 45:441-448.
5. Bridge, T. A. M., and D. B. Johnson. 1998. Reduction of soluble iron and reductive dissolution of ferric iron-containing minerals by moderately thermophilic iron-oxidizing bacteria. Appl. Environ. Microbiol. 64:2181-2186.
6. Cairins-Smith, A. G., A. J. Hall, and M. J. Russell. 1992. Mineral theories of the origin of life and an iron sulfide example. Origins Life Evol. Biosph. 22:161-180.
7. Canfield, D. E., B. B. Jørgensen, H. Fossing, R. Glud, J. Gundersen, N. B. Ramsing, B. Thamdrup, J. W. Hansen, L. P. Nielsen, and P. O. J. Hall. 1993. Pathways of organic carbon oxidation in three continental margin sediments. Mar. Geol. 113:27-40.
8. Colwell, F. S., T. C. Onstott, M. E. Delwiche, D. Chandler, J. K. Fredrickson, Q. J. Yao, J. P. McKinley, D. R. Bone, R. Griffiths, T. J. Phelps, D. Ringelberg, D. C. White, L. LaFreniere, D. Balkwill, R. M. Lehman, J. Konisky, and P. E. Long. 1997. Microorganisms from deep, high temperature sandstones: constraints on microbial colonization. FEMS Microbiol. Rev. 20:425-435.
9. De Bruijn, F. J. 1992. Use of repetitive (repetitive extragenic palindromic and enterobacterial repetitive intergeneric consensus) sequences and the polymerase chain reaction to fingerprint the genomes of Rhizobium meliloti isolates and other soil bacteria. Appl. Environ. Microbiol. 58:2180-2187.
10. Devereux, J., P. Haeberli, and O. Smithies. 1984. A comprehensive set of sequence analysis programs for the VAX. Nucleic Acids Res. 12:385-395.
11. Ferris, F. G., R. G. Wiese, and W. S. Fyfe. 1994. Precipitation of carbonate minerals by microorganisms: implications for silicate weathering and the global carbon dioxide budget. Geomicrobiol. J. 12:1-13.
12. Fredrickson, J. K., J. M. Zachara, D. W. Kennedy, H. Dong, T. C. Onstott, N. W. Hinman, and S. Li. 1998. Biogenic iron mineralization accompanying the dissimilatory reduction of hydrous ferric oxide by a groundwater bacterium. Geochim. Cosmochim. Acta 62:3239-3257.
13. Fredrickson, J. K., H. M. Kostandarithes, S. W. Li, A. E. Plymale, and M. J. Daly. 2000. Reduction of Fe(III), Cr(IV), U(VI), and Tc(VII) by Deinococcus radiodurans R1. Appl. Environ. Micobiol. 66:2006-2011.
14. Fredrickson, J. K., and T. C. Onstott. 2001. Biogeochemical and geological significance of subsurface microbiology, p. 3-37. In J. K. Fredrickson and M. Fletcher (ed.), Subsurface microbiology and biogeochemistry. John Wiley & Sons, Inc., New York, N.Y.
15. Gorby, Y. A., and D. R. Lovley. 1991. Electron transport in the dissimilatory iron reducer, GS-15. Appl. Environ. Microbiol. 57:867-870.
16. - in the presence and absence of manganese(IV) oxide. Environ. Sci. Technol. 32:244-250.
17. Greene, A. C., B. K. C. Patel, and A. J. Sheehy. 1997. Deferribacter thermophilus gen. nov., sp. nov., a novel thermophilic manganese- and iron-reducing bacterium isolated from a petroleum reservoir. Int. J. Syst. Bacteriol. 47:505-509.
18. Kashefi, K., and D. R. Lovley. 2000. Reduction of Fe(III), Mn(IV), and toxic metals at 100°C by Pyrobaculum islandicum. Appl. Environ. Microbiol. 66:1050-1056.
19. Kieft, T. L., J. K. Fredrickson, T. C. Onstott, Y. A. Gorby, H. M. Kostandarithes, T. J. Bailey, D. W. Kennedy, S. W. Li, A. E. Plymale, C. M. Spadoni, and M. S. Gray. 1999. Dissimilatory reduction of Fe(III) and other electron acceptors by a Thermus isolate. Appl. Environ. Microbiol. 65:1214-1221.
20. Laverman, A. M., J. Switzer Blum, J. K. Schaefer, E. J. P. Phillips, D. R. Lovley, and R. S. Oremland. 1995. Growth of strain SES-3 with arsenate and other diverse electron acceptors. Appl. Environ. Microbiol. 61:3556-3561.
21. Liu, S. V., J. Zhou, C. Zhang, D. R. Cole, M. Gajdarziska-Josifovska, and T. J. Phelps. 1997. Thermophilic Fe(III) reducing bacteria from the deep subsurface: the evolutionary implications. Science 277:1106-1109.
22. Lloyd, J. R., and L. E. Macaskie. 1996. A novel Phosphorlmager-based technique for monitoring the microbial reduction of technetium. Appl. Environ. Microbiol. 62:578-582.
23. Lloyd, J. R., and L. E. Macaskie. 2000. Bioremediation of radionuclide-containing wastewaters, p. 277-327. In D. R. Lovley (ed.), Environmental microbe-metal interactions. ASM Press, Washington, D.C.
24. Lonergan, D. J., H. L. Jenter, J. D. Coates, E. J. P. Phillips, T. M. Schmidt, and D. R. Lovley. 1996. Phylogenetic analysis of dissimilatory Fe(III)-reducing bacteria. J. Bacteriol 178:2402-2408.
25. Lovley, D. R. 1991. Dissimilatory Fe(III) and Mn(IV) reduction. Microbiol. Rev. 55:259-287.
26. Lovley, D. R. 2000. Fe(III) and Mn(IV) reduction, p. 3-30. In D. R. Lovley (ed.), Environmental microbe-metal interactions. ASM Press, Washington, D.C.
27. Lovley, D. R. 2001. Reduction of iron and humics in subsurface environments, p. 193-217. In J. K. Fredrickson and M. Fletcher (ed.), Subsurface microbiology and biogeochemistry. John Wiley & Sons, Inc., New York, N.Y.
28. Lovley, D. R., J. F. Stolz, G. L. Nord, Jr., and E. J. P. Phillips. 1987. Anaerobic production of magnetite by a dissimilatory iron-reducing microorganism. Nature 330:252-254.
29. Lovley, D. R., and E. J. P. Phillips. 1988. Novel mode of microbial energy metabolism: organic carbon oxidation coupled to dissimilatory reduction of iron or manganese. Appl. Environ Microbiol. 54:1472-1480.
30. Lovley, D. R., and E. J. P. Phillips. 1992. Bioremediation of uranium contamination with enzymatic uranium reduction. Environ. Sci. Technol. 26:2228-2234.
31. Lovley, D. R., E. J. P. Phillips, Y. A. Gorby, and E. R. Landa. 1991. Microbial reduction of uranium. Nature 350:413-416.
32. Ludwig, W., and O. Strunk. 1996. A software environment for sequence data. Technische Universität Munchen, Munich, Germany.
33. Maidak, B. L., J. R. Cole, T. G. Lilburn, C. T. Parker, P. R. Saxman, J. M. Stredwick, G. M. Garrity, B. Li, G. J. Olsen, S. Pramanik, T. M. Schmidt, and J. M. Tiedje. 2000. The RDP (Ribosomal Database Project) continues. Nucleic Acids Res. 28:173-174.
34. McKay, D. S., E. K. Gibson, Jr., K. L. Thomas-Keprta, H. Vali, C. S. Romanek, S. J. Clemett, X. D. F. Chillier, C. R. Maechling, and R. N. Zare. 1996. Search for past life on Mars: possible relic biogenic activity in Martian meteoreite ALH84001. Science 273:924-930.
35. Myers, C. R., and K. H. Nealson. 1990. Respiration-linked proton translocation coupled to anaerobic reduction of manganese(IV) and iron(III) in Shewanella putrefaciens MR-1. J. Bacteriol. 172:6232-6238.
36. Myers, C. R., and J. M. Myers. 1993. Ferric reductase is associated with the membranes of anaerobically grown Shewanella putrefaciens MR-1. FEMS Microbiol. Lett. 108:15-22.
37. Myers, C. R., and J.M. Myers. 1993. Ferric iron reduction-linked growth yields of Schwanella putrefaciens MR-1. J. Appl. Bacteriol. 76:253-258.
38. Nealson, K. H., and C. R. Myers. 1990. Iron reduction by bacteria: a potential role in the genesis of banded iron formations. Am. J. Sci. 290:35-45.
39. Nealson, K. H., and D. Saffarini. 1994. Iron and manganese in anaerobic respiration: environmental significance, physiology, and regulation. Annu. Rev. Microbiol. 48:311-343.
40. Onstott, T. C., T. J. Phelps, F. S. Colwell, D. Ringelberg, D. C. White, and D. R. Boone. 1998. Observations pertaining to the origin and ecology of microorganisms recovered from the deep subsurface of Taylorsville Basin, Virginia. Geomicrobiol. J. 15:353-385.
41. Oremland, R. S. 1994. Biogeochemical transformation of selenium in anoxic environments, p. 389-419. In W. T. J. Frankenberger and S. N. Benson (ed.), Selenium in the environments. Marcel Dekker, Inc., New York, N.Y.
42. Pedersen, K. 2000. Exploration of deep intraterrestrial microbial life: current perspectives. FEMS Microbiol. Lett. 185:9-16.
43. Phelps, T. J., E. G. Raione, D. C. White, and C. B. Fliermans. 1989. Microbial activity in deep subsurface environments. Geomicrobiol. J. 7:79-91.
44. Radmaker, J. L. W., and F. J. de Bruijn. 1997. Characterization and classification of microbes by rep-PCR genomic fingerprinting and computer assisted pattern analysis, p. 151-171. In G. Caetano-Anolles and P Gresshoff (ed.), DNA markers: protocols, applications and overviews. J. Wiley & Sons, New York, N.Y.
45. Roh, Y., S. Y. Lee, M. P. Elless, and J. E. Foss. 2000. Incorporation of radioactive contaminants into pyroaurite minerals by electrochemical synthesis. Clays Clay Miner. 48:266-271.
46. Roh, Y., R. J. Lauf, A. D. McMillan, C. Zhang, C. J. Rawn, J. Bai, and T. J. Phelps. 2001. Microbial synthesis and the characterization of some metaldoped magnetite. Solid State Commun. 110:529-534.
47. Schwertmann, U., and M. Cornell. 1991. Iron oxides in the laboratory. VCH Publishers, Inc., New York, N.Y.
48. Slobodkin, A., A. L. Reysenbach, N. Strutz, M. Dreier, and J. Wiegel. 1997. Thermoterrabacterium ferrireducens gen. nov., sp. nov., a thermophilic anaerobic dissimilatory Fe(III)-reducing bacterium from a continental hot spring. Int. J. Syst. Bacteriol. 47:541-547.
49. 2 production from basalt-water interactions and implications for aquifer biogeochemistry. Environ. Sci. Technol. 34:826-831.
50. Stookey, L. L. 1970, Ferrozine - a new spectrometric reagent for iron. Anal. Chem. 42:779-781.
51. Vargas, M., K. Kashefi, E. L. Blunt-Harris, and D. R. Lovley. 1998. Microbiological evidence for Fe(III) reduction on early Earth. Nature 395:65-67.
52. Versalovic, J., T. Koeuth, and J. R. Lupski. 1991, Distribution of repetitive DNA sequences in eubacteria and application to fingerprinting of bacterial genomes. Nucleic Acids Res. 19:6823-6831.
53. Walker, J. C. G. 1984. Subtoxic diagenesis in banded iron formation. Nature 309:340-342.
54. Walker, J. C. G. 1987. Was the Archaean biosphere upside down? Nature 329:710-712.
55. Wang, Y.-T. 2000. Microbial reduction of chromate, p. 225-235. In D. R. Lovley (ed.), Environmental microbe-metal interactions. ASM Press, Washington, D.C.
56. Weisberg, W. G., S. M. Barns, D. A. Pelletier, and D. J. Lane. 1991. 16S ribosomal DNA amplification for phylogenetic study. J. Bacteriol. 173:697-703.
57. Zhang, C., S. V. Liu, J. Logan, R. Mazumder, and T. J. Phelps. 1996. Enhancement of Fe(III), Co(III), and Cr(VI) reduction at elevated temperatures and by a thermophilic bacterium. Appl. Biochem. Biotechnol. 57-58:923-932.
58. Zhang, C., S. Liu, T. J. Phelps, D. R. Cole, J. Horita, S. M. Fortier, M. P. Elless, and J. W. Valley. 1997. Physiochemical, mineralogical and isotopic characterization of magnetite-rich iron oxides formed by thermophilic iron reducing bacteria. Geochim. Cosmochim. Acta 61:4621-4632.
59. Zhang, C., H. Vali, C. S. Romanek, T. J. Phelps, and S. V. Liu. 1998. Formation of single-domain magnetite by a thermophilic bacterium. Am. Miner. 83:1409-1418.
60. Zhang, C., J. Horita, D. R. Cole, J. Zhou, D. R. Lovley, and T. J. Phelps. 2001. Temperature-dependent oxygen and carbon isotope fractionations of biogenic siderite. Geochim. Cosmochim. Acta 65:2257-2271.
61. Zhou, J., S. Liu, B. Xia, C. Zhang, A. V. Palumbo, and T. J. Phelps. 2001. Molecular characterization and diversity of thermophilic iron-reducing enrichment cultures from deep subsurface environments. J. Appl. Microbiol. 90:96-105.
62. Zhou, J. Z., M. R. Fries, J. C. Chee-Sanford, and J. M. Tiedje. 1995. Phylogenetic analyses of a new group of denitrifiers capable of anaerobic growth on toluene and description of Azoarcus tolulyticus sp. nov. Int. J. Sys. Bacteriol. 45:500-506.