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Volumn 5, Issue APR, 2014, Pages

Genetic basis for nitrate resistance in Desulfovibrio strains

Author keywords

Desulfovibrio; Fitness profiling; Functional genomics; Nitrate inhibition; Nitrite; Stress response; Sulfate reducing bacteria; Sulfide control

Indexed keywords

DNA BINDING PROTEIN; LACTIC ACID; MEMBRANE PROTEIN; NITRATE; PROTEIN TYROSINE PHOSPHATASE; PYRUVATE PHOSPHATE DIKINASE; SULFATE;

EID: 84899678187     PISSN: None     EISSN: 1664302X     Source Type: Journal    
DOI: 10.3389/fmicb.2014.00153     Document Type: Article
Times cited : (22)

References (62)
  • 1
    • 84871557880 scopus 로고
    • American Public Health Association. 18th Edn. Washington, DC: American Water Works Association and Water Pollution Control Federation.
    • American Public Health Association. (1992). Standard Methods for The Examination of Water and Waste Water, 18th Edn. Washington, DC: American Water Works Association and Water Pollution Control Federation.
    • (1992) Standard Methods for The Examination of Water and Waste Water
  • 2
    • 34548505486 scopus 로고    scopus 로고
    • Analysis of a ferric uptake regulator (Fur) mutant of Desulfovibrio vulgaris Hildenborough
    • doi:10.1128/AEM.00276-07
    • Bender, K. S., Yen, H. C. B., Hemme, C. L., Yang, Z., He, Z., He, Q., et al. (2007). Analysis of a ferric uptake regulator (Fur) mutant of Desulfovibrio vulgaris Hildenborough. Appl. Environ. Microbiol. 73, 5389-5400. doi: 10.1128/AEM.00276-07
    • (2007) Appl. Environ. Microbiol. , vol.73 , pp. 5389-5400
    • Bender, K.S.1    Yen, H.C.B.2    Hemme, C.L.3    Yang, Z.4    He, Z.5    He, Q.6
  • 3
    • 0017184389 scopus 로고
    • A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding
    • doi:10.1016/0003-2697(76)90527-3
    • Bradford, M. M. (1976). A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal. Biochem. 72, 248-254. doi: 10.1016/0003-2697(76)90527-3
    • (1976) Anal. Biochem. , vol.72 , pp. 248-254
    • Bradford, M.M.1
  • 4
    • 72349086100 scopus 로고    scopus 로고
    • Effect of sulfide on growth physiology and gene expression of Desulfovibrio vulgaris Hildenborough
    • doi:10.1007/s10482-009-9383-y
    • Caffrey, S. M., and Voordouw, G. (2010). Effect of sulfide on growth physiology and gene expression of Desulfovibrio vulgaris Hildenborough. Antonie Van Leeuwenhoek 97, 11-20. doi: 10.1007/s10482-009-9383-y
    • (2010) Antonie Van Leeuwenhoek , vol.97 , pp. 11-20
    • Caffrey, S.M.1    Voordouw, G.2
  • 5
    • 84880983603 scopus 로고    scopus 로고
    • Acetate production from oil under sulfate-reducing conditions in bioreactors injected with sulfate and nitrate
    • doi:10.1128/AEM.01251-13
    • Callbeck, M. C., Agrawal, A., and Voordouw, G. (2013). Acetate production from oil under sulfate-reducing conditions in bioreactors injected with sulfate and nitrate. Appl. Environ. Microbiol. 79, 5059-5068. doi: 10.1128/AEM.01251-13
    • (2013) Appl. Environ. Microbiol. , vol.79 , pp. 5059-5068
    • Callbeck, M.C.1    Agrawal, A.2    Voordouw, G.3
  • 6
    • 84901203610 scopus 로고
    • Rapid colorimetric determination of nitrate in plant tissue by nitration of salicylic acid
    • doi:10.1080/00103627509366547
    • Cataldo, D. A., Haroon, M., Scharder, L. E., and Youngs, V. L. (1975). Rapid colorimetric determination of nitrate in plant tissue by nitration of salicylic acid. Comm. Soil Sci. Plant Anal. 6, 71-80. doi: 10.1080/00103627509366547
    • (1975) Comm. Soil Sci. Plant Anal. , vol.6 , pp. 71-80
    • Cataldo, D.A.1    Haroon, M.2    Scharder, L.E.3    Youngs, V.L.4
  • 7
    • 0037210672 scopus 로고    scopus 로고
    • Bioremediation of chromate: thermodynamic analysis of the effects of Cr(VI) on sulfate-reducing bacteria
    • doi:10.1007/s00253-002-1091-8
    • Chardin, B., Dolla, A., Chaspoul, F., Fardeau, M., Gallice, P., and Bruschi, M. (2003). Bioremediation of chromate: thermodynamic analysis of the effects of Cr(VI) on sulfate-reducing bacteria. Appl. Microbiol. Biotech. 60, 352-360. doi: 10.1007/s00253-002-1091-8
    • (2003) Appl. Microbiol. Biotech. , vol.60 , pp. 352-360
    • Chardin, B.1    Dolla, A.2    Chaspoul, F.3    Fardeau, M.4    Gallice, P.5    Bruschi, M.6
  • 8
    • 33644748620 scopus 로고    scopus 로고
    • Global analysis of heat shock response in Desulfovibrio vulgaris Hildenborough
    • doi:10.1128/JB.188.5.1817-1828.2006
    • Chhabra, S. R., He, Q., Huang, K. H., Gaucher, S. P., Alm, E. J., He, Z., et al. (2006). Global analysis of heat shock response in Desulfovibrio vulgaris Hildenborough. J. Bacteriol. 188, 1817-1828. doi: 10.1128/JB.188.5.1817-1828.2006
    • (2006) J. Bacteriol. , vol.188 , pp. 1817-1828
    • Chhabra, S.R.1    He, Q.2    Huang, K.H.3    Gaucher, S.P.4    Alm, E.J.5    He, Z.6
  • 9
    • 33747337245 scopus 로고    scopus 로고
    • Temporal transcriptomic analysis as Desulfovibrio vulgaris Hildenborough transitions into stationary phase during electron donor depletion
    • doi:10.1128/AEM.00284-06
    • Clark, M. E., He, Q., He, Z., Huang, K. H., Alm, E. J., Wan, X. F., et al. (2006). Temporal transcriptomic analysis as Desulfovibrio vulgaris Hildenborough transitions into stationary phase during electron donor depletion. Appl. Environ. Microbiol. 72, 5578-5588. doi: 10.1128/AEM.00284-06
    • (2006) Appl. Environ. Microbiol. , vol.72 , pp. 5578-5588
    • Clark, M.E.1    He, Q.2    He, Z.3    Huang, K.H.4    Alm, E.J.5    Wan, X.F.6
  • 10
    • 81755163097 scopus 로고    scopus 로고
    • Evidence-based annotation of gene function in Shewanella oneidensis MR-1 using genome-wide fitness profiling across 121 conditions
    • doi:10.1371/journal.pgen.1002385
    • Deutschbauer, A., Price, M. N., Wetmore, K. M., Shao, W., Baumohl, J. K., Xu, Z., et al. (2011). Evidence-based annotation of gene function in Shewanella oneidensis MR-1 using genome-wide fitness profiling across 121 conditions. PLoS Genet. 7:e1002385. doi: 10.1371/journal.pgen.1002385
    • (2011) PLoS Genet. , vol.7
    • Deutschbauer, A.1    Price, M.N.2    Wetmore, K.M.3    Shao, W.4    Baumohl, J.K.5    Xu, Z.6
  • 11
    • 66249146913 scopus 로고    scopus 로고
    • Expression profiling of hypothetical genes in Desulfovibrio vulgaris leads to improved functional annotation
    • doi:10.1093/nar/gkp164
    • Elias, D. A., Mukhopadhyay, A., Joachimiak, M. P., Drury, E. C., Redding, A. M., Yen, H. C. B., et al. (2009). Expression profiling of hypothetical genes in Desulfovibrio vulgaris leads to improved functional annotation. Nucleic Acids Res. 37, 2926-2939. doi: 10.1093/nar/gkp164
    • (2009) Nucleic Acids Res. , vol.37 , pp. 2926-2939
    • Elias, D.A.1    Mukhopadhyay, A.2    Joachimiak, M.P.3    Drury, E.C.4    Redding, A.M.5    Yen, H.C.B.6
  • 12
    • 84888268881 scopus 로고    scopus 로고
    • Rapid Transposon Liquid Enrichment Sequencing (TnLE-seq) for gene fitness evaluation in underdeveloped bacterial systems
    • doi:10.1128/AEM.02051-13
    • Fels, S. R., Zane, G. M., Blake, S. M., and Wall, J. D. (2013). Rapid Transposon Liquid Enrichment Sequencing (TnLE-seq) for gene fitness evaluation in underdeveloped bacterial systems. Appl. Environ. Microbiol. 79, 7510-7517. doi: 10.1128/AEM.02051-13
    • (2013) Appl. Environ. Microbiol. , vol.79 , pp. 7510-7517
    • Fels, S.R.1    Zane, G.M.2    Blake, S.M.3    Wall, J.D.4
  • 13
    • 70349510646 scopus 로고    scopus 로고
    • Tracking insertion mutants within libraries by deep sequencing and a genome-wide screen for Haemophilus genes required in the lung
    • doi:10.1073/pnas.0906627106
    • Gawronski, J. D., Wong, S. M. S., Giannoukos, G., Ward, D. V., and Akerley, B. J. (2009). Tracking insertion mutants within libraries by deep sequencing and a genome-wide screen for Haemophilus genes required in the lung. Proc. Natl. Acad. Sci. U.S.A. 106, 16422-16427. doi: 10.1073/pnas.0906627106
    • (2009) Proc. Natl. Acad. Sci. U.S.A. , vol.106 , pp. 16422-16427
    • Gawronski, J.D.1    Wong, S.M.S.2    Giannoukos, G.3    Ward, D.V.4    Akerley, B.J.5
  • 14
    • 84857097221 scopus 로고    scopus 로고
    • Denitrifying bacteria from the genus rhodanobacter dominate bacterial communities in the highly contaminated subsurface of a nuclear legacy waste site
    • doi:10.1128/AEM.06435-11
    • Green, S. J., Prakash, O., Jasrotia, P., Overholt, W. A., Cardenas, E., Hubbard, D., et al. (2012). Denitrifying bacteria from the genus rhodanobacter dominate bacterial communities in the highly contaminated subsurface of a nuclear legacy waste site. Appl. Environ. Microbiol. 78, 1039-1047. doi: 10.1128/AEM.06435-11
    • (2012) Appl. Environ. Microbiol. , vol.78 , pp. 1039-1047
    • Green, S.J.1    Prakash, O.2    Jasrotia, P.3    Overholt, W.A.4    Cardenas, E.5    Hubbard, D.6
  • 15
    • 47749142919 scopus 로고    scopus 로고
    • Competitive oxidation of volatile fatty acids by sulfate- and nitrate-reducing bacteria from an oil field in Argentina
    • doi:10.1128/AEM.00419-08
    • Grigoryan, A. A., Cornish, S. L., Buziak, B., Lin, S., Cavallaro, A., Arensdorf, J. J., et al. (2008). Competitive oxidation of volatile fatty acids by sulfate- and nitrate-reducing bacteria from an oil field in Argentina. Appl. Environ. Microbiol. 74, 4324-4335. doi: 10.1128/AEM.00419-08
    • (2008) Appl. Environ. Microbiol. , vol.74 , pp. 4324-4335
    • Grigoryan, A.A.1    Cornish, S.L.2    Buziak, B.3    Lin, S.4    Cavallaro, A.5    Arensdorf, J.J.6
  • 16
    • 79961161076 scopus 로고    scopus 로고
    • Complete genome sequence and updated annotation of Desulfovibrio alaskensis G20
    • doi:10.1128/JB.05400-11
    • Hauser, L. J., Land, M. L., Brown, S. D., Larimer, F., Keller, K. L., Rapp-Giles, B. J., et al. (2011). Complete genome sequence and updated annotation of Desulfovibrio alaskensis G20. J. Bacteriol. 193, 4268-4269. doi: 10.1128/JB.05400-11
    • (2011) J. Bacteriol. , vol.193 , pp. 4268-4269
    • Hauser, L.J.1    Land, M.L.2    Brown, S.D.3    Larimer, F.4    Keller, K.L.5    Rapp-Giles, B.J.6
  • 17
    • 9244240775 scopus 로고    scopus 로고
    • Physiological and gene expression analysis of inhibition of Desulfovibrio vulgaris Hildenborough by nitrite
    • doi:10.1128/JB.186.23.7944-7950.2004
    • Haveman, S. A., Greene, E. A., Stilwell, C. P., Voordouw, J. K., and Voordouw, G. (2004). Physiological and gene expression analysis of inhibition of Desulfovibrio vulgaris Hildenborough by nitrite. J. Bacteriol. 186, 7944-7950. doi: 10.1128/JB.186.23.7944-7950.2004
    • (2004) J. Bacteriol. , vol.186 , pp. 7944-7950
    • Haveman, S.A.1    Greene, E.A.2    Stilwell, C.P.3    Voordouw, J.K.4    Voordouw, G.5
  • 18
    • 23944460534 scopus 로고    scopus 로고
    • Gene expression analysis of the mechanism of inhibition of Desulfovibrio vulgaris Hildenborough by nitrate-reducing, sulfide-oxidizing bacteria
    • doi:10.1111/j.1462-2920.2005.00834.x
    • Haveman, S. A., Greene, E. A., and Voordouw, G. (2005). Gene expression analysis of the mechanism of inhibition of Desulfovibrio vulgaris Hildenborough by nitrate-reducing, sulfide-oxidizing bacteria. Environ. Microbiol. 7, 1461-1465. doi: 10.1111/j.1462-2920.2005.00834.x
    • (2005) Environ. Microbiol. , vol.7 , pp. 1461-1465
    • Haveman, S.A.1    Greene, E.A.2    Voordouw, G.3
  • 19
    • 33744937908 scopus 로고    scopus 로고
    • Using the stress response to monitor process control: pathways to more effective bioremediation
    • doi:10.1016/j.copbio.2006.03.004
    • Hazen, T. C., and Stahl, D. A. (2006). Using the stress response to monitor process control: pathways to more effective bioremediation. Curr. Opin. Biotechnol. 17, 285-290. doi: 10.1016/j.copbio.2006.03.004
    • (2006) Curr. Opin. Biotechnol. , vol.17 , pp. 285-290
    • Hazen, T.C.1    Stahl, D.A.2
  • 20
    • 77958459381 scopus 로고    scopus 로고
    • Impact of elevated nitrate on sulfate-reducing bacteria: a comparative study of Desulfovibrio vulgaris
    • doi:10.1038/ismej.2010.59
    • He, Q., He, Z., Joyner, D. C., Joachimiak, M., Price, M. N., Yang, Z. K., et al. (2010a). Impact of elevated nitrate on sulfate-reducing bacteria: a comparative study of Desulfovibrio vulgaris. ISME J. 4, 1386-1397. doi: 10.1038/ismej.2010.59
    • (2010) ISME J. , vol.4 , pp. 1386-1397
    • He, Q.1    He, Z.2    Joyner, D.C.3    Joachimiak, M.4    Price, M.N.5    Yang, Z.K.6
  • 21
    • 33745152320 scopus 로고    scopus 로고
    • Energetic consequences of nitrite stress in Desulfovibrio vulgaris Hildenborough, inferred from global transcriptional analysis
    • doi:10.1128/AEM.02609-05
    • He, Q., Huang, K. H., He, Z., Alm, E. J., Fields, M. W., Hazen, T. C., et al. (2006). Energetic consequences of nitrite stress in Desulfovibrio vulgaris Hildenborough, inferred from global transcriptional analysis. Appl. Environ. Microbiol. 72, 4370-4381. doi: 10.1128/AEM.02609-05
    • (2006) Appl. Environ. Microbiol. , vol.72 , pp. 4370-4381
    • He, Q.1    Huang, K.H.2    He, Z.3    Alm, E.J.4    Fields, M.W.5    Hazen, T.C.6
  • 22
    • 77649215646 scopus 로고    scopus 로고
    • Global transcriptional, physiological and metabolite analyses of the responses of Desulfovibrio vulgaris Hildenborough to salt adaptation
    • doi:10.1128/AEM.02141-09
    • He, Z., Zhou, A., Baidoo, E., He, Q., Joachimiak, M. P., Benke, P., et al. (2010b). Global transcriptional, physiological and metabolite analyses of the responses of Desulfovibrio vulgaris Hildenborough to salt adaptation. Appl. Environ. Microbiol. 76, 1574-1586. doi: 10.1128/AEM.02141-09
    • (2010) Appl. Environ. Microbiol. , vol.76 , pp. 1574-1586
    • He, Z.1    Zhou, A.2    Baidoo, E.3    He, Q.4    Joachimiak, M.P.5    Benke, P.6
  • 23
    • 2342475768 scopus 로고    scopus 로고
    • The genome sequence of the anaerobic, sulfate-reducing bacterium Desulfovibrio vulgaris Hildenborough
    • doi:10.1038/nbt959
    • Heidelberg, J. F., Seshadri, R., Haveman, S. A., Hemme, C. L., Paulsen, I. T., Kolonay, J. F., et al. (2004). The genome sequence of the anaerobic, sulfate-reducing bacterium Desulfovibrio vulgaris Hildenborough. Nat. Biotech. 22, 554-559. doi: 10.1038/nbt959
    • (2004) Nat. Biotech. , vol.22 , pp. 554-559
    • Heidelberg, J.F.1    Seshadri, R.2    Haveman, S.A.3    Hemme, C.L.4    Paulsen, I.T.5    Kolonay, J.F.6
  • 24
    • 0033991796 scopus 로고    scopus 로고
    • The role of sulphate reducing bacteria in copper removal from aqueous sulphate solutions
    • doi:10.1016/S0043-1354(99)00194-3
    • Jalali, K., and Baldwin, S. A. (2000). The role of sulphate reducing bacteria in copper removal from aqueous sulphate solutions. Water Res. 34, 797-806. doi: 10.1016/S0043-1354(99)00194-3
    • (2000) Water Res. , vol.34 , pp. 797-806
    • Jalali, K.1    Baldwin, S.A.2
  • 25
    • 54949156005 scopus 로고    scopus 로고
    • Bioremediation of heavy metal-contaminated soils by sulfate-reducing bacteria
    • doi:10.1196/annals.1454.050
    • Jiang, W., and Fan, W. (2008). Bioremediation of heavy metal-contaminated soils by sulfate-reducing bacteria. Ann. N.Y. Acad. Sci. 1140, 446-454. doi: 10.1196/annals.1454.050
    • (2008) Ann. N.Y. Acad. Sci. , vol.1140 , pp. 446-454
    • Jiang, W.1    Fan, W.2
  • 26
    • 73249117149 scopus 로고    scopus 로고
    • Development of a markerless genetic exchange system for Desulfovibrio vulgaris Hildenborough and its use in generating a strain with increased transformation efficiency
    • doi:10.1128/AEM.01839-09
    • Keller, K. L., Bender, K. S., and Wall, J. D. (2009). Development of a markerless genetic exchange system for Desulfovibrio vulgaris Hildenborough and its use in generating a strain with increased transformation efficiency. Appl. Environ. Microbiol. 75, 7682-7691. doi: 10.1128/AEM.01839-09
    • (2009) Appl. Environ. Microbiol. , vol.75 , pp. 7682-7691
    • Keller, K.L.1    Bender, K.S.2    Wall, J.D.3
  • 27
    • 84892979887 scopus 로고    scopus 로고
    • New model for electron flow for sulfate reduction in Desulfovibrio alaskensis G20
    • doi:10.1128/AEM.02963-13
    • Keller, K. L., Rapp-Giles, B. J., Semkiw, E. S., Porat, I., Brown, S. D., and Wall, J. D. (2014). New model for electron flow for sulfate reduction in Desulfovibrio alaskensis G20. Appl. Environ. Microbiol. 80, 855-868. doi: 10.1128/AEM.02963-13
    • (2014) Appl. Environ. Microbiol. , vol.80 , pp. 855-868
    • Keller, K.L.1    Rapp-Giles, B.J.2    Semkiw, E.S.3    Porat, I.4    Brown, S.D.5    Wall, J.D.6
  • 28
    • 79957495697 scopus 로고    scopus 로고
    • Methods for engineering sulfate reducing bacteria of the genus Desulfovibrio
    • doi:10.1016/B978-0-12-385075-1.00022-6
    • Keller, K. L., Wall, J. D., and Chhabra, S. (2011). Methods for engineering sulfate reducing bacteria of the genus Desulfovibrio. Methods Enzymol. 497, 503-517. doi: 10.1016/B978-0-12-385075-1.00022-6
    • (2011) Methods Enzymol. , vol.497 , pp. 503-517
    • Keller, K.L.1    Wall, J.D.2    Chhabra, S.3
  • 29
    • 84855295457 scopus 로고    scopus 로고
    • Double indexing overcomes inaccuracies in multiplex sequencing on the Illumina platform
    • doi:10.1093/nar/gkr771
    • Kircher, M., Sawyer, S., and Meyer, M. (2012). Double indexing overcomes inaccuracies in multiplex sequencing on the Illumina platform. Nucleic Acids Res. 40:e3. doi: 10.1093/nar/gkr771
    • (2012) Nucleic Acids Res. , vol.40
    • Kircher, M.1    Sawyer, S.2    Meyer, M.3
  • 30
    • 73249130761 scopus 로고    scopus 로고
    • Simultaneous assay of every Salmonella typhi gene using one million transposon mutants
    • doi:10.1101/gr.097097.109
    • Langridge, G. C., Phan, M. D., Turner, D. J., Perkins, T. T., Parts, L., Haase, J., et al. (2009). Simultaneous assay of every Salmonella typhi gene using one million transposon mutants. Genome Res. 19, 2308-2316. doi: 10.1101/gr.097097.109
    • (2009) Genome Res. , vol.19 , pp. 2308-2316
    • Langridge, G.C.1    Phan, M.D.2    Turner, D.J.3    Perkins, T.T.4    Parts, L.5    Haase, J.6
  • 31
    • 0036360477 scopus 로고    scopus 로고
    • Genetic analysis of pigment biosynthesis in Xanthobacter autotrophicus Py2 using a new, highly efficient transposon mutagenesis system that is functional in a wide variety of bacteria
    • doi:10.1007/s00203-002-0442-2
    • Larsen, R. A., Wilson, M. M., Guss, A. M., and Metcalf, W. W. (2002). Genetic analysis of pigment biosynthesis in Xanthobacter autotrophicus Py2 using a new, highly efficient transposon mutagenesis system that is functional in a wide variety of bacteria. Arch. Microbiol. 178, 193-201. doi: 10.1007/s00203-002-0442-2
    • (2002) Arch. Microbiol. , vol.178 , pp. 193-201
    • Larsen, R.A.1    Wilson, M.M.2    Guss, A.M.3    Metcalf, W.W.4
  • 32
    • 33847608289 scopus 로고    scopus 로고
    • Harnessing homologous recombination in vitro to generate recombinant DNA via SLIC
    • doi:10.1038/nmeth1010
    • Li, M. Z., and Elledge, S. J. (2007). Harnessing homologous recombination in vitro to generate recombinant DNA via SLIC. Nat. Methods 4, 251-256. doi: 10.1038/nmeth1010
    • (2007) Nat. Methods , vol.4 , pp. 251-256
    • Li, M.Z.1    Elledge, S.J.2
  • 33
    • 0026366813 scopus 로고
    • Reservoir souring. An analytical model for H2S generation and transportation in an oil reservoir owing to bacterial activity
    • (Aberdeen, Scotland: Society of Petroleum Engineers of AIME), doi:10.2118/23141-MS
    • Ligthelm, D. J., De Boer, R. B., Brint, J. F., and Schulte, W. M. (1991). "Reservoir souring. An analytical model for H2S generation and transportation in an oil reservoir owing to bacterial activity," in Offshore Europe 91-Proceedings, (Aberdeen, Scotland: Society of Petroleum Engineers of AIME), 369-378. doi: 10.2118/23141-MS
    • (1991) in Offshore Europe 91-Proceedings , pp. 369-378
    • Ligthelm, D.J.1    De Bor, R.B.2    Brint, J.F.3    Schulte, W.M.4
  • 34
    • 0033051555 scopus 로고    scopus 로고
    • Reduction of technetium by Desulfovibrio desulfuricans: biocatalyst characterization and use in a flowthrough bioreactor
    • Lloyd, J. R., Ridley, J., Khizniak, T., Lyalikova, N. N., and Macaskie, L. E. (1999). Reduction of technetium by Desulfovibrio desulfuricans: biocatalyst characterization and use in a flowthrough bioreactor. Appl. Environ. Microbiol. 65, 2691-2696.
    • (1999) Appl. Environ. Microbiol. , vol.65 , pp. 2691-2696
    • Lloyd, J.R.1    Ridley, J.2    Khizniak, T.3    Lyalikova, N.N.4    Macaskie, L.E.5
  • 35
    • 0027844082 scopus 로고
    • Enzymatic iron and uranium reduction by sulfate-reducing bacteria
    • doi:10.1016/0025-3227(93)90148-O
    • Lovley, D. R., Roden, E. E., Phillips, E. J. P., and Woodward, J. C. (1993a). Enzymatic iron and uranium reduction by sulfate-reducing bacteria. Marine Geol. 113, 41-53. doi: 10.1016/0025-3227(93)90148-O
    • (1993) Marine Geol. , vol.113 , pp. 41-53
    • Lovley, D.R.1    Roden, E.E.2    Phillips, E.J.P.3    Woodward, J.C.4
  • 37
    • 33846165487 scopus 로고    scopus 로고
    • Absolute protein expression profiling estimates the relative contributions of transcriptional and translational regulation
    • doi:10.1038/nbt1270
    • Lu, P., Vogel, C., Wang, R., Yao, X., and Marcotte, E. M. (2007). Absolute protein expression profiling estimates the relative contributions of transcriptional and translational regulation. Nat. Biotech. 25, 117-124. doi: 10.1038/nbt1270
    • (2007) Nat. Biotech. , vol.25 , pp. 117-124
    • Lu, P.1    Vogel, C.2    Wang, R.3    Yao, X.4    Marcotte, E.M.5
  • 38
    • 67349102585 scopus 로고    scopus 로고
    • Characterization and activity studies of highly heavy metal resistant sulphate-reducing bacteria to be used in acid mine drainage decontamination
    • doi:10.1016/j.jhazmat.2008.11.088
    • Martins, M., Faleiro, M. L., Barros, R. J., Veríssimo, A. R., Barreiros, M. A., and Costa, M. C. (2009). Characterization and activity studies of highly heavy metal resistant sulphate-reducing bacteria to be used in acid mine drainage decontamination. J. Hazard. Mater. 166, 706-713. doi: 10.1016/j.jhazmat.2008.11.088
    • (2009) J. Hazard. Mater. , vol.166 , pp. 706-713
    • Martins, M.1    Faleiro, M.L.2    Barros, R.J.3    Veríssimo, A.R.4    Barreiros, M.A.5    Costa, M.C.6
  • 39
    • 0000849439 scopus 로고
    • Respiratory nitrate reduction by Desulfovibrio sp
    • doi:10.1007/BF00414476
    • McCready, R. G. L., Gould, W. D., and Cook, F. D. (1983). Respiratory nitrate reduction by Desulfovibrio sp. Arch. Microbiol. 135, 182-185. doi: 10.1007/BF00414476
    • (1983) Arch. Microbiol. , vol.135 , pp. 182-185
    • McCready, R.G.L.1    Gould, W.D.2    Cook, F.D.3
  • 40
    • 33744776637 scopus 로고    scopus 로고
    • Salt stress in Desulfovibrio vulgaris Hildenborough: an integrated genomics approach
    • doi:10.1128/JB.01921-05
    • Mukhopadhyay, A., He, Z., Alm, E. J., Arkin, A. P., Baidoo, E. E., Borglin, S. C., et al. (2006). Salt stress in Desulfovibrio vulgaris Hildenborough: an integrated genomics approach. J. Bacteriol. 188, 4068-4078. doi: 10.1128/JB.01921-05
    • (2006) J. Bacteriol. , vol.188 , pp. 4068-4078
    • Mukhopadhyay, A.1    He, Z.2    Alm, E.J.3    Arkin, A.P.4    Baidoo, E.E.5    Borglin, S.C.6
  • 41
    • 34547757942 scopus 로고    scopus 로고
    • Cell-wide responses to low-oxygen exposure in Desulfovibrio vulgaris Hildenborough
    • doi:10.1128/JB.00368-07
    • Mukhopadhyay, A., Redding, A. M., Joachimiak, M. P., Arkin, A. P., Borglin, S. E., Dehal, P. S., et al. (2007). Cell-wide responses to low-oxygen exposure in Desulfovibrio vulgaris Hildenborough. J. Bacteriol. 189, 5996-6010. doi: 10.1128/JB.00368-07
    • (2007) J. Bacteriol. , vol.189 , pp. 5996-6010
    • Mukhopadhyay, A.1    Redding, A.M.2    Joachimiak, M.P.3    Arkin, A.P.4    Borglin, S.E.5    Dehal, P.S.6
  • 42
    • 77955796409 scopus 로고    scopus 로고
    • A universal tagmodule collection for parallel genetic analysis of microorganisms
    • doi:10.1093/nar/gkq419
    • Oh, J., Fung, E., Price, M. N., Dehal, P. S., Davis, R. W., Giaever, G., et al. (2010). A universal tagmodule collection for parallel genetic analysis of microorganisms. Nucleic Acids Res. 38, 14. doi: 10.1093/nar/gkq419
    • (2010) Nucleic Acids Res. , vol.38 , pp. 14
    • Oh, J.1    Fung, E.2    Price, M.N.3    Dehal, P.S.4    Davis, R.W.5    Giaever, G.6
  • 43
    • 84874964111 scopus 로고    scopus 로고
    • The genetic basis for bacterial mercury methylation
    • doi:10.1126/science.1230667
    • Parks, J. M., Johs, A., Podar, M., Bridou, R., Hurt, R. A. Jr., Smith, S. D., et al. (2013). The genetic basis for bacterial mercury methylation. Science 339, 1332-1335. doi: 10.1126/science.1230667
    • (2013) Science , vol.339 , pp. 1332-1335
    • Parks, J.M.1    Johs, A.2    Podar, M.3    Bridou, R.4    Hurt Jr., R.A.5    Smith, S.D.6
  • 44
    • 0034739244 scopus 로고    scopus 로고
    • Characterization of a heme c nitrite reductase from a non-ammonifying microorganism, Desulfovibrio vulgaris Hildenborough
    • doi:10.1016/S0167-4838(00)00111-4
    • Pereira, I. A., LeGall, J., Xavier, A. V., and Teixeira, M. (2000). Characterization of a heme c nitrite reductase from a non-ammonifying microorganism, Desulfovibrio vulgaris Hildenborough. Biochim. Biophys. Acta 1481, 119-130. doi: 10.1016/S0167-4838(00)00111-4
    • (2000) Biochim. Biophys. Acta , vol.1481 , pp. 119-130
    • Pereira, I.A.1    LeGall, J.2    Xavier, A.V.3    Teixeira, M.4
  • 45
    • 39149125171 scopus 로고    scopus 로고
    • Genome-wide analysis of barcoded Saccharomyces cerevisiae gene-deletion mutants in pooled cultures
    • doi:10.1038/nprot.2007.427
    • Pierce, S. E., Davis, R. W., Nislow, C., and Giaever, G. (2007). Genome-wide analysis of barcoded Saccharomyces cerevisiae gene-deletion mutants in pooled cultures. Nat. Protoc. 2, 2958-2974. doi: 10.1038/nprot.2007.427
    • (2007) Nat. Protoc. , vol.2 , pp. 2958-2974
    • Pierce, S.E.1    Davis, R.W.2    Nislow, C.3    Giaever, G.4
  • 48
    • 84876566095 scopus 로고    scopus 로고
    • Indirect and suboptimal control of gene expression is widespread in bacteria
    • doi:10.1038/msb.2013.16
    • Price, M. N., Deutschbauer, A. M., Skerker, J. M., Wetmore, K. M., Ruths, T., Mar, J. S., et al.(2013). Indirect and suboptimal control of gene expression is widespread in bacteria. Mol. Syst. Biol. 9, 660. doi: 10.1038/msb.2013.16
    • (2013) Mol. Syst. Biol. , vol.9 , pp. 660
    • Price, M.N.1    Deutschbauer, A.M.2    Skerker, J.M.3    Wetmore, K.M.4    Ruths, T.5    Mar, J.S.6
  • 49
    • 84863285072 scopus 로고    scopus 로고
    • Transcriptional regulation of central carbon and energy metabolism in bacteria by redox-responsive repressor rex
    • doi:10.1128/JB.06412-11
    • Ravcheev, D. A., Li, X., Latif, H., Zengler, K., Leyn, S. A., Korostelev, Y. D., et al. (2012). Transcriptional regulation of central carbon and energy metabolism in bacteria by redox-responsive repressor rex. J. Bacteriol. 194, 1145-1157. doi: 10.1128/JB.06412-11
    • (2012) J. Bacteriol. , vol.194 , pp. 1145-1157
    • Ravcheev, D.A.1    Li, X.2    Latif, H.3    Zengler, K.4    Leyn, S.A.5    Korostelev, Y.D.6
  • 50
    • 33748533479 scopus 로고    scopus 로고
    • Study of nitrate stress in Desulfovibrio vulgaris Hildenborough using iTRAQ proteomics
    • doi:10.1093/bfgp/ell025
    • Redding, A. M., Mukhopadhyay, A., Joyner, D. C., Hazen, T. C., and Keasling, J. D. (2006). Study of nitrate stress in Desulfovibrio vulgaris Hildenborough using iTRAQ proteomics. Brief. Funct. Genomic. Proteomic. 5, 133-143. doi: 10.1093/bfgp/ell025
    • (2006) Brief. Funct. Genomic. Proteomic. , vol.5 , pp. 133-143
    • Redding, A.M.1    Mukhopadhyay, A.2    Joyner, D.C.3    Hazen, T.C.4    Keasling, J.D.5
  • 51
    • 0003515294 scopus 로고
    • Chemical Contaminants on DOE Lands and Selection of Contaminant Mixtures for Subsurface Science Research DOE/ER-0547T
    • Washington, DC: US Department of Energy
    • Riley, R., and Zachara, J. (1992). Chemical Contaminants on DOE Lands and Selection of Contaminant Mixtures for Subsurface Science Research DOE/ER-0547T. Washington, DC: US Department of Energy.
    • (1992)
    • Riley, R.1    Zachara, J.2
  • 52
    • 0022898264 scopus 로고
    • Chemolithotrophic growth of Desulfovibrio desulfuricans with hydrogen coupled to ammonification of nitrate or nitrite
    • doi:10.1007/BF00690160
    • Seitz, H. J., and Cypionka, H. (1986). Chemolithotrophic growth of Desulfovibrio desulfuricans with hydrogen coupled to ammonification of nitrate or nitrite. Arch. Microbiol. 146, 63-67. doi: 10.1007/BF00690160
    • (1986) Arch. Microbiol. , vol.146 , pp. 63-67
    • Seitz, H.J.1    Cypionka, H.2
  • 53
    • 54349095175 scopus 로고    scopus 로고
    • Genes and environment-striking the fine balance between sophisticated biomonitoring and true functional environmental genomics
    • doi:10.1016/j.scitotenv.2008.07.023
    • Steinberg, C. E. W., Stürzenbaum, S. R., and Menzel, R. (2008). Genes and environment-striking the fine balance between sophisticated biomonitoring and true functional environmental genomics. Sci. Total Environ. 400, 142-161. doi: 10.1016/j.scitotenv.2008.07.023
    • (2008) Sci. Total Environ. , vol.400 , pp. 142-161
    • Steinberg, C.E.W.1    Stürzenbaum, S.R.2    Menzel, R.3
  • 55
    • 34249029310 scopus 로고    scopus 로고
    • Microbial control of hydrogen sulfide production in oil resevoirs
    • eds B. Ollivier and M. Magot (Washington, DC: ASM Press)
    • Sunde, E., and Torsvik, T. (2005). "Microbial control of hydrogen sulfide production in oil resevoirs," in Petroleum Microbiology, eds B. Ollivier and M. Magot (Washington, DC: ASM Press), 201-213.
    • (2005) in Petroleum Microbiology , pp. 201-213
    • Sunde, E.1    Torsvik, T.2
  • 56
    • 67650742246 scopus 로고    scopus 로고
    • Integrative analysis of transcriptomic and proteomic data of Desulfovibrio vulgaris: a non-linear model to predict abundance of undetected proteins
    • doi:10.1093/bioinformatics/btp325
    • Torres-García, W., Zhang, W., Runger, G. C., Johnson, R. H., and Meldrum, D. R. (2009). Integrative analysis of transcriptomic and proteomic data of Desulfovibrio vulgaris: a non-linear model to predict abundance of undetected proteins. Bioinformatics 25, 1905-1914. doi: 10.1093/bioinformatics/btp325
    • (2009) Bioinformatics , vol.25 , pp. 1905-1914
    • Torres-García, W.1    Zhang, W.2    Runger, G.C.3    Johnson, R.H.4    Meldrum, D.R.5
  • 57
    • 70349611730 scopus 로고    scopus 로고
    • Tn-seq: high-throughput parallel sequencing for fitness and genetic interaction studies in microorganisms
    • doi:10.1038/nmeth.1377
    • Van Opijnen, T., Bodi, K. L., and Camilli, A. (2009). Tn-seq: high-throughput parallel sequencing for fitness and genetic interaction studies in microorganisms. Nat. Methods 6, 767-772. doi: 10.1038/nmeth.1377
    • (2009) Nat. Methods , vol.6 , pp. 767-772
    • Van Opijnen, T.1    Bodi, K.L.2    Camilli, A.3
  • 58
    • 72849153396 scopus 로고    scopus 로고
    • Sulfide remediation by pulsed injection of nitrate into a low temperature Canadian heavy oil reservoir
    • doi:10.1021/es902211j
    • Voordouw, G., Grigoryan, A. A., Lambo, A., Lin, S., Park, H. S., Jack, T. R., et al. (2009). Sulfide remediation by pulsed injection of nitrate into a low temperature Canadian heavy oil reservoir. Environ. Sci. Technol. 43, 9512-9518. doi: 10.1021/es902211j
    • (2009) Environ. Sci. Technol. , vol.43 , pp. 9512-9518
    • Voordouw, G.1    Grigoryan, A.A.2    Lambo, A.3    Lin, S.4    Park, H.S.5    Jack, T.R.6
  • 59
    • 84870909278 scopus 로고    scopus 로고
    • High-throughput Isolation and characterization of untagged membrane protein complexes: outer membrane complexes of Desulfovibrio vulgaris
    • doi:10.1021/pr300548d
    • Walian, P. J., Allen, S., Shatsky, M., Zeng, L., Szakal, E. D., Liu, H., et al. (2012). High-throughput Isolation and characterization of untagged membrane protein complexes: outer membrane complexes of Desulfovibrio vulgaris. J. Proteome Res. 11, 5720-5735. doi: 10.1021/pr300548d
    • (2012) J. Proteome Res. , vol.11 , pp. 5720-5735
    • Walian, P.J.1    Allen, S.2    Shatsky, M.3    Zeng, L.4    Szakal, E.D.5    Liu, H.6
  • 60
    • 34548482369 scopus 로고    scopus 로고
    • Evaluation of stress response in sulphate-reducing bacteria through genome analysis
    • eds L. L. Barton and W. A. Hamilton (New York, NY: Cambridge University Press), doi:10.1017/CBO9780511541490.005
    • Wall, J., Bill Yen, H. C., and Drury, E. C. (2007). "Evaluation of stress response in sulphate-reducing bacteria through genome analysis," in Sulphate-Reducing Bacteria: Environmental and Engineered Systems, eds L. L. Barton and W. A. Hamilton (New York, NY: Cambridge University Press), 141-165. doi: 10.1017/CBO9780511541490.005
    • (2007) Sulphate-Reducing Bacteria: Environmental and Engineered Systems , pp. 141-165
    • Wall, J.1    Bill Yen, H.C.2    Drury, E.C.3
  • 61
    • 0027255186 scopus 로고
    • Characterization of a small plasmid from Desulfovibrio desulfuricans and its use for shuttle vector construction
    • Wall, J. D., Rapp-Giles, B. J., and Rousset, M. (1993). Characterization of a small plasmid from Desulfovibrio desulfuricans and its use for shuttle vector construction. J. Bacteriol. 175, 4121-4128.
    • (1993) J. Bacteriol. , vol.175 , pp. 4121-4128
    • Wall, J.D.1    Rapp-Giles, B.J.2    Rousset, M.3
  • 62
    • 77955964940 scopus 로고    scopus 로고
    • Effect of the deletion of qmoABC and the promoter-distal gene encoding a hypothetical protein on sulfate reduction in Desulfovibrio vulgaris Hildenborough
    • doi:10.1128/AEM.00691-10
    • Zane, G. M., Bill Yen, H. C., and Wall, J. D. (2010). Effect of the deletion of qmoABC and the promoter-distal gene encoding a hypothetical protein on sulfate reduction in Desulfovibrio vulgaris Hildenborough. Appl. Environ. Microbiol. 76, 5500-5509. doi: 10.1128/AEM.00691-10
    • (2010) Appl. Environ. Microbiol. , vol.76 , pp. 5500-5509
    • Zane, G.M.1    Bill Yen, H.C.2    Wall, J.D.3


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