Sequencing and transcriptional analysis of the chlorite dismutase gene of Dechloromonas agitata and its use as a metabolic probe

Applied and Environmental Microbiology

Volumn 68, Issue 10, 2002, Pages 4820-4826

  Bender, Kelly S ^a   O'Connor, Susan M ^a   Chakraborty, Romy ^a   Coates, John D ^a   Achenbach, Laurie A ^a  

^a SOUTHERN ILLINOIS UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACIDS; BACTERIA; CHLORINE COMPOUNDS; ENZYMES; GENES; GROWTH KINETICS;

REDUCTIVE PATHWAY;

MICROBIOLOGY;

BACTERIAL ENZYME; CHLORIDE; CHLORITE DISMUTASE; OXYGEN; PERCHLORATE; UNCLASSIFIED DRUG;

MICROBIOLOGY;

AMINO TERMINAL SEQUENCE; ARTICLE; AT RICH SEQUENCE; BACTERIAL GENE; BACTERIAL METABOLISM; DECHLOROMONAS AGITATA; GENE ISOLATION; GENE SEQUENCE; GENETIC CONSERVATION; GENETIC TRANSCRIPTION; GRAM NEGATIVE BACTERIUM; MOLECULAR PROBE; NONHUMAN; NORTHERN BLOTTING; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PROMOTER REGION; REDUCTION; RNA TRANSLATION; SEQUENCE ANALYSIS; SLOT BLOT HYBRIDIZATION; TRANSCRIPTION INITIATION; TRANSCRIPTION REGULATION;

AMINO ACID SEQUENCE; BASE SEQUENCE; BETAPROTEOBACTERIA; BLOTTING, NORTHERN; CLONING, MOLECULAR; MOLECULAR SEQUENCE DATA; OXIDOREDUCTASES; PHYLOGENY; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY, AMINO ACID; TRANSCRIPTION, GENETIC;

BACTERIA (MICROORGANISMS); DECHLOROMONAS AGITATA; NEGIBACTERIA;

EID: 0036794791     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.68.10.4820-4826.2002     Document Type: Article

References (32)

1. Achenbach, L. A., U. Michaelidou, R. A. Bruce, J. Fryman, and J. D. Coates. 2001. Dechloromonas agitata gen. nov., sp. nov. and Dechlorosoma suillum gen. nov., sp. nov., two novel environmentally dominant (per)chlorate-reducing bacteria and their phylogenetic position. Int. J. Syst. Evol. Microbiol. 51:527-533.
2. Achenbach, L. A., and J. D. Coates. 2000. Disparity between bacterial phylogeny and physiology. ASM News 66:714-716.
3. Altschul, S. F., T. L. Madden, A. A. Schäffer, J. Zhang, Z. Zhang, W. Miller, and D. J. Lipman. 1997. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25:3389-3402.
4. Arkowitz, R., and M. Bassilana. 1994. Protein translocation in Escherichia coli. Biochim. Biophys. Acta 1197:311-343.
5. Aslander, A. 1928. Experiments on the eradication of Canada thistle Cirsium arvense with chlorates and other herbicides. J. Agric. Res. 36:915-935.
6. Bruce, R. A., L. A. Achenbach, and J. D. Coates. 1999. Reduction of (per)-chlorate by a novel organism isolated from paper mill waste. Environ. Microbiol. 1:319-329.
7. Chaudhuri, S. K., S. M. O'Connor, R. L. Gustavson, L. A. Achenbach, and J. D. Coates. 2002. Environmental factors that control microbial perchlorate reduction. Appl. Environ. Microbiol. 68:4425-4430.
8. Coates, J. D., R. Chakraborty, J. G. Lack, S. M. O'Connor, K. A. Cole, K. S. Bender, and L. A. Achenbach. 2001. Anaerobic benzene oxidation coupled to nitrate reduction in pure culture by two strains of Dechloromonas. Nature 411:1039-1043.
9. Coates, J. D., U. Michaelidou, R. A. Bruce, S. M. O'Connor, J. N. Crespi, and L. A. Achenbach. 1999. Ubiquity and diversity of dissimilatory (per)-chlorate-reducing bacteria. Appl. Environ. Microbiol. 65:5234-5241.
10. Coates, J. D., U. Michaelidou, S. M. O'Connor, R. A. Bruce, and L. A. Achenbach. 2000. The diverse microbiology of (per)chlorate reduction, p. 257-270. In E. D. Urbansky (ed.), Perchlorate in the environment. Kluwer Academic/Plenum, New York, N.Y.
11. Cserzo, M., E. Wallin, I. Simon, G. Von Heijne, and A. Elofsson. 1997. Prediction of transmembrane alpha-helices in prokaryotic membrane proteins: the dense alignment surface method. Prot. Eng. 10:673-676.
12. de Groot, G. N., and A. H. Stouthamer. 1969. Regulation of reductase formation in Proteus mirabilis. I. Formation of reductases and enzymes of the formic hydrogenlyase complex in the wild type and in chlorate-resistant mutants. Arch. Microbiol. 66:220-233.
13. Hackenthal, E. 1965. Die reduktion von perchlorat durch bacterien. II. Die identität der nitratreduktase und des perchlorat reduzierenden enzyms aus B. cereus. Biochem. Pharm. 14:1313-1324.
14. Hackenthal, E., W. Mannheim, R. Hackenthal, and R. Becher. 1964. Die reduktion von perchlorat durch bakterien. I. Untersuchungen an intaken zellen. Biochem. Pharm. 13:195-206.
15. Hungate, R. E. 1969. A roll tube method for cultivation of strict anaerobes. Methods Microbiol. 3B:117-132.
16. Kengen, S. W. M., G. B. Rikken, W. R. Hagen, C. G. Van Ginkel, and A. J. M. Stams. 1999. Purification and characterization of (per)chlorate reductase from the chlorate-respiring strain GR-1. J. Bacteriol. 181:6706-6711.
17. Lanzillo, J. J. 1990. Preparation of digoxigenin-labeled probes by the polymerase chain reaction. Biotechniques 8:620-622.
18. Logan, B. E., H. Zhang, P. Mulvaney, M. G. Milner, I. M. Head, and R. F. Unz. 2001. Kinetics of perchlorate- and chlorate-respiring bacteria. Appl. Environ. Microbiol. 67:2499-2506.
19. Malmqvist, A., T. Welander, E. Moore, A. Ternstrom, G. Molin, and I.-M. Stenstrom. 1994. Ideonella dechloratans gen. nov., sp. nov., a new bacterium capable of growing anaerobically with chlorate as an electron acceptor. Syst. Appl. Microbiol. 17:58-64.
20. Nielsen, H., J. Engelbrecht, S. Brunak, and G. Von Heijne. 1997. Identification of prokaryotic and eukaryotic signal peptides and prediction of their cleavage sites. Prot. Eng. 10:1-6.
21. O'Connor, S. M., and J. D. Coates. 2002. Universal immunoprobe for (per)-chlorate-reducing bacteria. Appl. Environ. Microbiol. 68:3108-3113.
22. Rikken, G. B., A. G. M. Kroon, and C. G. van Ginkel. 1996. Transformation of (per)chlorate into chloride by a newly isolated bacterium: reduction and dismutation. Appl. Microbiol. Biotechnol. 45:420-426.
23. Roldan, M. D., F. Reyes, C. Moreno-Vivian, and F. Castillo. 1994. Chlorate and nitrate reduction in the phototrophic bacteria Rhodobacter capsulatus and Rhodobacter sphaeroides. Curr. Microbiol. 29:241-245.
24. Romanenko, V. I., V. N. Korenkov, and S. I. Kuznetsov. 1976. Bacterial decomposition of ammonium perchlorate. Mikrobiologiia 45:204-209.
25. Rost, B. 1996. PHD: predicting one-dimensional protein structure by profile-based neural networks. Methods Enzymol. 266:525-539.
26. Sambrook, J., E. F. Fritsch, and T. Maniatis. 1989. Molecular cloning: a laboratory manual, 2nd ed. Cold Spring Harbor Press, Plainview, N.Y.
27. Stenklo K., H. D. Thorell, H. Bergius, R. Aasa, and T. Nilsson. 2001. Chlorite dismutase from Ideonella dechloratans. J. Biol. Inorgan. Chem. 6:601-607.
28. Stepanyuk, V. V., G. F. Smirnova, T. M. Klyushnikova, N. I. Kanyuk, L. P. Panchenko, T. M. Nogina, and V. I. Prima. 1992. New species of the Acinetobacter genus Acinetobacter thermotoleranticus sp. nov. Mikrobiologiia 61:347-356.
29. Urbansky, E. T. 1998. Perchlorate chemistry: implications for analysis and remediation. Bioremed. J. 2:81-95.
30. van Ginkel, C. G., G. B. Rikken, A. G. M. Kroon, and S. W. M. Kengen. 1996. Purification and characterization of chlorite dismutase: a novel oxygen-generating enzyme. Arch. Microbiol. 166:321-326.
31. Wallace, W., T. Ward, A. Breen, and H. Attaway. 1996. Identification of an anaerobic bacterium which reduces perchlorate and chlorate as Wolinella succinogenes. J. Ind. Microbiol. 16:68-72.
32. Wirt, K., M. Laikhlman, J. Rohrer, and P. Jackson. 1998. Low-level perchlorate analysis in drinking water and groundwater by ion chromatography. Am. Environ. Lab. 10:1-5.