Genetic diversity of benzoyl coenzyme a reductase genes detected in denitrifying isolates and estuarine sediment communities

Applied and Environmental Microbiology

Volumn 71, Issue 4, 2005, Pages 2036-2045

  Song, Bongkeun ^a   Ward, Bess B ^b  

^a UNIVERSITY OF NORTH CAROLINA WILMINGTON   (United States)

^b PRINCETON UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BENZOYL COENZYME; GENETIC DIVERSITY; GENETIC MARKERS; ORGANIC CARBON;

AROMATIC COMPOUNDS; BIOMARKERS; CARBON; COENZYMES; ESTUARIES; GENES; GENETIC ENGINEERING; MICROBIOLOGY;

MICROORGANISMS;

AROMATIC COMPOUND; BENZOYL COENZYME A REDUCTASE GENE; ORGANIC CARBON; OXIDOREDUCTASE; UNCLASSIFIED DRUG;

ENZYME;

ALPHAPROTEOBACTERIA; AMINO ACID SEQUENCE; ARTICLE; AZOARCUS; BACTERIAL STRAIN; BACTERIUM IDENTIFICATION; BETAPROTEOBACTERIA; BRADYRHIZOBIUM; CONTROLLED STUDY; DENITRIFICATION; ECOSYSTEM; ENZYME DEGRADATION; ESTUARY; GAMMAPROTEOBACTERIA; GENETIC MARKER; GENETIC VARIABILITY; MOLECULAR CLONING; NONHUMAN; NUCLEOTIDE SEQUENCE; PARACOCCUS; PHYLOGENY; POLYMERASE CHAIN REACTION; PSEUDOMONAS; RHODOPSEUDOMONAS PALUSTRIS; SEDIMENT; UNITED STATES;

ACYL COENZYME A; AMINO ACID SEQUENCE; GEOLOGIC SEDIMENTS; MARYLAND; MOLECULAR SEQUENCE DATA; NEW JERSEY; NITRITES; OXIDOREDUCTASES ACTING ON CH-CH GROUP DONORS; PROTEOBACTERIA; RIVERS; SEQUENCE ANALYSIS, DNA; VARIATION (GENETICS);

EID: 17444421574     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.71.4.2036-2045.2005     Document Type: Article

References (26)

1. Arzayus, K. M., R. M. Dickhut, and E. A. Canuel. 2001. Fate of atmospherically deposited polycyclic aromatic hydrocarbons (PAHs) in Chesapeake Bay. Environ. Sci. Technol. 35:2178-2183.
2. Boll, M., G. Fuchs, and J. Heider. 2002. Anaerobic oxidation of aromatic compounds and hydrocarbons. Curr. Opin. Chem. Biol. 6:604-611.
3. Breese, K., M. Boll, J. Alt-Mörbe, H. Schägger, and G. Fuchs. 1998. Genes coding for the benzoyl-CoA pathway of anaerobic aromatic metabolism in the bacterium Thauera aromatica. Eur. J. Biochem. 256:148-154.
4. Gibson, J., and C. S. Harwood. 2002. Metabolic diversity in aromatic compound utilization by anaerobic microbes. Annu. Rev. Microbiol. 56:345-369.
5. Gupta, R. S. 2000. The phylogeny of proteobacteria: relationships to other eubacterial phyla and eukaryotes. FEMS Microbiol. Rev. 24:367-402.
6. Gupta, R. S., and E. Griffiths. 2002. Critical issues in bacterial phylogeny. Theor. Popul. Biol. 61:423-434.
7. Hans, M., W. Buckel, and E. Bill. 2000. The iron-sulfur clusters in 2-hydroxyglutaryl-CoA dehydratase from Acidaminococcus fermentans. Eur. J. Biochem. 267:7082-7093.
8. Harwood, C. S., G. Burchhardt, H. Herrmann, and G. Fuchs. 1999. Anaerobic metabolism of aromatic compounds via the benzoyl-CoA pathway. FEMS Microbiol. Rev. 22:4439-4458.
9. Harwood, C. S., and R. E. Parales. 1996. The β-ketoadipate pathway and the biology of self-identity. Annu. Rev. Microbiol. 50:553-590.
10. Heider, J., and G. Fuchs. 1997. Anaerobic metabolism of aromatic compounds. Eur. J. Biochem. 243:577-596.
11. Heider, J., A. M. Spormann, H. R. Beller, and F. Widdel. 1999. Anaerobic bacterial metabolism of hydrocarbons. FEMS Microbiol. Rev. 22:459-473.
12. Kerkhof, L. J., and B. Ward. 1993. Comparison of nucleic acid hybridization and fluorometry for measurement of the relationship between RNA/DNA ratio and growth rate in a marine bacterium. Appl. Environ. Microbiol. 59: 1303-1309.
13. Ko, F.-C., and J. E. Baker. 1995. Partitioning of hydrophobic organic contaminants to resuspended sediments and plankton in the mesohaline Chesapeake Bay. Mar. Chem. 49:171-188.
14. Liu, B., L. L. McConnell, and A. Torrents. 2002. Herbicide and insecticide loadings from the Susquehanna River to the northern Chesapeake Bay. J. Agric. Food Chem. 50:4385-4392.
15. Locher, K. P., M. Hans, A. P. Yeh, B. Schmid, W. Buckel, and D. C. Rees. 2001. Crystal structure of the Acidaminococcus fermentans 2-hydroxyglutaryl-CoA dehydratase component A. J. Mol. Biol. 307:297-308.
16. Lopez Barragán, M. J., M. Carmona, M. Zamarro, B. Thiele, M. Boll, G. Fuchs, J. L. García, and E. Díaz. 2004. The bzd gene cluster, coding for anaerobic benzoate catabolism, in Azoarcus sp. strain CIB. J. Bacteriol. 186: 5762-5774.
17. Peter, F., M. Rother, and M. Boll. 2004. Selenocysteine-containing proteins in anaerobic benzoate metabolism of Desulfococcus multivorans. J. Bacteriol. 186:2156-2163.
18. Saitou, N., and M. Nei. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. J. Mol. Evol. 4:406-425.
19. Schocher, R. J., B. Seyfried, F. Vazquez, and J. Zeyer. 1991. Anaerobic degradation of toluene by pure cultures of denitrifying bacteria. Arch. Microbiol. 157:7-12.
20. Song, B., L. J. Kerkhof, and M. M. Häggblom. 2001. Characterization of bacterial consortia capable of degrading 4-chlorobenzoate and 4-bromobenzoate under denitrifying conditions. FEMS Microbiol. Lett. 213:183-188.
21. Song, B., N. J. Palleroni, and M. M. Häggblom. 2000. Isolation and characterization of diverse halobenzoate-degrading denitrifying bacteria from soils and sediments. Appl. Environ. Microbiol. 66:3446-3453.
22. Song, B., and B. B. Ward. 2003. Nitrite reductase genes in halobenzoate degrading denitrifying bacteria. FEMS Microbiol. Ecol. 43:349-357.
23. Swofford, D. L. 1998. PAUP*. Phylogenetic analysis using parsimony (*and other methods). Sinauer Associates, Sunderland, Mass.
24. Unciuleac, M., and M. Boll. 2001. Mechanism of ATP-driven electron transfer catalyzed by the benzene ring-reducing enzyme benzoyl-CoA reductase. Proc. Natl. Acad. Sci. USA 98:13619-13624.
25. Widdel, F., and R. Rabus. 2001. Anaerobic biodegradation of saturated and aromatic hydrocarbons. Curr. Opin. Biotechnol. 12:259-276.
26. Zhou, J., M. R. Fries, J. 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. Syst. Bacteriol. 45:500-506.