Rhodanobacter denitrificans sp. nov., isolated from nitrate-rich zones of a contaminated aquifer

International Journal of Systematic and Evolutionary Microbiology

Volumn 62, Issue 10, 2012, Pages 2457-2462

  Prakash, Om ^a   Green, Stefan J ^a,b   Jasrotia, Puja ^a   Overholt, Will A ^a   Canion, Andy ^a   Watson, David B ^c   Brooks, Scott C ^c   Kostka, Joel E ^a,d  

^a FLORIDA STATE UNIVERSITY   (United States)

^b UNIVERSITY OF ILLINOIS AT CHICAGO   (United States)

^c OAK RIDGE NATIONAL LABORATORY   (United States)

^d GEORGIA INSTITUTE OF TECHNOLOGY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ACID; BACTERIAL DNA; FATTY ACID; HEAVY METAL; METAL; NITRATE; QUINONE DERIVATIVE; RADIOISOTOPE; RNA 16S; SODIUM CHLORIDE;

AQUIFER; ARTICLE; BACTERIAL GROWTH; BACTERIUM ISOLATION; CHEMOTAXONOMY; GENE SEQUENCE; GENETIC ANALYSIS; GENOTYPE; GRAM NEGATIVE BACTERIUM; NONHUMAN; NUCLEOTIDE SEQUENCE; PH; PHYLOGENY; PHYSIOLOGY; PRIORITY JOURNAL; RHODANOBACTER DENITRIFICANS; RHODANOBACTER THIOOXYDANS; SEQUENCE ANALYSIS; TEMPERATURE DEPENDENCE;

BACTERIAL TYPING TECHNIQUES; BASE COMPOSITION; DNA, BACTERIAL; FATTY ACIDS; GROUNDWATER; MOLECULAR SEQUENCE DATA; NITRATES; PHYLOGENY; RADIOACTIVE WASTE; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; UBIQUINONE; URANIUM; WATER POLLUTION, CHEMICAL; WATER POLLUTION, RADIOACTIVE; XANTHOMONADACEAE;

BACTERIA (MICROORGANISMS); NEGIBACTERIA; RHODANOBACTER;

EID: 84866143007     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.035840-0     Document Type: Article

References (24)

1. An, D. S., Lee, H. G., Lee, S. T. & Im, W. T. (2009). Rhodanobacter ginsenosidimutans sp. nov., isolated from soil of a ginseng field in South Korea. Int J Syst Evol Microbiol 59, 691-694.
2. Bui, T. P., Kim, Y. J., Kim, H. & Yang, D. C. (2010). Rhodanobacter soli sp. nov., isolated from soil of a ginseng field. Int J Syst Evol Microbiol 60, 2935-2939.
3. Cashion, P., Holder-Franklin, M. A., McCully, J. & Franklin, M. (1977). A rapid method for the base ratio determination of bacterial DNA. Anal Biochem 81, 461-466.
4. De Clercq, D., Van Trappen, S., Cleenwerck, I., Ceustermans, A., Swings, J., Coosemans, J. & Ryckeboer, J. (2006). Rhodanobacter spathiphylli sp. nov., a gammaproteobacterium isolated from the roots of Spathiphyllum plants grown in a compost-amended potting mix. Int J Syst Evol Microbiol 56, 1755-1759.
5. De Ley, J., Cattoir, H. & Reynaerts, A. (1970). The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 12, 133-142.
6. DeSantis, T. Z., Jr, Hugenholtz, P., Keller, K., Brodie, E. L., Larsen, N., Piceno, Y. M., Phan, R. & Andersen, G. L. (2006). NAST: a multiple sequence alignment server for comparative analysis of 16S rRNA genes. Nucleic Acids Res 34 (Web Server issue,), W394-W399.
7. Green, S. J., Prakash, O., Gihring, T. M., Akob, D. M., Jasrotia, P., Jardine, P. M., Watson, D. B., Brown, S. D., Palumbo, A. V. & Kostka, J. E. (2010). Denitrifying bacteria isolated from terrestrial subsurface sediments exposed to mixed-waste contamination. Appl Environ Microbiol 76, 3244-3254.
8. Huß, V. A. R., Festl, H. & Schleifer, K. H. (1983). Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. Syst Appl Microbiol 4, 184-192.
9. Im, W. T., Lee, S. T. & Yokota, A. (2004). Rhodanobacter fulvus sp. nov., α β-galactosidase-producing gammaproteobacterium. J Gen Appl Microbiol 50, 143-147.
10. Lee, C. S., Kim, K. K., Aslam, Z. & Lee, S. T. (2007). Rhodanobacter thiooxydans sp. nov., isolated from a biofilm on sulfur particles used in an autotrophic denitrification process. Int J Syst Evol Microbiol 57, 1775-1779.
11. Ludwig, W., Strunk, O., Westram, R., Richter, L., Meier, H., Yadhukumar, Buchner, A., Lai, T., Steppi, S. & other authors (2004). ARB: a software environment for sequence data. Nucleic Acids Res 32, 1363-1371.
12. Mahne, I. & Tiedje, J. M. (1995). Criteria and methodology for identifying respiratory denitrifiers. Appl Environ Microbiol 61, 1110-1115.
13. Miller, L. T. (1982). Single derivatization method for routine analysis of bacterial whole-cell fatty acid methyl esters, including hydroxy acids. J Clin Microbiol 16, 584-586.
14. Nalin, R., Simonet, P., Vogel, T. M. & Normand, P. (1999). Rhodanobacter lindaniclasticus gen. nov., sp. nov., a lindane-degrading bacterium. Int J Syst Bacteriol 49, 19-23.
15. Ronquist, F. & Huelsenbeck, J. P. (2003). MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19, 1572-1574.
16. Sasser, M. (1990). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE: MIDI, Inc.
17. Tamura, K., Nei, M. & Kumar, S. (2004). Prospects for inferring very large phylogenies by using the neighbor-joining method. Proc Natl Acad Sci U S A 101, 11030-11035.
18. Tamura, K., Dudley, J., Nei, M. & Kumar, S. (2007). MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol Biol Evol 24, 1596-1599.
19. Tindall, B. J., Rosselló-Móra, R., Busse, H. J., Ludwig, W. & Kämpfer, P. (2010). Notes on the characterization of prokaryote strains for taxonomic purposes. Int J Syst Evol Microbiol 60, 249-266.
20. Van Den Heuvel, R. N., van der Biezen, E., Jetten, M. S., Hefting, M. M. & Kartal, B. (2010). Denitrification at pH 4 by a soil-derived Rhodanobacter-dominated community. Environ Microbiol 12, 3264-3271.
21. Wang, L., An, D. S., Kim, S. G., Jin, F. X., Lee, S. T. & Im, W. T. (2011). Rhodanobacter panaciterrae sp. nov., a bacterium with ginsenosideconverting activity isolated from soil of a ginseng field. Int J Syst Evol Microbiol 61, 3028-3032.
22. Watson, D. B., Kostka, J. E., Fields, M. W. & Jardine, P. M. (2004). The Oak Ridge Field Research Center Conceptual Model. Oak Ridge, TN: NABIR Field Research Center.
23. Wayne, L. G., Brenner, D. J., Colwell, R. R., Grimont, P. A. D., Kandler, O., Krichevsky, M. I., Moore, L. H., Moore, W. E. C., Murray, R. G. E. & other authors (1987). International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37, 463-464
24. Weon, H. Y., Kim, B. Y., Hong, S. B., Jeon, Y. A., Kwon, S. W., Go, S. J. & Koo, B. S. (2007). Rhodanobacter ginsengisoli sp. nov. and Rhodanobacter terrae sp. nov., isolated from soil cultivated with Korean ginseng. Int J Syst Evol Microbiol 57, 2810-2813.