Genotypic diversity of Acidovorax strains isolated from activated sludge and description of Acidovorax defluvii sp. nov.

Systematic and Applied Microbiology

Volumn 22, Issue 2, 1999, Pages 205-214

  Schulze, Renate ^e   Spring, Stefan ^d   Amann, Rudolf ^a   Huber, Ingrid ^b   Ludwig, Wolfgang ^e   Schleifer, Karl Heinz ^e   Kämpfer, Peter ^c  

^a MAX PLANCK INSTITUTE FOR MARINE MICROBIOLOGY   (Germany)

^b Biotechnological Institute Denmark   (Denmark)

^c JUSTUS LIEBIG UNIVERSITY   (Germany)

^d TECHNICAL UNIVERSITY OF MUNICH   (Germany)

^e NONE

Author keywords

16S rRNA; Acidovorax; Activated sludge; Comamonadaceae; Fluorescence in situ hybridization; Polyphasic taxonomy

Indexed keywords

AGAR; BACTERIAL DNA; CARBOHYDRATE; CARBOXYLIC ACID; CATALASE; CYTOCHROME C OXIDASE; CYTOSINE; GUANINE; HYDROXYBUTYRIC ACID; NITRATE REDUCTASE; RIBOSOME RNA; RNA 16S;

ACIDOVORAX; ACTIVATED SLUDGE; ARTICLE; BACTERIAL METABOLISM; BACTERIUM CULTURE; BACTERIUM ISOLATION; BIODIVERSITY; DNA BASE COMPOSITION; FLUORESCENCE IN SITU HYBRIDIZATION; GENOTYPE; GRAM NEGATIVE BACTERIUM; NONHUMAN; OLIGONUCLEOTIDE PROBE; PRIORITY JOURNAL; TAXONOMY; WASTE WATER MANAGEMENT;

ACIDOVORAX; ACIDOVORAX DEFLUVII; ACIDOVORAX DELAFIELDII; BACTERIA (MICROORGANISMS); COMAMONADACEAE; NEGIBACTERIA;

EID: 0033062638     PISSN: 07232020     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0723-2020(99)80067-8     Document Type: Article

References (33)

1. AMANN, R., LUDWIG, W., SCHULZE, R., SPRING, S., MOORE, E., SCHLEIFER, K. H.: rRNA-targeted oligonucleotide probes for the identification of genuine and former pseudomonads. System. Appl. Microbiol. 19, 501-509 (1996).
2. AMANN, R., SNAIDR, J., WAGNER, M., LUDWIG, W., SCHLEIFER, K. H.: In situ visualization of high genetic diversity in a natural bacterial community. J. Bacteriol. 178, 3496-3500 (1996b).
3. BOND, P. L., HUGENHOLTZ, P., KELLER, J., BLACKALL, L. L.: Bacterial community structures of phosphate-removing and non-phosphate-removing activated sludges from sequencing batch reactors. Appl. Environ. Microbiol. 61, 1910-1916 (1995).
4. BROSIUS, J., DULL, T. L., SLEETER, D. D., NOLLER, H. F.: Gene organization and primary structure of a ribosomal RNA operon from Escherichia coli. J. Mol. Biol. 148, 107-127 (1981).
5. DE LEY, J.: Reexamination of the association between melting point, buoyant density, and chemical base composition of deoxyribonucleic acid. J. Bacteriol. 101, 738-754 (1970).
6. FELSENSTEIN, J.: Numerical methods for inferring phylogenetic trees. Q Rev. Biol. 57, 379-404 (1982).
7. HEIMBROOK, M. E., WANG, W. L. L., CAMPBELL, G.: Staining bacterial flagella easily. J. Clin. Microbiol. 27, 2612-2615 (1989).
8. JOHNSON, J. L.: Nucleic acids in bacterial classification. pp. 8-11. In: Bergey's manual of systematic bacteriology (R. G. E. Murray, D. J. Brenner, M. P. Bryant, J. G. Holt, N. R. Krieg, J. W. Moulder, N. Pfennig, P. H. A. Sneath, J. T. Staley, eds.) Vol. 1. Baltimore, Williams and Wilkins 1984.
9. KAMPFER, P., DENNER, E. B. M., MEYER, S., MOORE, E. R. B., BUSSE, H.-J.: Classification of "Pseudomonas azotocolligans" Anderson 1955, 132, in the genus Sphingomonas as Sphingomonas trueperi sp. nov.. Int. J. System. Bacteriol. 47, 577-583 (1997).
10. KÄMPFER, P., ERHART, R., BEIMFOHR, C., BÖHRINGER, J., WAGNER, M., AMANN, R.: Characterization of bacterial communities from activated sludge plant: culture-dependent numerical identification versus in situ identification using group- and genus-specific rRNA-targeted oligonucleotide probes. Microbiol. Ecol. 32, 101-121 (1996).
11. KÄMPFER, P., KROPPENSTEDT, R. M.: Numerical analysis of fatty acid patterns of coryneform bacteria and related taxa. Can. J. Microbiol. 42, 989-1005 (1996).
12. LUDWIG, W., KIRCHHOF, G., KLUGBAUER, N., WEIZENEGGER, M., BETZL, D., EHRMANN, E., HERTEL, C., JILG, S., TATZEL, R., ZITZELSBERGER, H., LIEBL, S., HOCHBERGER, M., SHAH, J., LANE, D., WALLNÖFER, P. R., SCHLEIFER, K. H.: Complete 23S ribosomal RNA sequences of Gram-positive Bacteria with a low DNA G+C content. System. Appl. Microbiol. 15, 487-501 (1992).
13. LUDWIG, W., STRUNK, O.: ARB: a software environment for sequence data, http://www.mikro.biologie.tu-muenchen.de/ pub/ARB/documentation/arb.ps (1997).
14. MAIDAK, B. L., OLSEN, G. J., LARSEN, N., OVERBECK, R., MCCAUGHEY, M. J., WOESE, C. R.: The ribosomal database project. Nucleic Acids Res. 24, 82-85 (1996).
15. MANDEL, M., MARMUR, J.: Use of ultraviolet absorbance temperature profile for determining the guanine plus cytosine content of DNA. Methods Enzymol. 12B, 195-206 (1968)
16. MANZ, W., WAGNER, M., AMANN, R., SCHLEIFER, K. H.: In situ characterization of the microbial consortia active in two wastewater treatment plants. Water Res. 28, 1715-1723 (1994).
17. MCCONAUGHY, B. L., LAIRD, C. D., MCCARTHY, B. J.: Nucleic acid reassociation in formamide. Biochemistry 8, 3289-3295 (1969).
18. MEYER, S. A., SCHLEIFER, K. H.: Rapid procedure for the approximate determination of the deoxyribonucleic acid base composition of micrococci, staphylococci, and other bacteria. Int. J. System. Bacteriol. 24, 383-385 (1975).
19. OWEN, R. J., PITCHER, D.: Current methods for estimating DNA base composition and levels of DNA-DNA hybridization, pp 67-93. In: Chemical methods in bacterial systematics (M. Goodfellow, D. E. Minnikin, eds.). Society for applied bacteriology technical series 20, London, Academic press 1985.
20. REASONER, D. J., GELDREICH, E. E.: A new medium for the enumeration and subculture of bacteria from potable water. Appl. Environ. Microbiol. 49, 1-7 (1985).
21. REES, G. N., VASILIADIS, G., MAY, J. W, BAYLY, R. C.: Differentiation of polyphosphate and poly-β-hydroxybutyrate granules in an Acinetobater sp. isolated from activated sludge. FEMS Microbiol. Lett. 94, 171-174 (1992).
22. ROSSELLO-MORA, R. A., GARCIA-VALDES, E., LALUCAT, J.: Taxonomic relationship between Pseudomonas perfectomarina ZoBell and Pseudomonas stutzeri. Int. J. System. Bacteriol. 43, 852-854 (1993).
23. ROUF, M. A., STOKES, J. L.: Morphology, nutrition and physiology of Sphaerotilus discophorus. Arch. Microbiol. 49, 132-149 (1964).
24. SAITOU, N., NEI, M.: The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4, 406-425 (1987).
25. SNAIDR, J., AMANN, R., HUBER, I., LUDWIG, W., SCHLEIFER, K. H.: Phylogenetic analysis and in situ identification of bacteria in activated sludge. Appl. Environ. Microbiol. 63, 2884-2896 (1997).
26. VAN DE PEER, Y., NICOLAI, S., DE RIJK, P., DE WACHTER, R.: Database on the structure of small ribosomal subunit RNA. Nucleic Acids Res. 24, 86-91 (1996).
27. WAGNER, M., AMANN, R.: Molecular techniques for determining microbial community structures in activated sludge. pp.61-72. In: Microbial community analysis: The key to the design of biological wastewater treatmet systems. (T.E. Cloete, N.Y.O. Muyima, eds.). IAWQ Scientific Technical Report No. 5, Cambridge, University Press (1997).
28. WAGNER, M., AMANN, R., LEMMER, H., SCHLEIFER, K. H.: Probing acivated sludge with oligonucleotides specific for Proteobacteria: inadequacy of culture-dependent methods for describing microbial community structure. Appl. Environ. Microbiol. 59, 1520-1525 (1993).
29. WAGNER, M., ERHART, R., MANZ, W., AMANN, R., LEMMER, H., WEDI, D., SCHLEIFER, K. H.: Development of an rRNA-targeted oligonucleotide probe specific for the genus Acinetobacter and its application for in situ monitoring in activated sludge. Appl. Environ. Microbiol. 60, 792-800 (1994).
30. WALLNER, G., ERHART, R., AMANN, R.: Flow cytometric analysis of activated sludge with rRNA-targeted probes. Appl. Environ. Microbiol. 61, 1859-1866 (1995).
31. WILLEMS, A., DE LEY, J., GILLIS, M., KERSTERS, K.: Comamon-adaceae, a new family encompassing the acidovorans rRNA complex, including Variovorax paradoxus gen. nov., comb nov., for Alcaligenes paradoxus (Davis 1969). Int. J. System. Bacteriol. 41, 445-450 (1991).
32. WILLEMS, A., FALSEN, E., POT, B., JANTZEN, E., HOSTE, B., VANDAMME, P., GILLIS, M., KERSTERS, K., DE LEY, J.: Acidovorax, a new genus for Pseudomonas facilis, Pseudomonas delafieldii, E. FALSEN (EF) Group 13, EF Group 16, and several clinical isolates, with the species Acidovorax facilis comb. nov., Acidovorax delafieldii comb. nov., and Acidovorax temperans sp. nov. Int. J. System. Bacteriol. 40, 384-398 (1990).
33. WILLEMS, A., GOOR, M., THIELEMANS, S., GILLIS, M., KERSTERS, K., DE LEY, J: Transfer of several phytopathogenic Pseudomonas species to Acidovorax as Acidovorax avenae subsp. avenae subsp. nov., comb, nov., Acidovorax avenae subsp. citrulli, Acidovorax avenae subsp. cattleyae, and Acidovorax konjaci. Int. J. System. Bacteriol. 42, 107-119 (1992).