High genetic and physiological diversity of sulfate-reducing bacteria isolated from an oligotrophic lake sediment

Archives of Microbiology

Volumn 170, Issue 4, 1998, Pages 243-251

  Sass, Henrik ^a   Wieringa, Elze ^b   Cypionka, Heribert ^b   Babenzien, Hans Dietrich ^a   Overmann, Jörg ^b  

^a Inst Gewasserokologie B   (Germany)

^b UNIVERSITY OF OLDENBURG   (Germany)

Author keywords

Bacterial diversity; Culturability; Molecular fingerprinting; Sulfate reducing bacteria

Indexed keywords

ARTICLE; BACTERIUM IDENTIFICATION; BACTERIUM ISOLATION; DESULFOVIBRIO; DNA FINGERPRINTING; GENE SEQUENCE; GERMANY; LAKE; PHYLOGENY; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; SEDIMENT; SULFATE REDUCING BACTERIUM;

DNA FINGERPRINTING; MOLECULAR SEQUENCE DATA; PHENOTYPE; PHYLOGENY; RNA, BACTERIAL; RNA, RIBOSOMAL, 16S; SULFUR-REDUCING BACTERIA; VARIATION (GENETICS); WATER MICROBIOLOGY;

BACTERIA (MICROORGANISMS); DESULFOTOMACULUM; DESULFOVIBRIO; ENTEROBACTERIACEAE; NEGIBACTERIA; POSIBACTERIA; SPOROMUSA;

EID: 0031657332     PISSN: 03028933     EISSN: None     Source Type: Journal    
DOI: 10.1007/s002030050639     Document Type: Article

References (43)

1. Amann RI, Binder BJ, Olson RJ, Chrisholm SW, Devereux R, Stahl DA (1990) Combination of 16S rRNA-targeted oligonucleotide probes with flow cytometry for analyzing mixed microbial populations. Appl Environ Microbiol 56:1919-1925
2. Atlas RM, Bartha R (1993) Microbial ecology. Benjamin Cummings, Redwood City, CA
3. Bak F, Pfennig N (1991a) Microbial sulfate reduction in littoral sediment of Lake Constance. FEMS Microbiol Ecol 85:31-42
4. Bak F, Pfennig N (1991b) Sulfate-reducing bacteria in littoral sediment of Lake Constance. FEMS Microbiol Ecol 85:43-52
5. Borneman J et al. (1996) Molecular microbial diversity of an agricultural soil in Wisconsin. Appl Environ Microbiol 62:1935-1943
6. Canfield DE, DesMarais DJ (1991) Aerobic sulfate reduction in microbial mats. Science 251:1471-1473
7. Collins VG (1977) Methods in sediment microbiology. In: Droop MR, Jannasch HW (eds) Advances in aquatic microbiology. Academic Press, London New York San Francisco, pp 219-273
8. De Bruijn FJ (1992) Use of repetitive (repetitive extragenic palindromic and enterobacterial repetitive intergenic consensus) sequences and the polymerase chain reaction to fingerprint the genomes of Rhizobium meliloti isolates and other soil bacteria. Appl Environ Microbiol 58:2180-2187
9. Devereux R, Hines ME, Stahl DA (1996a) S-cycling: characterization of natural communities of sulfate-reducing bacteria by 16S rRNA sequence comparisons. Microb Ecol 32:283-292
10. Devereux R, Winfrey MR, Winfrey J, Stahl DA (1996b) Depth profile of sulfate-reducing bacterial ribosomal RNA and mercury methylation in an estuarine sediment. FEMS Microbiol Ecol 20:23-31
11. Dunbar J, White S, Forney L (1997) Genetic diversity through the looking glass: effect of enrichment bias. Appl Environ Microbiol 63:1326-1331
12. Fründ C, Cohen Y (1992) Diurnal cycles of sulfate reduction under oxic conditions in cyanobacterial mats. Appl Environ Microbiol 58:70-77
13. Godon J-J, Zumstein E, Dabert P, Habouzit F, Moletta R (1997) Molecular microbial diversity of an anaerobic digestor as determined by small-subunit rDNA sequence analysis. Appl Environ Microbiol 63:2802-2813
14. Howarth RW, Giblin A (1983) Sulfate reduction in the salt marshes at Sapelo Island, Georgia. Limnol Oceanogr 28:70-82
15. Ingvorsen K, Brock TD (1982) Electron flow via sulfate reduction and methanogenesis in the anaerobic hypolimnion of Lake Mendota. Limnol Oceanogr 27:559-564
16. Jørgensen BB (1982) Mineralization of organic matter in the sea bed. The role of sulphate reduction. Nature 296:643-645
17. Kane MD, Poulsen LK, Stahl DA (1993) Monitoring the enrichment and isolation of sulfate-reducing bacteria by using oligonucleotide hybridization probes designed from environmentally derived 16S rRNA sequences. Appl Environ Microbiol 59:682-686
18. Lane DJ (1991) 16S/23S rRNA sequencing. In: Stackebrandt E, Goodfellow M (eds) Nucleic acid techniques in bacterial systematics. Wiley, Chichester, pp 113-175
19. Lane DJ, Pace B, Olsen GJ, Stahl DA, Sogin ML, Pace NR (1985) Rapid determination of 16S ribosomal RNA sequences for phylogenetic analysis. Proc Natl Acad Sci USA 82:6955-6959
20. Maidak BL, Olsen GJ, Larsen N, Overbeek R, McCaughey MJ, Woese CR (1997) The ribosomal database projekt. Nucleic Acids Res 25:109-111
21. Moyer CL, Dobbs FC, Karl DM (1994) Estimation of diversity and community structure through restriction fragment length polymorphism distribution analysis of bacterial 16S rRNA genes from a microbial mat at an active, hydrothermal vent system, Loihi seamount, Hawaii. Appl Environ Microbiol 60:871-879
22. Muyzer G, De Waal EC, Uitterlinden AG (1993) Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA. Appl Environ Microbiol 59:695-700
23. Odum EP (1973) Fundamentals of ecology, 3rd edn. Saunders, Philadelphia
24. Overmann J, Tuschak C (1997) Phylogeny and molecular fingerprinting of green sulfur bacteria. Arch Microbiol 167:302-309
25. Risatti JB, Capman WC, Stahl DA (1994) Community structure of a microbial mat: the phylogenetic dimension. Proc Natl Acad Sci USA 91:10173-10177
26. Rodriguez-Tomé P, Stoehr PJ, Cameron NG, Flores TP (1996) The European Bioinformatics Institute (EBI) databases. Nucleic Acids Res 24:6-12
27. Rogers JS (1972) Measures of genetic similarity and genetic distance. (Studies in genetics, vol 7) University of Texas Publication 7213:145-153
28. Rohlf FJ (1993) NTSYSpc numerical taxonomy and multivariate analysis system for the IBM PC microcomputer (and compatibles). Applied Biostatistics, Setauket, NY
29. Rothfuß F, Bender M, Conrad R (1997) Survival and activity of bacteria in a deep, aged lake sediment (Lake Constance). Microbial Ecol 33:69-77
30. Sass H, Cypionka H, Babenzien H-D (1996) Sulfate-reducing bacteria from the oxic sediment layers of the oligotrophic Lake Stechlin. Arch Hydrobiol Special Issues Adv Limnol 48:241-246
31. Sass H, Cypionka H, Babenzien H-D (1997) Vertical distribution of sulfate-reducing bacteria at the oxic-anoxic interface in sediments of the oligotrophic Lake Stechlin. FEMS Microbiol Ecol 22:245-255
32. Schmidt TM, DeLong EF, Pace NR (1991) Analysis of a marine picoplankton community by 16S rRNA gene cloning and sequencing. J Bacteriol 173:4371-4378
33. Stackebrandt E, Goebel BM (1994) Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Bacteriol 44:846-849
34. Telang AJ et al. (1994) Characterization of the diversity of sulfate-reducing bacteria in soil and mining waste water environments by nucleic acid hybridization. Can J Microbiol 40:955-964
35. Teske A, Wawer C, Muyzer G, Ramsing NB (1996) Distribution of sulfate-reducing bacteria in a stratified fjord (Manager Fjord, Denmark) as evaluated by most-probable-number counts and denaturing gradient gel electrophoresis of PCR-amplified ribosomal DNA fragments. Appl Environ Microbiol 62:1405-1415
36. Versalovic J, Koeuth T, Lupski JR (1991) Distribution of repetitive DNA sequences in eubacteria and application to fingerprinting of bacterial genomes. Nucleic Acids Res 19:6823-6831
37. Voordouw G et al. (1996) Characterization of 16S rRNA genes from oil field microbial communities indicates the presence of a variety of sulfate-reducing, fermentative, and sulfide-oxidizing bacteria. Appl Environ Microbiol 62:1623-1629
38. Wallrabenstein C, Hauschild E, Schink B (1994) Pure culture and cytological properties of "Syntrophomonas wolinii." FEMS Microbiol Lett 123:249-254
39. Ward DM, Weller R, Bateson MM (1990) 16S rRNA sequences reveal numerous uncultured microorganisms in a natural community. Nature 344:63-65
40. Wawer C, Muyzer G (1995) Genetic diversity of Desulfovibrio spp. in environmental samples analyzed by denaturing gradient gel electrophoresis of [NiFe] hydrogenase gene fragments. Appl Environ Microbiol 61:2203-2210
41. Widdel F, Bak F (1992) Gram-negative mesophilic sulfate-reducing bacteria. In: Balows A, Trüper HG, Dworkin M, Harder W, Schleifer KH (eds) The prokaryotes, 2nd edn. Springer, Berlin Heidelberg New York, pp 3352-3372
42. Widdel F, Pfennig N (1982) Studies on dissimilatory sulfate-reducing bacteria that decompose fatty acids. 2. Incomplete oxidation of propionate by Desulfobulbus propionicus gen. nov., sp. nov. Arch Microbiol 131:360-365
43. Wright S (1978) Evolution and the genetics of populations, vol 4. University of Chicago Press, Chicago