Detection of Acidithiobacillus ferrooxidans in acid mine drainage environments using fluorescent in situ hybridization (FISH)

Journal of Microbiological Methods

Volumn 61, Issue 1, 2005, Pages 33-45

  Mahmoud, K K ^a   Leduc, L G ^b   Ferroni, G D ^c  

^a UNIVERSITY OF WESTERN ONTARIO   (Canada)

^b LAURENTIAN UNIVERSITY   (Canada)

^c NORTHERN ONTARIO SCHOOL OF MEDICINE   (Canada)

Author keywords

Acid mine drainage (AMD); Acidithiobacillus ferrooxidans; Hybridization

Indexed keywords

ACID; DYE; INDOCARBOCYANINE; OLIGONUCLEOTIDE; RIBOSOME RNA; UNCLASSIFIED DRUG;

ACID MINE DRAINAGE; ACIDIPHILIUM ACIDOPHILUM; ACIDITHIOBACILLUS FERROOXIDANS; ACIDITHIOBACILLUS THIOXIDANS; ARTICLE; BACTERIUM CULTURE; BACTERIUM DETECTION; CONTROLLED STUDY; FLUORESCENCE IN SITU HYBRIDIZATION; INCUBATION TIME; LACTOBACILLUS PLANTARUM; NONHUMAN; PRIORITY JOURNAL; WATER SAMPLING;

ACIDITHIOBACILLUS; DNA, BACTERIAL; IMAGE PROCESSING, COMPUTER-ASSISTED; IN SITU HYBRIDIZATION, FLUORESCENCE; INDUSTRIAL WASTE; MICROSCOPY, FLUORESCENCE; MINING; WATER POLLUTANTS, CHEMICAL;

ACIDIPHILIUM ACIDOPHILUM; ACIDITHIOBACILLUS FERROOXIDANS; ACIDITHIOBACILLUS THIOOXIDANS; LACTOBACILLUS PLANTARUM;

EID: 12844278756     PISSN: 01677012     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.mimet.2004.10.022     Document Type: Article

References (30)

1. A. Alfreider, J. Pernthaler, R. Amann, B. Sattler, F.-O. Glöckner, A. Wille, and R. Psenner Community analysis of the bacterial assemblages in the winter cover and pelagic layers of a high mountain lake by in situ hybridization Appl. Environ. Microbiol. 62 1996 2138 2144
2. E.W. Alm, D.B. Oerther, N. Larsen, D.A. Stahl, and L. Raskin The oligonucleotide probe database Appl. Environ. Microbiol. 62 1996 3557 3559
3. R. Amann, and M. Kühl In situ methods for assessment of microorganisms and their activities Curr. Opin. Microbiol. 1 1998 352 358
4. R.I. Amann, L. Krumholz, and D.A. Stahl Fluorescent-oligonucleotide probing of whole cells for determinative, phylogenetic, and environmental studies in microbiology J. Bacteriol. 172 1990 762 770
5. R. Amann, J. Stromely, R. Devereux, R. Key, and D.A. Stahl Molecular and microscopic identification of sulfate-reducing bacteria in multispecies biofilms Appl. Environ. Microbiol. 58 1992 614 623
6. R. Amann, W. Ludwig, and K.-H. Schleifer Phylogenetic identification and in situ detection of individual microbial cells without cultivation Appl. Environ. Microbiol. 59 1995 143 169
7. J.R. Cole, B. Chai, T.L. Marsh, R.J. Farris, Q. Wang, S.A. Kulam, S. Chandra, D.M. McGarrell, T.M. Schmidt, G.M. Garrity, and J.M. Tiedje The Ribosomal Database Project (RDP-II): previewing a new autoaligner that allows regular updates and the new prokaryotic taxonomy Nucleic Acids Res. 1 2003 442 443
8. B.S. Davis, D. Fortin, and T.J. Beveridge Acidophilic bacteria, acid mine drainage and Kidd Creek Mine Tailings Sudbury '95 Mining and the Environment, Canmet, Sudbury vol. 1 1995 69 78
9. E.F. DeLong, G.S. Wickham, and N.R. Pace Phylogenetic stains: ribosomal RNA-based probes for the identification of single cells Science 243 1989 1360 1363
10. E.F. DeLong, L.T. Taylor, T.L. Marsh, and C.M. Preston Visualisation and enumeration of marine planktonic archaea and bacteria by using polyribonucleotide probes and fluorescent in situ hybridization Appl. Environ. Microbiol. 65 1999 5554 5563
11. P.R. Dugan Bacterial ecology of strip mine areas and its relationship to the production of acidic mine drainage Ohio J. Sci. 75 1975 266 279
12. N.M. DuTeau, J.D. Rogers, C.T. Bartholomay, and K.F. Reardon Species-specific oligonucleotides for enumeration of Pseudomonas putida F1, Burkholderia sp. Strain JS150, and Bacillus subtilis ATCC 7003 in Biodegradation experiments Appl. Environ. Microbiol. 64 1998 4994 4999
13. D. Hahn, R.I. Amann, and J. Zeyer Whole-cell hybridization of Frankia strains with fluorescence- or digoxigenin-labeled, 16S rRNA-targeted oligonucleotide probes Appl. Environ. Microbiol. 59 1993 1709 1716
14. D.B. Johnson Selective solid media for isolating and enumerating acidophilic bacrteria J. Microbiol. Methods 23 1995 205 218
15. D.B. Johnson, J.H.M. Macivar, and S. Rolfe A new solid medium for the isolation and enumeration of Thiobacillus ferrooxidans and acidophilic bacteria J. Microbiol. Methods 7 1987 9 18
16. G.I. Karavaiko, T.P. Turova, T.F. Kondrat'eva, A.M. Lysenko, T.V. Kolganova, S.N. Ageeva, L.N. Muntyan, and T.A. Pivovarova Phylogenetic heterogeneity of the species Acidithiobacillus ferrooxidans Int. J. Syst. Evol. Microbiol. 53 2003 113 119
17. P.S. Langendijk, F. Schut, G.J. Jansen, G.C. Raangs, G.R. Kamphuis, M.H.F. Wilkinson, and G.W. Welling Quantitive fluorescence in situ hybridization of Bifidobacterium spp. with genus-specific 16S rRNA-targeted probes and its application in fecal samples Appl. Environ. Microbiol. 61 1995 3069 3075
18. R. Lathe Synthetic oligonucleotide probes deduced from amino acid sequence data. Theoretical and practical considerations J. Mol. Biol. 183 1985 1 12
19. L.G. Leduc, and G.D. Ferroni The need for Thiobacillus ferrooxidans strain selection in applications of bioleaching W.D. Gould L. Lortie D. Rodrigue Proceedings of the Tenth Annual Meeting of BIOMINET 1993 25 42 (CANMET Special Publication SP94-1, Mississauga, Canada)
20. L.G. Leduc, and G.D. Ferroni The chemolithotrophic bacterium Thiobacillus ferrooxidans FEMS Microbiol. Rev. 14 1994 103 120
21. W. Ludwig, S. Dorn, N. Springer, G. Kirchhof, and K.-H. Schleifer PCR-based preparation of 23S rRNA-targeted group-specific polynucleotide probes Appl. Environ. Microbiol. 60 1994 3234 3244
22. W. Manz, R. Amann, W. Ludwig, M. Wagner, and K.-H. Schleifer Phylogenetic oligodeoxynucleotide probes for the major subclasses of Proteobacteria: problems and solutions Syst. Appl. Microbiol. 15 1992 593 600
23. L.K. Poulsen, G. Ballard, and D.A. Stahl Use of rRNA fluorescence in situ hybridization for measuring the activity of single cells in young and established biofilms Appl. Environ. Microbiol. 59 1993 1354 1360
24. M.J. Puro, W.B. Kipkie, R.A. Knapp, T.J. McDonald, and R.A. Stuparyk Inco's Copper Cliff tailings area Sudbury'95 Mining and the Environment, Canmet, Sudbury, Ontario vol. 1 1995 181 191
25. M.O. Schrenk, K.J. Edwards, R.M. Goodman, R.J. Hamers, and J.F. Banfield Distribution of Thiobacillus ferrooxidans and Leptospirillum ferrooxidans: implications for generation of acid mine drainage Science 279 1998 1519 1522
26. M. Stichbury, G. Bechard, L. Lortie, and W.D. Gould Use of inhibitors to prevent acid mine drainage Sudbury'95 Mining and the Environment, Canmet, Sudbury, Ontario vol. 2 1995 613 622
27. K. Trebesius, R. Amann, W. Ludwig, K. Mühlegger, and K.-H. Schleifer Identification of whole fixed bacterial cells with nonradioactive 23S rRNA-targeted polynucleotide probes Appl. Environ. Microbiol. 60 1994 3228 3235
28. 2-fixation and iron oxidation as measures of growth Arch. Microbiol. 88 1973 285 298
29. P.L. Wichlacz, and R.F. Unz Acidophilic, heterotropic bacteria of acidic mine waters Appl. Environ. Microbiol. 41 1981 1251 1261
30. C.R. Woese Bacterial evolution Microbiol. Rev. 51 1987 221 271