Evidence for the involvement of betaproteobacterial Thiobacilli in the nitrate-dependent oxidation of iron sulfide minerals

FEMS Microbiology Ecology

Volumn 58, Issue 3, 2006, Pages 439-448

  Haaijer, Suzanne C M ^a   Van Der Welle, Marlies E W ^a   Schmid, Markus C ^a   Lamers, Leon P M ^a   Jetten, Mike S M ^a   Op Den Camp, Huub J M ^a  

^a RADBOUD UNIVERSITY NIJMEGEN   (Netherlands)

Author keywords

FISH analysis; Nitrogen cycle; RNA based methods; Sulfur cycle; Thiobacilli

Indexed keywords

FERROUS SULFIDE; NITRATE; RIBOSOME RNA;

BACTERIUM; BIOGEOCHEMICAL CYCLE; IRON SULFIDE; MICROBIAL ACTIVITY; MICROBIAL ECOLOGY; OXIDATION;

ARTICLE; BACTERIAL STRAIN; GENE SEQUENCE; NONHUMAN; NUCLEOTIDE SEQUENCE; OXIDATION; PRIORITY JOURNAL; THIOBACILLUS DENITRIFICANS;

CELLS, CULTURED; CLONING, MOLECULAR; DNA, BACTERIAL; FRESH WATER; IN SITU HYBRIDIZATION, FLUORESCENCE; IRON COMPOUNDS; MOLECULAR SEQUENCE DATA; NITRATES; OXIDATION-REDUCTION; RNA, RIBOSOMAL, 23S; SOIL MICROBIOLOGY; SPECIES SPECIFICITY; SULFIDES; THIOBACILLUS;

BACTERIA (MICROORGANISMS); GAMMAPROTEOBACTERIA; THIOBACILLUS DENITRIFICANS;

EID: 33750982373     PISSN: 01686496     EISSN: 15746941     Source Type: Journal    
DOI: 10.1111/j.1574-6941.2006.00178.x     Document Type: Article

References (36)

1. Alm EW, Oerther DB, Larsen N, Stahl DA & Raskin L (1996) The oligonucleotide probe database. Appl Environ Microbiol 62: 3557-3559.
2. Amann RI, Binder BJ, Olson RJ, Chisholm 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.
3. American Public Health Association. (1980) Standard methods for examination of waste and waste water, 15th edn., pp. 439-440. American Public Health Association, Washington, DC.
4. Beller HR (2005) Anaerobic, nitrate-dependent oxidation of U(IV) oxide minerals by the chemolithoautotrophic bacterium Thiobacillus denitrificans. Appl Environ Microbiol 71: 2170-2174.
5. Beller HR, Chain PSG, Letain TE, Chakicherla A, Larimer FW, Richardson PM, Coleman MA, Wood AP & Kelly DP (2006) The genome sequence of the obligately chemolithoautotrophic, facultatively anaerobic bacterium Thiobacillus denitrificans. J Bacteriol 188: 1473-1488.
6. Broers HP & Buijs EA (1998) Origin of trace metals and arsenic at the Oostrum well field. Report NITG 97-189A. Institute of Applied Geoscience TNO, Delft, The Netherlands.
7. Buchholz-Cleven BEE, Rattunde B & Straub KL (1997) Screening for genetic diversity of isolates of anaerobic Fe(II) oxidizing bacteria using DGGE and whole-cell hybridization. Syst Appl Microbiol 20: 301-309.
8. Cataldo DA, Haroon M, Schrader LE & Youngs VL (1975) Rapid colorimetric determination of nitrate in plant tissue by nitration of salicylic acid. Commun Soil Sci Plan 6: 71-80.
9. Cohen Y & Kuenen JG (1976) Growth yields and excretion products of Thiobacillus neapolitanus grown in a chemostat. Abstracts of the Annual Meeting of the American Society of Microbiology, p. 120. American Society for Microbiology, Washington DC, USA.
10. Daims H, Bruhl A, Amann RI, Schleifer KH & Wagner M (1999) The domain-specific probe EUB338 is insufficient for the detection of all bacteria: development and evaluation of a more comprehensive probe set. Syst Appl Microbiol 22: 434-444.
11. Davis BD, Luger SM & Tai PC (1986) Role of ribosomal degradation in the death of starved Escherichia coli cells. J Bacteriol 166: 439-445.
12. Derikx PJL, Op den Camp HMM, van der Drift C, van Griensven JLD & Vogels GD (1990) Odorous sulfur compounds emitted during production of compost used as a substrate in mushroom cultivation. Appl Environ Microbiol 56: 176-180.
13. Deutscher MP (2003) Degradation of stable RNA in bacteria. J Biol Chem 278: 45041-45044.
14. Griess-Romijn van Eck (1966) Physiological and chemical tests for drinking water. NEN 1056, IV-2. Nederlandse Normalisatie Instituut, Rijswijk, the Netherlands.
15. Hanert HH (1981) The genus Galionella. The Prokaryotes, A Handbook on Habitats, Isolation, and Identification of Bacteria, Vol. 1 (Starr MP, Stolp H, Trüper HG, Balows A & Schlegel HG, eds), pp. 509-515. Springer-Verlag, Berlin.
16. Juretschko S, Timmermann G, Schmid M, Schleifer K-H, Pommering-Röser A, Koops H-P & Wagner M (1998) Combined molecular and conventional analyses of nitrifying bacterium diversity in activated sludge: Nitrosococcus mobilis and Nitrospira-like bacteria as dominant populations. Appl Environ Microbiol 64: 3042-3051.
17. Kamphake LJ, Hannah SA & Cohen JM (1967) Automated method for determining nitrate by hydrazine reduction. Water Res 1: 205-206.
18. Kelly DP & Harrison AP (1989) Thiobacillus. Bergey's Manual of Systematic Bacteriology, Vol. 3 (Staley MP, Bryant MP, Pfennig N & Holtz JG, eds), pp. 1842-1858. Williams & Wilkins Co., Baltimore, MD.
19. Kelly DP & Wood AP (2000) Confirmation of Thiobacillus denitrificans as a species of the genus Thiobacillus, in the β-subclass of the Proteobacteria, with strain NCIMB 9548 as the type strain. Int J Syst Microbiol 50: 547-550.
20. Lamers LPM, Ten Dolle GE, Van Den Berg STG, Van Delft SPJ & Roelofs JGM (2001) Differential responses of freshwater wetland soils to sulphate pollution. Biogeochemistry 55: 87-102.
21. Lane DJ, Harrison AP Jr, Stahl D, Pace B, Giovannoni SJ, Olsen GJ & Pace NR (1992) Evolutionary relationships among sulphur- and iron-oxidizing eubacteria. J Bacteriol 174: 269-278.
22. Lee C-M & Sublette KL (1993) Microbial treatment of sulfide-laden water. Water Res 27: 839-846.
23. Loy A, Horn M & Wagner M (2003) ProbeBase-an online resource for rRNA-targeted oligonucleotide probes. Nucl Acids Res 31: 514-516.
24. Lucassen ECHET, Smolders AJP & Roelofs JGM (2002) Potential sensitivity of mires to drought, acidification and mobilisation of heavy metals: the sediment S/(Ca+Mg) ratio as diagnostic tool. Environ Pollut 120: 635-646.
25. Ludwig W, Kirchhof G, Klugbauer N, et al. (1992) Complete 23S ribosomal RNA sequences of gram-positive bacteria with a low DNA G+C content. Syst Appl Microbiol 15: 487-501.
26. Ludwig W, Strunk O, Westram R, et al. (2004) ARB: a software environment for sequence data. Nucleic Acids Res 32: 1363-1371.
27. Manz W, Amann R, Ludwig W, Wagner M & Schleifer K-H (1992) Phylogenetic oligonucleotide probes for the major subclasses of Proteobacteria: problems and solutions. Syst Appl Microbiol 15: 593-600.
28. McDonald IR, Kelly DP, Murrell JC & Wood AP (1997) Taxonomic relationships of Thiobacillus halophilus, T. aquaesulis, and other species of Thiobacillus, as determined using 16S rDNA sequencing. Arch Microbiol 166: 394-398.
29. Roelofs JGM (1991) Inlet of alkaline river water into peaty lowlands: effects on water quality and Stratoites aloides L. stands. Aquat Bot 39: 267-293.
30. Schnaitman K & Lundgren DG (1965) Organic compounds in the spent medium of Ferrobacillus ferrooxidans. Can J Microbiol 1: 23-27.
31. Siyambalapitiya N & Blackall LL (2005)Discrepancies in the widely applied GAM42a fluorescence in situ hybridisation probe for Gammaproteobacteria. FEMS Microbiol Lett 242: 367-373.
32. Straub KL, Schönhuber WA, Buchholz-Cleven BEE & Schink B (2004) Diversity of ferrous iron-oxidizing, nitrate-reducing bacteria and their involvement in oxygen-independent iron cycling. Geomicrobiol J 21: 371-378.
33. Sublette KL, Kolhatkar R & Raterman K (1998) Technological aspects of the microbial treatment of sulfide-rich wastewaters: a case study. Biodegradation 9: 259-271.
34. Ustinova I, Krienitz L & Huss AR (2001) Closteriopsis acicularis (G. M. Schmith) Belcher et Swale is a fusiform alga closely related to Chlorella kessleri Fott et Nováková (chlorophyta, Trebouxiophyceae). Eur J Phycol 36: 341-351.
35. Van de Graaf AA, de Bruijn P, Robertson LA, Jetten MSM & Kuenen JG (1996) Autotrophic growth of anaerobic ammonium-oxidizing micro-organisms in a fluidized bed reactor. Microbiology 142: 2187-2196.
36. Yeates C, Saunders AM, Crocetti GR & Blackall LL (2003) Limitations of the widely used GAM42a and BET42a probes targeting bacteria in the Gammaproteobacteria radiation. Microbiology 149: 1239-1247.