Linking of microorganisms to phenanthrene metabolism in soil by analysis of 13C-labeled cell lipids

Applied and Environmental Microbiology

Volumn 68, Issue 12, 2002, Pages 6106-6113

  Johnsen, Anders R ^a   Winding, Anne ^a   Karlson, Ulrich ^a   Roslev, Peter ^b  

^a NATIONAL ENVIRONMENTAL RESEARCH INSTITUTE   (Denmark)

^b AALBORG UNIVERSITY   (Denmark)

Author keywords

[No Author keywords available]

Indexed keywords

AROMATIC COMPOUNDS; DEGRADATION; DNA; FATTY ACIDS; LIPIDS; METABOLISM; SOILS;

AGRICULTURAL SOILS;

MICROORGANISMS;

CARBON 13; DNA 16S; FATTY ACID DERIVATIVE; PHENANTHRENE; SPACER DNA; STEROL DERIVATIVE;

BACTERIUM; MICROBIAL COMMUNITY; MINERALIZATION; PHENANTHRENE; SOIL MICROORGANISM;

ACTINOMYCES; ANALYTIC METHOD; ARTICLE; BACTERIAL METABOLISM; BACTERIUM IDENTIFICATION; BACTERIUM ISOLATION; CARBON FIXATION; COLONY FORMING UNIT; DNA DETERMINATION; DNA SEQUENCE; GRAM NEGATIVE BACTERIUM; MICROBIAL DEGRADATION; MINERALIZATION; MOST PROBABLE NUMBER; NONHUMAN; NUCLEOTIDE SEQUENCE; SOIL ANALYSIS; SOIL MICROFLORA; SOIL POLLUTION; SPHINGOMONAS; STRAIN DIFFERENCE;

BACTERIA; BIODEGRADATION, ENVIRONMENTAL; GLYCOLIPIDS; LIPID METABOLISM; PHENANTHRENES; POLYCYCLIC HYDROCARBONS, AROMATIC; SOIL MICROBIOLOGY; STEROLS;

ACTINOBACTERIA (CLASS); ACTINOMYCES; BACTERIA (MICROORGANISMS); FUNGI; MYCOBACTERIUM; NEGIBACTERIA; NOCARDIA; PROTEOBACTERIA; PSEUDOMONAS; SPHINGOMONAS; UNCULTURED BETA PROTEOBACTERIUM;

EID: 0036956409     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.68.12.6106-6113.2002     Document Type: Article

References (43)

1. Abraham, W.-R., C. Hesse, and O. Peltz. 1998. Ratios of carbon isotopes in microbial lipids as an indicator of substrate usage. Appl. Environ. Microbiol. 64:4202-4209.
2. Altschul, S. F., T. L. Madden, A. A. Schäfer, J. Zhang, Z. Zhang, W. Miller, and D. J. Lipman. 1997. Gapped BLAST and PSI-BLAST - a new generation of protein database search programs. Nucleic Acids Res. 25:3389-3402.
3. Bastiaens, L., D. Springael, P. Wattiau, H. Harms, R. deWachter, H. Verachtert, and L. Diels. 2000. Isolation of adherent polycyclic aromatic hydrocarbon (PAH)-degrading bacteria using PAH-sorbing carriers. Appl. Environ. Microbiol. 66:1834-1843.
4. Bogan, B. W., and R. T. Lamar. 1996. Polycyclic aromatic hydrocarbon-degrading capabilities of Phanerochaete laevis HHB-1625 and its extracellular ligninolytic enzymes. Appl. Environ. Microbiol. 62:1597-1603.
5. Boonchan, S., M. L. Britz, and G. A. Stanley. 2000. Degradation and mineralization of high-molecular-weight polycyclic aromatic hydrocarbons by defined fungal bacterial cocultures. Appl. Environ. Microbiol. 66:1007-1019.
6. 13C-labelling of biomarkers. Nature 392:801-805.
7. Boyer, S. L., V. R. Flechtner, and J. R. Johansen. 2001. Is the 16S-23S rRNA internal transcribed spacer region a good tool for use in molecular systematics and population genetics? A case study in cyanobacteria. Mol. Biol. Evol. 18:1057-1069.
8. Egli, T. 1995. The ecological and physiological significance of the growth of heterotrophic microorganisms with mixtures of substrates. Adv. Microb. Ecol. 14:305-386.
9. Egli, T. 2002. Microbial degradation of pollutants at low concentrations and in the presence of alternative carbon substrates: emerging patterns, p. 131-139. In S. N. Agathos and W. Reineke (ed.), Biotechnology for the environment: strategy and fundamentals. Focus on biotechnology, vol. 3A. Kluwer Academic Publishers, Dordrecht, The Netherlands.
10. Fang, J., and R. H. Findlay. 1996. The use of a classic lipid extraction method for simultaneous recovery of organic pollutants and microbial lipids from sediments. J. Microbiol. Methods 27:63-71.
11. Fukanaga, N., and N. J. Russel. 1990. Membrane lipid composition and glucose uptake in two psycrotolerant bacteria from Antarctica. J. Gen. Microbiol. 136:1669-1673.
12. Gounot, A.-M. 1991. Bacterial life at low temperatures: physiological aspects and biotechnological aspects. J. Appl. Bacteriol. 71:386-397.
13. Grau, R., and D. Demandoza. 1993. Regulation of the synthesis of unsaturated fatty-acids by growth temperature in Bacillus subtilis. Mol. Microbiol. 8:535-542.
14. Giirtler, V., and V. A. Stanisich. 1996. New approaches to typing and identification of bacteria using the 16S-23S rDNA spacer region. Microbiology 142:3-16.
15. Hansen, B. M., T. D. Leser, and N. B. Hendriksen. 2001. Polymerase chain reaction assay for the detection of Bacillus cereus group cells. FEMS Microbiol. Lett. 202:209-213.
16. Hanson, J., J. Macalady, D. Harris, and K. Scow. 1999. Linking toluene degradation with specific microbial populations in soil. Appl. Environ. Microbiol. 65:5403-5408.
17. Harms, H., and T. N. P. Bosma. 1997. Mass transfer limitation of microbial growth and pollutant degradation. J. Ind. Microbiol. 18:97-105.
18. Ho, Y., M. Jackson, Y. Yang, J. G. Mueller, and P. H. Pritchard. 2000. Characterization of fluoranthene- and pyrene-degrading bacteria isolated from PAH-contaminated soils and sediments and comparison of several Sphingomonas spp. J. Ind. Microbiol. Biotechnol. 2:100-112.
19. Iizuka, T., S. Yamanaka, T. Nishiyama, and A. Hiraishi. 1998. Isolation and phylogenetic analysis of aerobic copiotrophic ultramicrobacteria from urban soil. J. Gen. Appl. Microbiol. 44:75-84.
20. Jensen, M. A., J. A. Webster, and N. Strauss. 1993. Rapid identification of bacteria on the basis of polymerase chain reaction-amplified ribosomal DNA spacer polymorphisms. Appl. Environ. Microbiol. 59:945-952.
21. Johnsen, A. R., K. Bendixen, and U. Karlson. 2002. Detection of microbial growth on polycyclic aromatic hydrocarbons in microtiter plates by using the respiration indicator WST-1. Appl. Environ. Microbiol. 68:2683-2689.
22. Johnsen, K., S. Andersen, and C. S. Jacobsen. 1996. Phenotypic and genotypic characterization of phenanthrene-degrading fluorescent Pseudononas biovars. Appl. Environ. Microbiol. 62:3818-3825.
23. Kästner, M., M. Breuer-Jammali, and B. Mahro. 1994. Enumeration and characterization of the soil microflora from hydrocarbon-contaminated soil sites able to mineralize polycyclic hydrocarbons (PAH). Appl. Microbiol. Biotechnol. 41:267-273.
24. Kotterman, M. J. J., E. H. Vis, and J. A. Field. 1998. Successive mineralization and detoxification of benzo[a]pyrene by the white rot fungus Bjergkandera sp. strain BOS55 and indigenous microflora. Appl. Environ. Microbiol. 64:2853-2858.
25. Leeming, R. 1996. Coprostanol and related sterols as tracers for fecal contamination in Australian aquatic environments. Ph.D. thesis. Canberra University, Canberra, Australia.
26. Leung, K. T., Y. J. Chang, Y. D. Gan, A. Peacock, S. J. Macnaughton, J. R. Stephen, and R. S. Burkhalter. 1999. Detection of Sphingomonas spp. in soil by PCR and sphingolipid biomarker analysis. J. Ind. Microbiol. Biotechnol. 23:252-260.
27. Logel, D. M. 1988. Fungal lipids, p. 699-806. In S. G. Wilkinson (ed.), Microbial lipids, vol. 7. Academic Press, London, United Kingdom.
28. Mueller, J. G., P. J. Chapman, B. O. Blattmann, and P. H. Pritchard. 1990. Isolation and characterization of a fluoranthene-utilizing strain of Pseudomonas paucimobilis. Appl. Environ. Microbiol. 56:1079-1086.
29. Mueller, J. G., R. Devereux, D. L. Santavy, S. E. Lantz, S. G. Willis, and P. H. Pritchard. 1997. Phylogenetic and physiological comparisons of PAH-degrading bacteria from geographically diverse soils. Antonie Leeuwenhoek 71:329-343.
30. T, KF3, and NKF1 as a new species of the genus Sphingomonas, Sphingomonas subarctica sp. nov. Int. J. Syst. Bacteriol. 46:1042-1055.
31. Pel, R., R. Oldenhuis, W. Brand, A. Vos, J. C. Gottschal, and K. B. Zwart. 1997. Stable-isotope analysis of a combined nitrification-denitrification sustained by thermophilic methanotrophs under low-oxygen conditions. Appl. Environ. Microbiol. 63:474-481.
32. Pickard, M. A., R. Roman, R. Tinoco, and R. Vasquez-Duhalt. 1999. Polycyclic aromatic hydrocarbon metabolism by white rot fungi and oxidation by Coriolopsis gallica UAMH 8260 laccase. Appl. Environ. Microbiol. 65:3805-3809.
33. Pinhassi, J., U. Zweifel, and Å. Hagström. 1997. Dominant marine bacterioplankton species found among colony-forming bacteria. Appl. Environ. Microbiol. 63:3359-3366.
34. Roslev, P., and N. Iversen. 1999. Radioactive fingerprinting of microorganisms that oxidize atmospheric methane in different soils. Appl. Environ. Microbiol. 65:4064-4070.
35. Roslev, P., N. Iversen, and K. Henriksen. 1998. Direct fingerprinting of metabolically active bacteria in environmental samples by substrate specific radiolabelling and lipid analysis. J. Microbiol. Methods 31:99-111.
36. 13C-enrichment in bacterial fatty acids using chemical ionization mass spectrometry with negative ion detection. J. Microbiol. Methods 7:77-89.
37. Tunlid, A., and D. C. White. 1992. Biochemical analysis of biomass, community structure, nutritional status and metabolic activity of microbial communities in soil, p. 229-262. In J.-M. Bollag (ed.), Soil biochemistry, vol. 7. Marcel Dekker Inc., New York, N.Y.
38. White, D. C., H. C. Pinkart, and D. B. Ringelberg. 1997. Biomass measurements: biochemical approaches, p. 91-101. In C. J. Hurst, G. R. Knudsen, M. J. McInerney, L. D. Stetzenbach, and M. V. Walter (ed.), Manual of environmental microbiology. ASM Press, Washington, D.C.
39. Wick, L. Y., T. Colangelo, and H. Harms. 2001. Kinetics of mass-transfer limited bacterial growth on solid PAHs. Environ. Sci. Technol. 35:354-361.
40. Wick, L. Y., D. Springael, and H. Harms. 2001. Bacterial strategies to improve the bioavailability of hydrophobic organic pollutants, p. 203-217. In G. Matz (ed.), Treatment of contaminated soil. Springer-Verlag, Berlin, Germany.
41. Willumsen, P., U. Karlson, E. Stakebrandt, and R. M. Kroppenstedt. 2001. Mycobacterium frederiksbergense sp. nov., a novel polycyclic aromatic hydrocarbon-degrading Mycobacterium species. Int. J. Syst. Evol. Microbiol. 51:1715-1722.
42. Wilmotte, A., G. van der Auwera, and R. De Wachter. 1993. Structure of the 16S ribosomal RNA of the thermophilic cyanobacterium Chlorogloeopsis HTF (Mastigocladus laminosus HTF) strain PCC7518, and phylogenetic analysis. FEBS Lett. 37:96-100.
43. Zelles, L. 1999. Fatty acid patterns of phospholipid and lipopolysaccharides in the characterization of microbial communities in soil: a review. Biol. Fertil. Soils 29:111-129.