Signature Lipid Biomarker (SLB) analysis in determining changes in community structure of soil microorganisms

Polish Journal of Environmental Studies

Volumn 12, Issue 6, 2003, Pages 669-675

  Piotrowska Seget, Z ^a   Mrozik, A ^a  

^a UNIVERSITY OF SILESIA   (Poland)

Author keywords

FAME; Fatty acids analysis; Microbial biomass; Microbial community structure; PLFA

Indexed keywords

BIOMARKER; COMMUNITY STRUCTURE; FATTY ACID; SOIL MICROORGANISM;

BACTERIA (MICROORGANISMS);

EID: 0942269623     PISSN: 12301485     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (58)

1. FINNE G., MATCHES J.R. Spin-labeling studies on the lipids of psychrophilic and psychrotrophic, and mesophilic Clostridia. J. Bacteriol. 125, 211, 1976.
2. RUSSEL N.J. FUKUNAGA N. A comparison of thermal adaptation of membrane lipids in psychrophilic and thermophilic bacteria. FEMS Microbiol. Rev. 75, 171, 1990.
3. ALBERTS S.V., VAN DE VOSSENBERG J.L., DRIESSSEN A.J., KONINGS W.N. Adaptations of the archaeal cell membrane to heat stress. Front. Biosci. 5, D81, 2000.
4. DENICH T.J., BEAUDETTE L.A., LEE H., TREVORS J.T. Effect of selected environmental and physico-chemical factors on bacterial cytoplasmic membranes. J. Microbiol. Meth. 52, 149, 2003.
5. FINEAN J.B., MITCHELL R.H. Isolation, composition and general structure of membranes. (in) Membrane Structure. (eds. J.B. Finean, R.H. Mitchell) Elsevier, New York, pp 19-25, 1981.
6. MORGAN J.A.W., WINSTANLEY C. Microbial biomarkers. (in) Modern soil microbiology. (eds. J.D van Elsas, J.T. Trevors, E.M.H. Wellington) Marcel Dekker. Inc., New York, pp 331-348, 1997.
7. HARWOOD J.L., RUSELL N.J. Lipids in plants and microbes. George Allen and Unwin, London, 1984.
8. HAMAMOTO T., TAKATA N., KUDO T., HORIKOSCHI K. Effect of temperature and growth phase on fatty acid composition of the psychrophilic Vibrio sp. strain 5710. FEMS Microbiol. Lett. 119, 77, 1994.
9. LENNARZ W.J. Lipid metabolism in the bacteria. Adv. Lipid Res. 4, 175, 1966.
10. FINDLAY R.H. The use of phospholipid fatty acid to determine microbial community structure. (in) Molecular microbial ecology manual. (eds A.D.L. Akkermans, J.D. van Elsas, F.J. de Bruijn) Kluwer Academic Publishers, Dordrecht, pp 1-18, 1996.
11. WHITE D.C., RINGELBERG D.B. Utility of the signature lipid biomarker analysis in determining in situ viable biomass, community structure and nutritional/physiological status of deep subsurface microbiota (in) The Microbiology of the terrestrial deep subsurface. (eds. P. S Amy, D. Haldeman). LCRC Press, New York, pp 119-136, 1997.
12. WHITE D.C., PINKARD H.C., RINGELBERG D.B. Biomass measurements: biochemical approaches. (in) Manual of environmental microbiology, (eds. C. J Hurst, G.R. Knudsen, M.J. Mc Inerney, L.D. Stetzenbach., M.V. Valter) ASM Press, Washington, pp 91-101. 1997.
13. BALKWILL D.L., LEACH F.R., WILSON J.T., MCNABB J.F., WHITE D.C. Equivalence of microbial biomass measures based on membrane lipid and cell wall components, adenosine triphosphate, and direct count in subsurface aquifer sediments. Microbiol. Ecol. 16, 73, 1988.
14. ZELLES L., BAI Q.Y., MA R.X., RACKWITZ R., WINTER K., BEESE F. Microbial biomass, metabolic activity and nutritional status determined from fatty acid patterns and polyhydroxybutyrate in agriculturally - managed soils. Soil Biol. Biochem. 26, 439, 1994.
15. FROSTEGARD A., BAATH E. The use of phospholipid fatty acid analysis to estimate bacterial and fungal biomass in soil. Biol. Fertil. Soils 22, 59, 1996.
16. WHITE D.C., DAVIS W.M., NICKELS J.S., KING J.D., BOBBIE R.J. Determination of sedimentary microbial biomass by extractable lipid phosphate. Oecologia 40, 51, 1977.
17. PARKER J.H., SMITH G.A., FREDRICKSON H.L., VESTAL J.R., WHITE D.C. Sensitive assay, based on hydroxy fatty acids from lipopolysaccharide lipid A, for Gram-negative bacteria in sediments. Appl. Environ. Microbiol. 44, 1170, 1982.
18. HAACK S.K., GARCHOW H., ODELSON D.A., FORNEY L.J., KLUG M.J. Accuracy, reproducibility, and interpretation of fatty acid methyl ester profiles of model bacterial communities. Appl. Environ. Microbiol, 60, 2483, 1994.
19. RATLEDGE C., WILKINSON G. Microbial lipids. Academic Press, London, 1988.
20. ZELLES L. Fatty acid patterns of phospholipids and lipopolysaccharides in the characterisation of microbial communities in soil: a review. Biol. Fertil. Soils 29, 111, 1999a.
21. WHITE D.C. Is there anything else you need to understand about the microbionta that cannot be derived from analysis Of nucleic acids? Microbiol. Ecol. 28, 163, 1994.
22. WELLS G.B., DICKSON R.C., LESTER L.R. Isolation and composition of inositolphosphorylceramide-type sphingolipids of hyphal forms of Candida albicans. J. Bacteriol. 178, 6223, 1996.
23. KELLY J.J., HAGGBLOM M., TATE III R.L. Changes in soil microbial communities over time resulting from one time application of zinc: a laboratory microcosm study. Soil Biol. Biochem. 31, 1455, 1999.
24. HEDLUND K. Soil microbial community structure in relation to vegetation management of former agricultural land. Soil Biol. Biochem. 34, 1299, 2002.
25. EDLUND A., NICHOLS P.D., ROFFEY R., WHITE D.C. Extractable and lipopolysaccharide fatty acid and hydroxy acid profiles from Desulfovibrio species. J. Lipid Res. 26, 982, 1985.
26. DOWLING N.J.E., WIDDEL F., WHITE D.C. Phospholipid ester-linked fatty acid biomarkers of acetate-oxidizing sulfate reducers and other sulfide forming bacteria. J. Gen. Microbiol. 132, 1815, 1986.
27. GUCKERT B., HOOD M.A., WHITE D.C. Phospholipid, ester-linked fatty acid profile changes in nutrient deprivation of Vibrio cholerae. Increase in the trans/cis ratio and proportions of cyclopropyl fatty acids. Appl. Environ. Microbiol. 52, 794, 1986.
28. NICHOLS P.D., MANCUSO C.A., WHITE D.C. Measurement of methanotroph and methanogen signature phospholipids for use in assessment of biomass and community structure in model system. Org. Geochem. 11, 451, 1987.
29. RINGELBERG D.B., TOWNSEND T., DEWAARD K.A., SUFLITA J.M., WHITE D.C. Detection of the anaerobic dechlorinator Desulfomonile tiedjei in soil by its signature lipopolysaccharide branched-long-chain hydroxy fatty acids. FEMS Microbiol. Ecol. 14, 9, 1993.
30. KERGER B., NICHOLS P.D., ANTWORTHT C.P, SAND W., BOCK E., COKS J.C., LANGWORTHY T.A., WHITE D.C. Signature fatty acids in the polar lipids of acid-producing Thiobacilli: methoxy, cyclopropyl, alpha-hydroxy-cyclopropyl and branched and normal monoenoic fatty acids. FEMS Microbiol. Ecol. 38, 67, 1986.
31. CAVIGELLI M.A., ROBERTSON G.P., KLUG M.J. Fatty acid methyl ester (FAME) profiles as measures of soil microbial community structure. Plant Soil 170, 99, 1995.
32. ZELLES L. Identification of single cultured micro-organisms based on their whole-community fatty acid profiles, using an extanded extraction procedure. Chemosphere 39, 665, 1999b.
33. PENNANEN T., PERKIOMAKI J., KIIKKILA O., VANHALA P., NEUVONEN S., FRITZE H. Prolonged, simulated acid rain and heavy metal deposition: separated and combined effects on forest soil microbial community structure. FEMS Microbiol. Ecol. 27, 291, 1998.
34. FROSTEGARD A., TUNLID A., BAATH E. Phospholipid fatty acid composition, biomass, and activity of microbial communities from two soil types experimentally exposed to different heavy metals. Appl. Environ. Microbiol. 59, 3605, 1993.
35. FROSTEGARD A., TUNLID A., BAATH E. Changes in microbial community structure during long-term incubation in two soils experimentally contaminated with metals. Soil Biol. Biochem. 28, 55, 1996.
36. OLSSON P.A. Signature fatty acids provide tools for determination of the distribution and interactions of mycorrhizal fungi in soil. FEMS Microbiol. Ecol. 29, 303, 1999.
37. HAZEL J.R., WILIAMS E.E. The role of alteration in membrane lipid composition in enabling physiological adaptation of organisms to their physical environment. Prog. Lipid Res. 29, 167, 1990.
38. SAJBIDOR J. Effects of some environmental factors on the content and composition of microbial membrane lipids. Crit. Rev. Biotechnol. 17, 87, 1997.
39. SEGURA A., DUQUE E., MASQUEDA G., RAMOS J.L., JUNKER F. Multiple responses of Gram-negative bacteria to organic solvents. Environ. Microbiol. 1, 191, 1999.
40. RAMOS J.L., GALLEGOS M.T., MARQUES S., RAMOS-GONZALES M.I., ESPINOSA-URGEL M., SEGURA A. Responses of Gram-negative bacteria to certain environmental stressors. Curr. Opin. Microbiol. 4, 166, 2001.
41. CRONAN J.E. Phospholipid alterations during growth of Escherichia coli. J. Bacteriol. 95, 2054, 1968.
42. WHITE D.C. Analysis of microorganisms in terms of quantity and activity in natural environments. Symp. Soc. Gen. Microbiol. 34, 37, 1983.
43. KIEFT T.L., RINGELBERG G.B., WHITE D.C. Changes in ester-linked phospholipid fatty acid profiles of subsurface bacteria during starvation and desiccation in a porous medium. Appl. Environ. Microbiol. 60, 3292, 1994.
44. HEIPIEPER H.J., WEBER F.J., SIKKEMA J., KEWELOH H., DE BONT J.A.M. Mechanisms of resistance of whole cells to toxic organic solvents. Trends Biotechnol. 12, 409, 1994.
45. HEIPIEPER H.J., DIFFENBACH R., KEWELOH H. Conversion of cis unsaturated fatty acids to trans, a possible mechanism for the protection of phenol-degrading Pseudomonas putida P8 from substrate toxicity. Appl. Environ. Microbiol. 58, 1847, 1992.
46. HEIPIEPER H.J., LOFFELD B., KEWELOH H., DE BONT J.A.M. The cis/trans isomerisation of unsaturated fatty acids in Pseudomonas putida S12: an indicator for environmental stress due to organic compounds. Chemosphere 30, 1041, 1995.
47. HALVERSON L.J., FIRESTONE M.K. Differential effects of permeating and nonpermeating solutes on the fatty acid composition of Pseudomonas putida. Appl. Environ. Microbiol. 66, 2414, 2000.
48. SASSER M. Identification of bacteria by gas chromatography of cellular fatty acids. MIDI Technical Note 101. Microbial ID, Inc., Newark. DE, USA, 1990.
49. TIGHE S.W., DE LAJUDIE P., DIPIETRO K., LIND-STROM K., NICK G., JARVIS B.D.W. Analysis of cellular fatty acids and phenotypic relationships of Agrobacterium, Bradyrhizobium, Mesorhizobium, Rhizobium and Sinorhizobium species using the Sherlock Microbial Identification System. Inter. J. Sys. Evol. Microbiol. 50, 787, 2000.
50. BUYER J.S. Identification of bacteria from single colonies by fatty acid analysis. J. Microbiol. Meth. 48, 259, 2002.
51. THOMPSON I.P., Ellis R.J., BAILEY M.J. Autecology of a genetically modified fluorescent pseudomonad on a sugar beet. FEMS Microbiol. Ecol. 17, 1, 1995.
52. PETERSEN S.O., KLUG M. Effects of sieving, storage, and incubation temperature on the phospholipid fatty acid profile of a soil microbial community. Appl. Environ. Microbiol. 7, 2421, 1994.
53. NAZIH N., FINLAY-MOORE O., HARTEL P.G., FUHRMANN J.J. Whole soil fatty acid methyl ester (FAME) profiles of early soybean rhizosphere as affected by temperature and matric water potential. Soil Biol. Biochem. 33, 693, 2001.
54. KOZDRÓJ J. Microflora of technogenous wastes characterised by fatty acid profiling. Microbiol. Res. 155, 149, 2000.
55. RAJENDRAN N., MATSUDA O., URUSHIGAWA Y., SIMIDU U. Characterization of microbial community structure in the surface sediment of Osaka Bay, Japan, by phospholipid fatty acid analysis. Appl. Environ. Microbiol. 60, 248, 1994.
56. BAATH E., FROSTEGARD A., FRITZE H. Soil bacterial biomass, activity, phospholipid fatty acid pattern, and pH tolerance in an area polluted with alkaline dust deposition. Appl. Environ. Microbiol. 58, 4026, 1992.
57. MACNAUGHTON S.J., STEPHEN J.R., VENOSA A.D., DAVIS G.A., CHANG Y.J., WHITE D.C. Microbial populations changes during bioremediation of an experimental oil spill. Appl. Environ. Microbiol. 65, 3566, 1999.
58. RINGELBERG D.B., TALLEY J.W., PERKINS E.J., TUCKER S.G., LUTHY R.G., BOUWER E.J., FREDRICKSON H.L. Succession of phenotypic, genotypic, and metabolic community characteristics during in vitro bioslurry treatment of polycyclic aromatic hydrocarbon-contaminated sediments. Appl. Environ. Microbiol. 67, 1542, 2001.