13C-Labelling of lipids to investigate microbial communities in the environment

Current Opinion in Biotechnology

Volumn 17, Issue 1, 2006, Pages 72-82

  Evershed, Richard P ^a   Crossman, Zoe M ^a   Bull, Ian D ^a   Mottram, Hazel ^a   Dungait, Jennifer A J ^a   Maxfield, Peter J ^a   Brennand, Emma L ^a  

^a UNIVERSITY OF BRISTOL   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

BIOCHEMISTRY; FATTY ACIDS; GAS CHROMATOGRAPHY; ISOTOPES; LIPIDS; MASS SPECTROMETRY; PHOSPHOLIPIDS;

ISOTOPIC CHANGES; MICROBIAL COMMUNITIES; PHOSPHOLIPID FATTY ACIDS (PLFA);

MICROORGANISMS;

BIOLOGICAL MARKER; CARBON; CARBON 13; FATTY ACID; LIPID; TOLUENE; PHOSPHOLIPID;

CHEMOTAXONOMY; ENVIRONMENT; GAS CHROMATOGRAPHY; INSTRUMENTATION; MASS SPECTROMETRY; METHANOTROPHIC BACTERIUM; MICROBIAL BIOMASS; MICROFLORA; MINERALIZATION; NONHUMAN; PRIORITY JOURNAL; REVIEW; SEDIMENT; SOIL; BACTERIUM; MASS FRAGMENTOGRAPHY; METABOLISM; MICROBIOLOGY;

BACTERIA (MICROORGANISMS);

BACTERIA; BIOLOGICAL MARKERS; CARBON ISOTOPES; ENVIRONMENTAL MICROBIOLOGY; FATTY ACIDS; GAS CHROMATOGRAPHY-MASS SPECTROMETRY; PHOSPHOLIPIDS;

EID: 31944442600     PISSN: 09581669     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.copbio.2006.01.003     Document Type: Review

References (45)

1. R. Amann, W. Ludwig, and K.H. Schleifer Phylogenetic identification and in situ detection of individual microbial cells without cultivation Microbiol Rev 59 1995 143 149
2. H.T.S. Boschker, and J.J. Middelburg Stable isotopes and biomarkers in microbial ecology FEMS Microbiol Ecol 40 2002 85 95
3. L. Zelles Fatty acid patterns of phospholipids and lipopolysaccharides in the characterisation of microbial communities in soil: a review Biol Fertil Soil 29 1999 111 129
4. D.C. White, W.M. Davis, J.S. Nickels, J.D. King, and R.J. Bobbie Determination of the sedimentary microbial biomass by extractable lipid phosphate Oecologia 40 1979 51 62
5. W.-R. Abraham, C. Hesse, and O. Pelz Ratios of carbon isotopes in microbial lipids as an indicator of substrate usage Appl Environ Microbiol 64 1998 4202 4209
6. 3-ecosystem Plant Soil 219 2000 197 209
7. M.P. Waldrop, and M.K. Firestone Microbial community utilization of recalcitrant and simple carbon compounds: impact of oak woodland communities Oecologia 138 2004 275 284 This study revealed differences in the response of microbial communities in woodland and grassland habitats to complex and simple substrates.
8. 13C tracer with GC/MS and selected ion monitoring to demonstrate differences in the activities of bacterial and fungal communities.
9. 13C-labelling of biomarkers Nature 392 1998 801 805
10. 13C-methane incorporation into methanotroph lipids in a freshwater sediment FEMS Microbiol Ecol 29 1999 81 89
11. I.D. Bull, N.R. Parekh, G.H. Hall, P. Ineson, and R.P. Evershed Detection and classification of atmospheric methane oxidising bacteria in soil Nature 405 2000 175 178
12. 4 and compound specific stable isotope analyses Org Geochem 32 2001 359 364
13. Z.M. Crossman, F. Abraham, and R.P. Evershed Stable isotope pulse-chasing and compound specific stable carbon isotope analysis of phospholipid fatty acids to assess methane oxidizing bacterial populations in landfill cover soils Environ Sci Technol 38 2004 1359 1367 Reports the observed trends in type I to type II methanotrophs with soil depth, the results fit with known oxygen tolerances.
14. 13C labelling of bacterial lipids in the characterisation of ambient methane-oxidising bacteria in soils Org Geochem 36 2005 769 778 Chemotaxonomic assignments of methanotrophs based on complementary analyses of hopanoids and PLFAs.
15. 13C-labelling and GC/C/IRMS analysis of phospholipid fatty acids. Soil Biol Biochem: in press. Contributes to the debate on the impact of inorganic fertilisers on methanotrophs.
16. 13C-labelling of PLFAs for confirming active microbial populations.
17. M. Blumenberg, R. Seifert, K. Nauhaus, T. Pape, and W. Michaelis In vitro study of lipid biosynthesis in an anaerobically methane-oxidising microbial mat Appl Environ Microbiol 71 2005 4345 4351 Reports a range of bacterial biomarkers investigated in an anaerobic methane-oxidising microbial mat.
18. 4-labelling of hopanoids and sterols indicate symbiotic methanotrophs in peat-forming vegetation.
19. 13C-enriched compounds are present in a GC/C/IRMS analysis.
20. 2 pulse labelling system Rapid Commun Mass Spectrom 14 2000 1345 1350
21. D.E. Matthews, and J.M. Hayes Isotope-ratio-monitoring gas chromatography-mass spectrometry Anal Chem 50 1978 1465 1473
22. A. Barrie, J. Bricout, and J. Koziet Gas-chromatography - stable isotope ratio analysis at natural abundance levels Biomed Mass Spectrom 11 1984 439 447
23. 13C acetate Soil Biol Biochem 31 1999 1015 1020
24. H.T.S. Boschker, W. de Graaf, M. Koster, L.A. Meyer-Reil, and T.E. Cappenberg Bacterial populations and processes involved in acetate and propionate consumption in anoxic brackish sediment FEMS Microbiol Ecol 35 2001 97 103
25. 13C-labeling of phospholipid fatty acids (PLFA) and dissolved inorganic cabon: tracing acetate assimilation and mineralisation in a petroleum hydrocarbon-contaminated aquifer FEMS Microbiol Ecol 41 2002 259 267
26. S.A. Pombo, J. Kleikemper, M.H. Schroth, and J. Zeyer Field-scale isotopic labelling of phospholipid fatty acids from acetate degrading sulfate-reducing bacteria FEMS Microbiol Ecol 51 2005 197 201 Field-scale applications of acetate to investigate aquifer microbial biogeochemistry.
27. O. Pelz, A. Chatzinotas, N. Andersen, S.M. Bernasconi, C. Hesse, W.-R. Abraham, and J. Zeyer Use of isotopic and molecular techniques to link toluene degradation in denitrifying aquifer microcosms to specific microbial populations Arch Microbiol 175 2001 270 281
28. J.R. Hanson, J.L. Macalady, D. Harris, and K.M. Scow Linking toluene degradation with specific microbial populations in soil Appl Environ Microbiol 65 1999 5403 5408
29. 13C-enrichment of biomarker fatty acids J Microbiol Methods 55 2003 635 649 Carbon flow modelled along a bacterial food chain.
30. 2 pulse to investigate rhizosphere microbial carbon dynamics.
31. Y. Lu, J. Murase, A. Watanabe, A. Sugimoto, and M. Kimura Linking microbial community dynamics to rhizosphere carbon flow in a wetland rice soil FEMS Microbio. Ecol 48 2004 179 186
32. 2 pulse to investigate rhizosphere microbial carbon dynamics.
33. 13C-labeling study Limnol Oceanogr 45 2000 1224 1234
34. S.N. Dedysh, V.N. Khmelenina, N.E. Suzina, Y.A. Trotsenko, J.D. Semrau, W. Liesack, and J.M. Tiedje Methylocapsa acidiphila gen. nov., sp. nov., a novel methane-oxidizing bacteria and dinitrogen-fixing acidophilic bacterium from Sphagnum bog Int J Syst Evol Microbiol 52 2002 251 261
35. M. Rohmer, P. Bouvier-Nave, and G. Ourisson Distribution of hopanoid triterpenes in prokaryotes J Gen Microbiol 130 1984 1137 1150
36. D.L. Balkwill, F.R. Leach, J.T. Wilson, J.F. McNabb, and D.C. White Equivalence of microbial biomass measures based on membrane lipid and cell wall components, adenosine triphosphate, and direct counts in subsurface aquifer sediments Microbiol Ecol 16 1988 73 84
37. H. Lechevalier, and M.P. Lechevalier Chemotaxonomic use of lipids - an overview C. Ratledge S.G. Wilkinson Microbial Lipids vol 1 1988 Academic Press London 869 902
38. P.J. Brennan Mycobacterium and other actinomycetes C. Ratledge S.G. Wilkinson Microbial Lipids vol 1 1988 Academic Press London 204 298
39. S.K. Haack, H. Garchow, D.A. Odelson, L.J. Forney, and M.J. Klug Accuracy, reproducibility, and interpretation of fatty acid methyl ester profiles of model bacterial communities Appl Environ Microbiol 60 1994 2483 2493
40. R.M. Kroppenstedt The genus Nocardiopsis A. Balows H.G. Trüper M. Dworkin W. Harder K.H. Schleifer The Prokaryotes 2 1992 Springer Berlin 1139 1156
41. W.M. O'Leary, and S.G. Wilkinson Gram-positive bacteria C. Ratledge S.G. Wilkinson Microbial Lipids Vol 1 1988 Academic Press London 117 202
42. C. Ratledge, and S.G. Wilkinson Microbial Lipids 1988 Academic Press London
43. F.C. Dobbs, and J.B. Guckert Callianassa trilobata (crustacea: thalassinidea) influences abundance of meiofauna and biomass, composition, and physiologic state of microbial communities within its burrow Mar Ecol Prog Ser 45 1988 69 79
44. J.P. Bowman, L.I. Sly, P.D. Nichols, and A.C. Hayward Revised taxonomy of the methanotrophs: description of Methylobacter gen. nov., emendation of Methylococcus, validation of Methylosinus and Methylocystis species, and a proposal that the family Methylococcaceae includes only the group I methanotrophs Int J Syst Bacteriol 43 1993 735 753
45. D.M. Lösel Fungal lipids C. Ratledge S.G. Wilkinson Microbial Lipids vol 1 1988 Academic Press London 699 806