The use of phospholipid fatty acids to determine microbial community structure

  • Robert H. Findlay

Abstract

The most difficult task facing microbial ecologists is the quantitative description of microbial communities. This is due to the fact that, unlike higher organisms, there is little correlation between the observable structure of a microorganism and its ecological function. Hence, the tried and true method of plant and animal ecologists, careful visual observation, is often of little value when applied to the problem of describing microbial communities. Indeed, the vast majority of microbial diversity is best described in terms of their varied metabolic functions. Unfortunately, measures of metabolic processes, while yielding important ecological information, rarely yield estimates of the biomass of microorganisms effecting the measured rate. Classical methods of isolation and identification, as well as many modern molecular methods, are highly selective — that is they fail to detect most organisms in a given environment. Only two accepted methods overcome the difficulty of selectivity and provide a relatively unbiased view of the structure of complex microbial communities. These are analysis of microbial populations using ribosomal RNA (or its corresponding DNA sequences) and phospholipid fatty acid analysis. Both techniques have advantages and disadvantages and should not be viewed as competing, rather, as complementary. Community analysis using rRNA (or rDNA) sequencing can commonly detect and identify community members with a high degree of specificity (to species and even strains), as well as, detect and suggest phylogenetic affinities of as yet uncultured organisms.

Keywords

Microbial Community Microbial Community Structure Phospholipid Fatty Acid Fatty Acid Ethyl Ester PLFA Profile 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

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References

  1. 1.
    Applegate BM, Matrubutham U, Sanseverino J, Sayler GS (1995) Biodegradation genes as marker genes in microbial ecosystems. In: Akkermans ADL, Van Elsas JD, De Bruijn FJ (eds) Molecular Microbial Ecology Manual, pp. Ch.6.1.8.. Kluwer Academic Publishers, Dordrecht.Google Scholar
  2. 2.
    Baugh PJ (ed) (1993) Gas Chromatography: A Practical Approach. Oxford University Press, New York.Google Scholar
  3. 3.
    Bligh EG, Dyer WJ (1959) A rapid method of total lipid extraction and purification. Can J Biochem Physiol 31: 911–917.CrossRefGoogle Scholar
  4. 4.
    Bobbie RJ, White DC (1980) Characterization of benthic microbial community structure by high-resolution gas chromatography of fatty acid methyl esters. Appl Environ Microbiol 39: 1212–1222.Google Scholar
  5. 5.
    Brinch-Iversen J, King GM (1990) Effects of substrate concentration, growth state, and oxygen availability on relationships among bacterial carbon, nitrogen and phospholipid phosphorus content. FEMS Microbiol Ecol 74: 345–356.Google Scholar
  6. 6.
    Cooksey KE, Guckert JB, Williams SA, Callis PR (1987) Fluorometric determination of the neutral lipid content of microalgal cells using Nile Red. J Microbiol Meth 6: 333–345.CrossRefGoogle Scholar
  7. 7.
    Dobbs FC, Findlay RH (1993) Detection of microbial-community response to disturbance. In: Kemp PF, Sherr BF, Sherr EB, Cole JJ (eds) Current Methods in Aquatic Microbial Ecology, pp. 347–358. Lewis Publishers, Boca Raton.Google Scholar
  8. 8.
    Dobbs FC, Gucker JB (1988) 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: 69–79.CrossRefGoogle Scholar
  9. 9.
    Federle TW, White DC (1982) Preservation of estuarine sediments for lipid analysis of biomass and community structure of microbiota. Appl Environ Microbiol 44: 1166–1169.Google Scholar
  10. 10.
    Findlay RH, DeLong EF. Unpublished data.Google Scholar
  11. 11.
    Findlay RH, Dobbs FC (1993) Quantitative description of microbial communities using lipid analysis. In: Kemp PF, Sherr BF, Sherr EB, Cole JJ (eds) Current Methods in Aquatic Microbial Ecology, pp. 271–284. Lewis Publishers, Boca Raton.Google Scholar
  12. 12.
    Findlay RH, King GM, Watling L (1989) Efficacy of phospholipid analysis in determining microbial biomass in sediments. Appl Environ Microbiol 54: 2888–2893.Google Scholar
  13. 13.
    Findlay RH, Trexler MB, Guckert JB, White DC (1990) Laboratory study of disturbance in marine sediments: response of a microbial community. Mar Ecol Prog Ser 62: 121–133.CrossRefGoogle Scholar
  14. 14.
    Findlay, RH, Watling L, Mayer LM (1995) Environmental impact of salmon net-pen culture on Maine marine benthic communities: A case study. Estuaries 18: 145–179.CrossRefGoogle Scholar
  15. 15.
    Guckert JB, Cooksey KE (1990) Triglyceride accumulation and fatty acid profile changes in Chlorella (Chlorophyta) during high pH-induced cell cycle inhibition. J Phycol 26: 72–79.CrossRefGoogle Scholar
  16. 16.
    Kates M (1986) Techniques of Lipidology, 2nd ed. Elsevier Science Publishing Co., Inc., New York.Google Scholar
  17. 17.
    Kieft TL, Ringelberg DB, White DC (1994) Changes in ester-linked phospholipid fatty acid profiles of subsurface bacteria during starvation and desiccation in a porous medium. Appl Environ Microbiol 60: 3292–3299.Google Scholar
  18. 18.
    Tunblad-Johansson I, Adler L (1987) Effects of sodium chloride concentration on phospholipid fatty acid composition of yeasts differing in osmotolerance. FEMS Microbiol Lett 43: 275–278.CrossRefGoogle Scholar
  19. 19.
    White, DC (1983) Analysis of microorganisms in terms of quantity and activity in natural environments. In: Slater JH, Whittenbury R, Wimpenny JWT (eds) Microbes in Their Natural Environments, Symposium 34. pp. 37–65. Cambridge University Press, Cambridge.Google Scholar
  20. 20.
    White DC, Davis WM, Nickels JS, King JD, Bobbie RJ (1979) Determination of the sedimentary microbial biomass by extractable lipid phosphate. Oecologia 40: 51–62.CrossRefGoogle Scholar
  21. 21.
    Wood BJB (1988) Lipids of algae and protozoa. In: Ratledge C, Wilkinson SG (eds) Microbial Lipids 1, p. 807. Harcourt Brace Jovanovich, New York.Google Scholar

Copyright information

© Springer Science+Business Media Dordrecht 1996

Authors and Affiliations

  • Robert H. Findlay
    • 1
  1. 1.Department of MicrobiologyMiami UniversityOxfordUSA

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