Comparison of chloroform fumigation-extraction, phospholipid fatty acid, and DNA methods to determine microbial biomass in forest humus

Soil Biology and Biochemistry

Volumn 36, Issue 3, 2004, Pages 529-532

  Leckie, Sara E ^a   Prescott, Cindy E ^a   Grayston, Susan J ^a,b   Neufeld, Josh D ^a   Mohn, William W ^a  

^a UNIVERSITY OF BRITISH COLUMBIA   (Canada)

^b SCOTTISH CROP RESEARCH INSTITUTE   (United Kingdom)

Author keywords

Chloroform fumigation extraction; DNA; Humus; Microbial biomass; Phospholipid fatty acid

Indexed keywords

BIOMASS; DNA; EXTRACTION; FATTY ACIDS; FUMIGATION; FUNGI; PHOSPHOLIPIDS;

MINERAL SOILS;

MICROBIOLOGY;

BIOMASS; HUMUS; MEASUREMENT METHOD; MICROBIAL COMMUNITY;

BACTERIA (MICROORGANISMS); FUNGI;

EID: 1242299661     PISSN: 00380717     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.soilbio.2003.10.014     Document Type: Article

References (23)

1. Alphei J., Bonkowski M., Scheu S. Application of the selective inhibition methods to determine bacterial: fungal ratios in three beechwood soils rich in carbon - optimization of inhibitor concentrations. Biology and Fertility of Soils. 19:1995;173-176.
2. Anderson T.-H., Joergensen R.G. Relationships between SIR and FE estimates of microbial biomass C in deciduous forest soils at different pH. Soil Biology and Biochemistry. 29:1997;1033-1042.
3. Bailey V.L., Peacock A.D., Smith J.L., Bolten H. Jr. Relationships between soil microbial biomass determined by chloroform fumigation-extraction, substrate-induced respiration, and phospholipid fatty acid analysis. Soil Biology and Biochemistry. 34:2002;1385-1389.
4. Bligh E.G., Dyer W.J. A rapid method of total lipid extraction and purification. Canadian Journal of Biochemistry and Physiology. 37:1959;911-917.
5. Federle T.W. Microbial distribution in soil-new techniques. Megusar F., Gantar M. Perspectives in Microbial Ecology. 1986;493-498 Slovene Society for Microbiology, Ljubljana.
6. Frostegård Å., Bååth E. The use of phospholipid fatty acid analysis to estimate bacterial and fungal biomass in soil. Biology and Fertility of Soils. 22:1996;59-65.
7. Frostegård Å., Tunlid A., Bååth E. Microbial biomass measured as total lipid phosphate in soils of different organic content. Journal of Microbiological Methods. 14:1991;151-163.
8. Frostegård Å., Bååth E., Tunlid A. Shifts in the structure of soil microbial communities in limed forests as revealed by phospholipid fatty acid analysis. Soil Biology and Biochemistry. 25:1993;723-730.
9. Frostegård Å., Courtois S., Ramisse V., Clerc S., Bernillon D., Le Gall F., Jeannin P., Nesme X., Simonet P. Quantification of bias related to the extraction of DNA directly from soils. Applied and Environmental Microbiology. 65:1999;5409-5420.
10. Griffiths B.S., Diaz-Raviña M., Ritz K., McNicol J.W., Ebblewhite N., Bååth E. Community hybridization and %G+C profiles of microbial communities from heavy metal polluted soils. FEMS Microbiology Ecology. 24:1997;103-112.
11. Harris D. Analyses of DNA extracted from microbial communities. Ritz K., Dighton J., Giller K.E. Beyond the Biomass: Compositional and Functional Analysis of Soil Microbial Communities. 1994;111-118 Wiley, Chichester.
12. Lechevalier H., Lechevalier M.P. Chemotaxonomic use of lipids - an overview. Ratledge C., Wilkinson S.G. Microbial Lipids. 1988;869-902 Academic Press, London.
13. Leckie, S.E., Prescott, C.E., Grayston, S.J., Neufeld, J.D., Mohn, W.W., in press. Characterization of humus microbial communities in adjacent forest types that differ in nitrogen availability. Microbial Ecology.
14. Marstorp H., Guan X., Gong P. Relationship between dsDNA, chloroform labile C and ergosterol in soils of different organic matter contents and pH. Soil Biology and Biochemistry. 32:2000;879-882.
15. Martens R. Current methods for measuring microbial biomas C in soil: potentials and limitations. Biology and Fertility of Soils. 19:1995;87-99.
16. Martin-Laurent F., Philippot L., Hallet S., Chaussod R., Germon J.C., Soulas G., Catroux G. DNA extraction from soils: old bias for new microbial diversity analysis methods. Applied and Environmental Microbiology. 67:2001;2354-2359.
17. Miller D.N., Bryant J.E., Madsen E.L., Ghiorse W.C. Evaluation and optimization of DNA extraction and purification procedures for soil and sediment samples. Applied and Environmental Microbiology. 65:1999;4715-4724.
18. Prescott C.E., Weetman G.F. Salal-Cedar-Hemlock Integrated Research Program: A Synthesis. 1994;Faculty of Forestry, University of British Columbia, Vancouver, BC.
19. ec-factor. Soil Biology and Biochemistry. 22:1990;301-307.
20. Tate K.R., Ross D.J., Feltham C.W. A direct extraction method to estimate soil microbial C: effects of experimental variables and some different calibration procedures. Soil Biology and Biochemistry. 20:1988;329-335.
21. Vance E.D., Brookes P.C., Jenkinson D.S. An extraction method for measuring soil microbial biomass C. Soil Biology and Biochemistry. 19:1987;703-707.
22. White D.C., Davis W.M., Nickels J.S., King J.D., Bobbie R.J. Determination of the sedimentary microbial biomass by extractable lipid phosphate. Oecologia. 40:1979;51-62.
23. Zhou J., Bruns M.A., Tiedje J.M. DNA recovery from soils of diverse composition. Applied and Environmental Microbiology. 62:1996;316-322.