Dilution/extinction of community phenotypic characters to estimate relative structural diversity in mixed communities

FEMS Microbiology Ecology

Volumn 30, Issue 4, 1999, Pages 333-343

  Garland, Jay L ^a   Lehman, R Michael ^b  

^a DYNAMAC CORPORATION   (United States)

^b IDAHO NATIONAL LABORATORY   (United States)

Author keywords

Diversity; Functional richness; Microbial community

Indexed keywords

ASSESSMENT METHOD; DILUTION; FUNCTIONAL ROLE; MICROBIAL COMMUNITY; PHENOTYPE; SPECIES DIVERSITY;

AGRICULTURE; ARTICLE; CELL DENSITY; MOLECULAR INTERACTION; NONHUMAN; PHENOTYPE; PREDICTION; PRIORITY JOURNAL; SOIL MICROFLORA; SPECIES DIFFERENCE; STRUCTURE ANALYSIS;

EID: 0032724937     PISSN: 01686496     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0168-6496(99)00072-0     Document Type: Article

References (32)

1. Tiedje, J.M. (1995) Approaches to the comprehensive evaluation of prokaryotic diversity of a habitat. In: Microbial Diversity and Ecosystem Function (Allsopp, D., Colwell, R.R. and Hawksworth, D.L., Eds.), pp. 73-87. CAB International, Wallingford.
2. Colwell, R.R., Clayton, R.A., Ortiz-Conde, B.A., Jacobs, D. and Russek-Cohen, E. (1995) The microbial species concept and biodiversity. In: Microbial Diversity and Ecosystem Function (Allsopp, D., Colwell, R.R. and Hawksworth, D.L., Eds.), pp. 3-15. CAB International, Wallingford.
3. Colwell R.R. Microbial diversity: the importance of exploration and conservation. J. Ind. Microbiol. Biotechnol. 18:1997;302-307.
4. Hammond, P.M. (1995) Described and estimated species numbers: an objective assessment of current knowledge. In: Microbial Diversity and Ecosystem Function (Allsopp, D., Colwell, R.R. and Hawksworth, D.L., Eds.), pp. 29-71. CAB International, Wallingford.
5. Hugenholtz P., Pace N.R. Identifying microbial diversity in the natural environment: a molecular phylogenetic approach. Tibtech. 14:1996;190-197.
6. Watve M.G., Gangal R.M. Problems in measuring bacterial diversity and a possible solution. Appl. Environ. Microbiol. 62:1996;4299-4301.
7. Istock C.A., Bell J.A., Ferguson N., Istock N.L. Bacterial species and evolution: theoretical and practical perspectives. J. Ind. Microbiol. 17:1996;137-150.
8. Van Damme P., Pot B., Gillis M., De Vos P., Kersters K., Swings J. Polyphasic taxonomy, a consensus approach to bacterial systematics. Microbiol. Rev. 60:1996;407-438.
9. White D.C., Stair J.O., Ringelberg D.B. Quantitative comparisons of in situ microbial diversity by signature biomarker analysis. J. Ind. Microbiol. 17:1996;185-196.
10. Torsvik V., Sorheim R., Goksoyr J. Total bacterial diversity in soil and sediment communities - a review. J. Ind. Microbiol. 17:1996;170-178.
11. Head I.M., Saunders J.R., Pickup R.W. Microbial evolution, diversity and ecology: a decade of ribosomal RNA analysis of uncultivated microorganisms. Microb. Ecol. 35:1998;1-21.
12. Ward, N., Rainey, F.A., Goebel, B. and Stackebrandt, E. (1995) Identifying and culturing the 'unculturables': a challenge for microbiologists. In: Microbial Diversity and Ecosystem Function (Allsopp, D., Colwell, R.R. and Hawksworth, D.L., Eds.), pp. 89-110. CAB International, Wallingford.
13. Mills A.L., Mallory L.M. The community structure of sessile heterotrophic bacteria stressed by acid mine drainage. Microb. Ecol. 14:1987;219-232.
14. Margalef R. On certain unifying principles in ecology. Am. Nat. 97:1963;357-374.
15. Atlas R.M., Horowitz A., Krichevsky M., Bej A.K. Response of microbial populations to environmental disturbance. Microb. Ecol. 22:1991;249-256.
16. Whittaker R.H. A consideration of climax theory; the climax as a population and pattern. Ecol. Monogr. 23:1953;41-78.
17. Pickett S.T.A. Succession: an evolutionary interpretation. Am. Nat. 110:1976;107-119.
18. Margalef, R. (1968) Perspectives in Ecological Theory. University Of Chicago Press, Chicago, IL.
19. Torsvik, V., Goksoyr, J., Daae, F.L., Sorheim, R., Michalsen, J. and Salte, K. (1993) Diversity of microbial communities determined by DNA reassociation technique. In: Trends in Microbial Ecology (Guerrero, R. and Pedros-Alio, C., Eds.), pp. 375-378. Spanish Society for Microbiology, Barcelona.
20. Atlas, R.M. (1984) Diversity of microbial communities. In: Advances in Microbial Ecology, Vol. 7 (Marshall, K.C., Ed.), pp. 1-47. Plenum Press, New York.
21. Wheeler R.M., Sager J.C., Mackowiak C.L., Stutte G.W., Yorio N.C., Ruffe L.M., Berry W.L. Nutrient, acid, and water budgets of hydroponically grown crops. Acta Hort. 481:1999;655-661.
22. Morales A., Garland J.L., Lim D.V. Survival of potentially pathogenic human-associated bacteria in the rhizosphere of hydroponically-grown wheat. FEMS Microbiol. Ecol. 20:1996;155-162.
23. Lehman R.M., Colwell F.S., Garland J.L. Physiological profiling of indigenous aquatic microbial communities to determine toxic effects of metals. Environ. Toxicol. Chem. 16:1997;2232-2241.
24. Hobbie J.E., Daley R.J., Jasper S. Use of Nuclepore filters for counting bacteria by fluorescence microscopy. Appl. Environ. Microbiol. 33:1977;1225-1228.
25. Garland J.L. Analysis and interpretation of community-level physiological profiles in microbial ecology. FEMS Microbiol. Ecol. 24:1997;289-300.
26. Konopka A., Oliver L., Turco R.F. The use of carbon substrate utilization patterns in environmental and ecological microbiology. Microb. Ecol. 35:1998;103-115.
27. Smalla K., Wachtendorf U., Heuer H., Liu W.-T., Forney L. Analysis of BIOLOG GN substrate utilization patterns by microbial communities. Appl. Environ. Microbiol. 64:1998;1220-1225.
28. Winding, A. and Hendrickson, N.B. (1997) Biolog assay for metabolic fingerprints of soil bacteria: incubation time and sensitivity. In: Microbial Communities: Functional Versus Structural Approaches (Insam, H. and Rangger, A., Eds.), pp. 195-205. Springer, Heidelberg.
29. Garland, J.L., Cook, K.L., Loader, C.A. and Hungate, B.A. (1997) The influence of microbial community structure and function on community-level physiological profiles. In: Microbial Communities: Functional Versus Structural Approaches (Insam, H. and Rangger, A., Eds), pp. 171-183. Springer, Heidelberg.
30. Zak J.C., Willig M.R., Moorhead D.L., Wildman H.G. Functional diversity of microbial communities: a quantitative approach. Soil. Biol. Biochem. 26:1994;1101-1108.
31. Staddon W.J., Duchesne L.C., Trevors J.C. Microbial diversity and community structure of postdisturbance forest soils as determined by sole-carbon-source utilization patterns. Microb. Ecol. 34:1997;125-130.
32. Klug, M.J. and Tiedje, J.M. (1993) Response of microbial communities to changing environmental conditions: chemical and physiological approaches. In: Trends in Microbial Ecology (Guerrero, R. and Pedros-Alio, C., Eds.), pp. 371-374. Spanish Society for Microbiology, Barcelona.