Estimating bacterial diversity from clone libraries with flat rank abundance distributions

Environmental Microbiology

Volumn 6, Issue 10, 2004, Pages 1081-1085

  Lunn, Mary ^a   Sloan, William T ^b   Curtis, Thomas P ^c  

^a UNIVERSITY OF OXFORD   (United Kingdom)

^b UNIVERSITY OF GLASGOW   (United Kingdom)

^c NEWCASTLE UNIVERSITY   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BACTERIUM; BIODIVERSITY; BRAZIL; COMPARATIVE STUDY; GENE LIBRARY; GENETICS; MICROBIOLOGY; SPECIES DIFFERENCE; STATISTICAL ANALYSIS; THEORETICAL MODEL;

BACTERIA; BIODIVERSITY; BRAZIL; DATA INTERPRETATION, STATISTICAL; GENE LIBRARY; MODELS, THEORETICAL; SOIL MICROBIOLOGY; SPECIES SPECIFICITY;

BACTERIA (MICROORGANISMS);

EID: 4644290878     PISSN: 14622912     EISSN: None     Source Type: Journal    
DOI: 10.1111/j.1462-2920.2004.00641.x     Document Type: Article

References (20)

1. Bohannan, B.J.M., and Hughes, J. (2003) New approaches to analyzing microbial biodiversity data. Current Opinion Microbiol 6: 282-287.
2. Borneman, J., and Triplett, E.W. (1997) Molecular microbial diversity in soils from eastern Amazonia: Evidence for unusual microorganisms and microbial population shifts associated with deforestation. Appl Environ Microbiol 63: 2647-2653.
3. Bunday, B.D. (ed.). (1984) Basic Optimisation Methods. London, UK: Edward Arnold.
4. Chao, A. (1984) Nonparametric-estimation of the number of classes in a population. Scand J Statistics 11: 265-270.
5. Chao, A. (1987) Estimating the population-size for capture recapture data with unequal catchability. Biometrics 43: 783-791.
6. Cho, J.C., and Tiedje, J.M. (2000) Biogeography and degree of endemicity of fluorescent Pseudomonas strains in soil. Appl Environ Microbiol 66: 5448-5456.
7. Curtis, T.P., Sloan, W.T., and Scanneil, J.W. (2002) Estimating prokaryotic diversity and its limits. Proc Natl Acad Sci USA 99: 10494-10499.
8. Dunbar, J., Barns, S.M., Ticknor, L.O., and Kuske, C.R. (2002) Empirical and theoretical bacterial diversity in four Arizona soils. Appl Environ Microbiol 68: 3035-3045.
9. Fernandez, A., Huang, S.Y., Seston, S., Xing, J., Hickey, R., Griddle, C., and Tiedje, J. (1999) How stable is stable? Function versus community composition. Appl Environ Microbiol 65: 3697-3704.
10. Finlay, B.J. (2002) Global dispersal of free-living microbial eukaryote species. Science 296: 1061-1063.
11. Finlay, B.J., and Clarke, K.J. (1999) Ubiquitous dispersal of microbial species. Nature 400: 828.
12. Hagstrom, A., Pommier, T., Rohwer, F., Simu, K., Stolte, W., Svensson, D., and Zweifel, U.L. (2002) Use of 16S ribosomal DNA for delineation of marine bacterioplankton species. Appl Environ Microbiol 68: 3628-3633.
13. Harris, B. (1959) Determining bounds on integrals with applications to cataloging problems. Ann Mathemat Statistics 30: 521-548.
14. Hubbell, S.P. (2001) The Unified Neutral Theory of Biodiversity and Biogeography. Princeton, NJ: Princeton University Press.
15. Hughes, J.B., Hellmann, J.J., Ricketts, T.H., and Bohannan, B.J.M. (2001) Counting the uncountable: Statistical approaches to estimating microbial diversity. Appl Environ Microbiol 67: 4399-4406.
16. Narang, R., and Dunbar, J. (2003) Modeling bacterial species abundance from small community surveys. Microbial Ecology Online.
17. Orlitsky, A., Santhanam, N.P., and Zhang, J.N. (2003) Always good Turing: Asymptotically optimal probability estimation. Science 302: 427-431.
18. Torsvik, V., Goksoyr, J., and Daae, F.L. (1990) High diversity in DNA of soil bacteria. Appl Environ Microbiol 56: 782-787.
19. Torsvik, V., Ovreas, L., and Thingstad, T.F. (2002) Prokaryotic diversity - magnitude, dynamics, and controlling factors. Science 296: 1064-1066.
20. Zhou, J.Z., Xia, B.C., Treves, D.S., Wu, L.Y., Marsh, T.L., O'Neill, R.V., et al. (2002) Spatial and resource factors influencing high microbial diversity in soil. Appl Environ Microbiol 68: 326-334.