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Volumn 71, Issue 3, 2005, Pages 1501-1506

Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness

Author keywords

[No Author keywords available]

Indexed keywords

ALGORITHMS; BACTERIA; COMPUTER PROGRAMMING; GENES; MICROBIOLOGY; RNA; SOILS; STATISTICAL METHODS;

EID: 15444362001     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.71.3.1501-1506.2005     Document Type: Article
Times cited : (2152)

References (31)
  • 1
    • 0029025721 scopus 로고
    • Bacterial community structures of phosphate-removing and non-phosphate-removing activated sludges from sequencing batch reactors
    • Bond, P. L., P. Hugenholtz, J. Keller, and L. L. Blackall. 1995. Bacterial community structures of phosphate-removing and non-phosphate-removing activated sludges from sequencing batch reactors. Appl. Environ. Microbiol. 61:1910-1916.
    • (1995) Appl. Environ. Microbiol. , vol.61 , pp. 1910-1916
    • Bond, P.L.1    Hugenholtz, P.2    Keller, J.3    Blackall, L.L.4
  • 2
    • 0030860238 scopus 로고    scopus 로고
    • Molecular microbial diversity in soils from eastern Amazonia: Evidence for unusual microorganisms and microbial population shifts associated with deforestation
    • Borneman, J., and E. W. Triplett. 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.
    • (1997) Appl. Environ. Microbiol. , vol.63 , pp. 2647-2653
    • Borneman, J.1    Triplett, E.W.2
  • 3
    • 0001155567 scopus 로고
    • Robust estimation of population size when capture probabilities vary among animals
    • Burnham, K. P., and W. S. Overton. 1979. Robust estimation of population size when capture probabilities vary among animals. Ecology 60:927-936.
    • (1979) Ecology , vol.60 , pp. 927-936
    • Burnham, K.P.1    Overton, W.S.2
  • 4
    • 0001463548 scopus 로고
    • Non-parametric estimation of the number of classes in a population
    • Chao, A. 1984. Non-parametric estimation of the number of classes in a population. Scand. J. Stat. 11:265-270.
    • (1984) Scand. J. Stat. , vol.11 , pp. 265-270
    • Chao, A.1
  • 5
    • 84945495487 scopus 로고
    • Estimating the number of classes via sample coverage
    • Chao, A., and S. M. Lee. 1992. Estimating the number of classes via sample coverage. J. Am. Stat. Assoc. 87:210-217.
    • (1992) J. Am. Stat. Assoc. , vol.87 , pp. 210-217
    • Chao, A.1    Lee, S.M.2
  • 6
    • 77957888370 scopus 로고
    • Stopping rules and estimation for recapture debugging with unequal failure rates
    • Chao, A., M. C. Ma, and M. C. K. Yang. 1993. Stopping rules and estimation for recapture debugging with unequal failure rates. Biometrika 80:193-201.
    • (1993) Biometrika , vol.80 , pp. 193-201
    • Chao, A.1    Ma, M.C.2    Yang, M.C.K.3
  • 8
    • 0344172842 scopus 로고    scopus 로고
    • The domain-specific probe EUB338 is insufficient for the detection of all bacteria: Development and evaluation of a more comprehensive probe set
    • Daims, H., A. Bruhl, R. Amann, K. H. Schleifer, and M. Wagner. 1999. The domain-specific probe EUB338 is insufficient for the detection of all bacteria: development and evaluation of a more comprehensive probe set. Syst. Appl. Microbiol. 22:434-444.
    • (1999) Syst. Appl. Microbiol. , vol.22 , pp. 434-444
    • Daims, H.1    Bruhl, A.2    Amann, R.3    Schleifer, K.H.4    Wagner, M.5
  • 9
    • 0032914126 scopus 로고    scopus 로고
    • Levels of bacterial community diversity in four arid soils compared by cultivation and 16S rRNA gene cloning
    • Dunbar, J., S. Takala, S. M. Barns, J. A. Davis, and C. R. Kuske. 1999. Levels of bacterial community diversity in four arid soils compared by cultivation and 16S rRNA gene cloning. Appl. Environ. Microbiol. 65:1662-1669.
    • (1999) Appl. Environ. Microbiol. , vol.65 , pp. 1662-1669
    • Dunbar, J.1    Takala, S.2    Barns, S.M.3    Davis, J.A.4    Kuske, C.R.5
  • 11
    • 0032953638 scopus 로고    scopus 로고
    • Emended description of the order Chlamydiales, proposal of Parachlamydiaceae fam. nov. and Simkaniaceae fam. nov., each containing one monotypic genus, revised taxonomy of the family Chlamydiaceae, including a new genus and five new species, and standards for the identification of organisms
    • Everett, K. D. E., R. M. Bush, and A. A. Andersen. 1999. Emended description of the order Chlamydiales, proposal of Parachlamydiaceae fam. nov. and Simkaniaceae fam. nov., each containing one monotypic genus, revised taxonomy of the family Chlamydiaceae, including a new genus and five new species, and standards for the identification of organisms. Int. J. Syst. Bacteriol. 49:415-440.
    • (1999) Int. J. Syst. Bacteriol. , vol.49 , pp. 415-440
    • Everett, K.D.E.1    Bush, R.M.2    Andersen, A.A.3
  • 12
    • 0030762263 scopus 로고    scopus 로고
    • Ribosome analysis reveals prominent activity of an uncultured member of the class Actinobacteria in grassland soils
    • Felske, A., H. Rheims, A. Wolterink, E. Stackebrandt, and A. D. L. Akkermans. 1997. Ribosome analysis reveals prominent activity of an uncultured member of the class Actinobacteria in grassland soils. Microbiology 143: 2983-2989.
    • (1997) Microbiology , vol.143 , pp. 2983-2989
    • Felske, A.1    Rheims, H.2    Wolterink, A.3    Stackebrandt, E.4    Akkermans, A.D.L.5
  • 13
    • 0031662188 scopus 로고    scopus 로고
    • Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity
    • Hugenholtz, P., B. M. Goebel, and N. R. Pace. 1998. Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity. J. Bacteriol. 180:4765-4774.
    • (1998) J. Bacteriol. , vol.180 , pp. 4765-4774
    • Hugenholtz, P.1    Goebel, B.M.2    Pace, N.R.3
  • 14
    • 0035487318 scopus 로고    scopus 로고
    • Counting the uncountable: Statistical approaches to estimating microbial diversity
    • Hughes, J. B., J. J. Hellmann, T. H. Ricketts, and B. J. M. Bohannan. 2001. Counting the uncountable: statistical approaches to estimating microbial diversity. Appl. Environ. Microbiol. 67:4399-4406.
    • (2001) Appl. Environ. Microbiol. , vol.67 , pp. 4399-4406
    • Hughes, J.B.1    Hellmann, J.J.2    Ricketts, T.H.3    Bohannan, B.J.M.4
  • 15
    • 0034074410 scopus 로고    scopus 로고
    • RNA operon copy number reflects ecological strategies of bacteria
    • Klappenbach, J. A., J. M. Dunbar, and T. M. Schmidt. 2000. rRNA operon copy number reflects ecological strategies of bacteria. Appl. Environ. Microbiol. 66:1328-1333.
    • (2000) Appl. Environ. Microbiol. , vol.66 , pp. 1328-1333
    • Klappenbach, J.A.1    Dunbar, J.M.2    Schmidt, T.M.3
  • 16
    • 0036202035 scopus 로고    scopus 로고
    • Population genetic structure of Legionella pneumophila inferred from RNA polymerase gene (rpoB) and DotA gene (dotA) sequences
    • Ko, K. S., H. K. Lee, M. Y. Park, M. S. Park, K. H. Lee, S. Y. Woo, Y. J. Yun, and Y. H. Kook. 2002. Population genetic structure of Legionella pneumophila inferred from RNA polymerase gene (rpoB) and DotA gene (dotA) sequences. J. Bacteriol. 184:2123-2130.
    • (2002) J. Bacteriol. , vol.184 , pp. 2123-2130
    • Ko, K.S.1    Lee, H.K.2    Park, M.Y.3    Park, M.S.4    Lee, K.H.5    Woo, S.Y.6    Yun, Y.J.7    Kook, Y.H.8
  • 18
    • 0030661563 scopus 로고    scopus 로고
    • Characterization of microbial diversity by determining terminal restriction fragment length polymorphisms of genes encoding 16S rRNA
    • Liu, W. T., T. L. Marsh, H. Cheng, and L. J. Forney. 1997. Characterization of microbial diversity by determining terminal restriction fragment length polymorphisms of genes encoding 16S rRNA. Appl. Environ. Microbiol. 63:4516-4522.
    • (1997) Appl. Environ. Microbiol. , vol.63 , pp. 4516-4522
    • Liu, W.T.1    Marsh, T.L.2    Cheng, H.3    Forney, L.J.4
  • 20
    • 0036324293 scopus 로고    scopus 로고
    • Phylogenetic approaches for describing and comparing the diversity of microbial communities
    • Martin, A. P. 2002. Phylogenetic approaches for describing and comparing the diversity of microbial communities. Appl. Environ. Microbiol. 68:3673-3682.
    • (2002) Appl. Environ. Microbiol. , vol.68 , pp. 3673-3682
    • Martin, A.P.1
  • 21
    • 0032916067 scopus 로고    scopus 로고
    • Molecular analysis of bacterial community structure and diversity in unimproved and improved upland grass pastures
    • McCaig, A. E., L. A. Glover, and J. I. Prosser. 1999. Molecular analysis of bacterial community structure and diversity in unimproved and improved upland grass pastures. Appl. Environ. Microbiol. 65:1721-1730.
    • (1999) Appl. Environ. Microbiol. , vol.65 , pp. 1721-1730
    • McCaig, A.E.1    Glover, L.A.2    Prosser, J.I.3
  • 22
    • 0029902203 scopus 로고    scopus 로고
    • A computer-simulated restriction fragment length polymorphism analysis of bacterial small-subunit rRNA genes: Efficacy of selected tetrameric restriction enzymes for studies of microbial diversity in nature
    • Moyer, C. L., J. M. Tiedje, F. C. Dobbs, and D. M. Karl. 1996. A computer-simulated restriction fragment length polymorphism analysis of bacterial small-subunit rRNA genes: efficacy of selected tetrameric restriction enzymes for studies of microbial diversity in nature. Appl. Environ. Microbiol. 62:2501-2507.
    • (1996) Appl. Environ. Microbiol. , vol.62 , pp. 2501-2507
    • Moyer, C.L.1    Tiedje, J.M.2    Dobbs, F.C.3    Karl, D.M.4
  • 24
    • 18744382447 scopus 로고    scopus 로고
    • Cultivation of globally distributed soil bacteria from phylogenetic lineages previously only detected in cultivation-independent surveys
    • Sait, M., P. Hugenholtz, and P. H. Janssen. 2002. Cultivation of globally distributed soil bacteria from phylogenetic lineages previously only detected in cultivation-independent surveys. Environ. Microbiol. 4:654-666.
    • (2002) Environ. Microbiol. , vol.4 , pp. 654-666
    • Sait, M.1    Hugenholtz, P.2    Janssen, P.H.3
  • 25
    • 4644275463 scopus 로고    scopus 로고
    • Integration of microbial ecology and statistics: A test to compare gene libraries
    • Schloss, P. D., B. R. Larget, and J. Handelsman. 2003. Integration of microbial ecology and statistics: a test to compare gene libraries. Appl. Environ. Microbiol. 70:5485-5492.
    • (2003) Appl. Environ. Microbiol. , vol.70 , pp. 5485-5492
    • Schloss, P.D.1    Larget, B.R.2    Handelsman, J.3
  • 26
    • 0003371957 scopus 로고    scopus 로고
    • FastGroup: A program to dereplicate libraries of 16S rDNA sequences
    • Seguritan, V., and F. Rohwer. 2001. FastGroup: a program to dereplicate libraries of 16S rDNA sequences. BMC Bioinformatics 2:9.
    • (2001) BMC Bioinformatics , vol.2 , pp. 9
    • Seguritan, V.1    Rohwer, F.2
  • 27
    • 0035463837 scopus 로고    scopus 로고
    • Quantitative comparisons of 16S rRNA gene sequence libraries from environmental samples
    • Singleton, D. R., M. A. Furlong, S. L. Rathbun, and W. B. Whitman. 2001. Quantitative comparisons of 16S rRNA gene sequence libraries from environmental samples. Appl. Environ. Microbiol. 67:4374-4376.
    • (2001) Appl. Environ. Microbiol. , vol.67 , pp. 4374-4376
    • Singleton, D.R.1    Furlong, M.A.2    Rathbun, S.L.3    Whitman, W.B.4
  • 28
    • 0021595487 scopus 로고
    • Nonparametric estimation of species richness
    • Smith, E. P., and G. van Belle. 1984. Nonparametric estimation of species richness. Biometrics 40:119-129.
    • (1984) Biometrics , vol.40 , pp. 119-129
    • Smith, E.P.1    Van Belle, G.2
  • 29
    • 0028028182 scopus 로고
    • A place for DNA-DNA reassociation and 16S rRNA sequence-analysis in the present species definition in bacteriology
    • Stackebrandt, E., and B. M. Goebel. 1994. A place for DNA-DNA reassociation and 16S rRNA sequence-analysis in the present species definition in bacteriology. Int. J. Syst. Bacteriol. 44:846-849.
    • (1994) Int. J. Syst. Bacteriol. , vol.44 , pp. 846-849
    • Stackebrandt, E.1    Goebel, B.M.2


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