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Volumn 7, Issue 3, 2004, Pages 221-226

Prokaryotic diversity and its limits: Microbial community structure in nature and implications for microbial ecology

Author keywords

amplified rDNA restriction analysis; ARDRA; single strand conformation polymorphism; SSCP

Indexed keywords

BIOREACTOR; COMMUNITY STRUCTURE; EURYARCHAEOTA; GENE LIBRARY; GENOME; HUMAN; INTESTINE; INTESTINE FLORA; MICROBIAL DIVERSITY; MICROFLORA; MOLECULAR ECOLOGY; NONHUMAN; POPULATION ABUNDANCE; PREDICTION; PROKARYOTE; RESERVOIR; REVIEW; SAMPLE SIZE; WASTE WATER MANAGEMENT;

EID: 2942566096     PISSN: 13695274     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.mib.2004.04.010     Document Type: Review
Times cited : (241)

References (40)
  • 1
    • 0003101854 scopus 로고
    • The study of microorganisms in situ: Progress and problems
    • Edited by Fletcher M, Gray TRG and Jones JG. Cambridge University Press;
    • Brock T: The study of microorganisms in situ: progress and problems. In Ecology of Microbial Communities. Edited by Fletcher M, Gray TRG and Jones JG. Cambridge University Press; 1987.
    • (1987) Ecology of Microbial Communities
    • Brock, T.1
  • 4
    • 0037052531 scopus 로고    scopus 로고
    • Global dispersal of free-living microbial eukaryote species
    • Finlay B.J. Global dispersal of free-living microbial eukaryote species. Science. 296:2002;1061-1063
    • (2002) Science , vol.296 , pp. 1061-1063
    • Finlay, B.J.1
  • 6
    • 0036269049 scopus 로고    scopus 로고
    • Empirical and theoretical bacterial diversity in four Arizona soils
    • An insightful and important paper that points the way forward because it seeks to deal with the consequences of the size of the microbial world in a quantitative way.
    • Dunbar J., Barns S.M., Ticknor L.O., Kuske C.R. Empirical and theoretical bacterial diversity in four Arizona soils. Appl Environ Microbiol. 68:2002;3035-3045 An insightful and important paper that points the way forward because it seeks to deal with the consequences of the size of the microbial world in a quantitative way.
    • (2002) Appl Environ Microbiol , vol.68 , pp. 3035-3045
    • Dunbar, J.1    Barns, S.M.2    Ticknor, L.O.3    Kuske, C.R.4
  • 7
    • 0036677450 scopus 로고    scopus 로고
    • Estimating prokaryotic diversity and its limits
    • Curtis T.P., Sloan W., Scannell J. Estimating prokaryotic diversity and its limits. Proc Natl Acad Sci USA. 99:2002;10494-10499 This paper represents a first attempt at estimating prokaryotic diversity. Substantial improvements are likely to be possible. Nevertheless we suspect that many of the initial estimates will prove to be roughly right. Not because all the assumptions are perfect but because the estimates are insensitive to modest departures from the assumptions. There is a small error in equation 1 which is not carried over to the subsequent equations used in calculating diversity. A Matlab programme to solve the equations may be found at: http://people.civil.gla.ac.uk/∼sloan/
    • (2002) Proc Natl Acad Sci USA , vol.99 , pp. 10494-10499
    • Curtis, T.P.1    Sloan, W.2    Scannell, J.3
  • 8
    • 0037052493 scopus 로고    scopus 로고
    • Prokaryotic diversity - Magnitude, dynamics, and controlling factors
    • Torsvik V., Ovreas L., Thingstad T.F. Prokaryotic diversity - Magnitude, dynamics, and controlling factors. Science. 296:2002;1064-1066
    • (2002) Science , vol.296 , pp. 1064-1066
    • Torsvik, V.1    Ovreas, L.2    Thingstad, T.F.3
  • 9
    • 0031981808 scopus 로고    scopus 로고
    • Santa Rosalia revisited: Why are there so many species of bacteria?
    • Dykhuizen D.E. Santa Rosalia revisited: Why are there so many species of bacteria? Antonie Van Leeuwenhoek Int J Gen Mol Microbiol. 73:1998;25-33
    • (1998) Antonie Van Leeuwenhoek Int J Gen Mol Microbiol , vol.73 , pp. 25-33
    • Dykhuizen, D.E.1
  • 12
    • 0030872620 scopus 로고    scopus 로고
    • Molecular microbial diversity of an anaerobic digestor as determined by small-subunit rDNA sequence analysis
    • Godon J.J., Zumstein E., Dabert P., Habouzit F., Moletta R. Molecular microbial diversity of an anaerobic digestor as determined by small-subunit rDNA sequence analysis. Appl Environ Microbiol. 63:1997;2802-2813
    • (1997) Appl Environ Microbiol , vol.63 , pp. 2802-2813
    • Godon, J.J.1    Zumstein, E.2    Dabert, P.3    Habouzit, F.4    Moletta, R.5
  • 13
    • 2942517237 scopus 로고    scopus 로고
    • Modeling bacterial species abundance from small community surveys
    • Epub ahead of print.
    • Narang R, Dunbar J: Modeling bacterial species abundance from small community surveys. Microb Ecol 2003, Epub ahead of print.
    • (2003) Microb Ecol
    • Narang, R.1    Dunbar, J.2
  • 15
    • 0036025191 scopus 로고    scopus 로고
    • Microbial population dynamics in laboratory-scale activated sludge reactors
    • Kaewpipat K., Grady C.P.L. Microbial population dynamics in laboratory-scale activated sludge reactors. Water Sci. 46:2002;19-27
    • (2002) Water Sci , vol.46 , pp. 19-27
    • Kaewpipat, K.1    Grady, C.P.L.2
  • 16
    • 0036840898 scopus 로고    scopus 로고
    • Robust hydrocarbon degradation and dynamics of bacterial communities during nutrient-enhanced oil spill bioremediation
    • Roling W.F.M., Milner M.G., Jones D.M., Lee K., Daniel F., Swannell R.J.P., Head I.M. Robust hydrocarbon degradation and dynamics of bacterial communities during nutrient-enhanced oil spill bioremediation. Appl Environ Microbiol. 68:2002;5537-5548
    • (2002) Appl Environ Microbiol , vol.68 , pp. 5537-5548
    • Roling, W.F.M.1    Milner, M.G.2    Jones, D.M.3    Lee, K.4    Daniel, F.5    Swannell, R.J.P.6    Head, I.M.7
  • 17
    • 0347948605 scopus 로고    scopus 로고
    • Long-term effects of operating temperature and sulphate addition on the methanogenic community structure of anaerobic hybrid reactors
    • Pender S., Toomey M., Carton M., Eardly D., Patching J.W., Colleran E., O'Flaherty V. Long-term effects of operating temperature and sulphate addition on the methanogenic community structure of anaerobic hybrid reactors. Water Res. 38:2004;619-630
    • (2004) Water Res , vol.38 , pp. 619-630
    • Pender, S.1    Toomey, M.2    Carton, M.3    Eardly, D.4    Patching, J.W.5    Colleran, E.6    O'Flaherty, V.7
  • 18
    • 0242380172 scopus 로고    scopus 로고
    • Microbial community structure and methanogenic activity during start-up of psychrophilic anaerobic digesters treating synthetic industrial wastewaters
    • Collins G., Woods A., McHugh S., Carton M.W., O'Flaherty V. Microbial community structure and methanogenic activity during start-up of psychrophilic anaerobic digesters treating synthetic industrial wastewaters. FEMS Microbiol Ecol. 46:2003;159-170
    • (2003) FEMS Microbiol Ecol , vol.46 , pp. 159-170
    • Collins, G.1    Woods, A.2    McHugh, S.3    Carton, M.W.4    O'Flaherty, V.5
  • 19
    • 0031684010 scopus 로고    scopus 로고
    • Temperature gradient gel electrophoresis analysis of 16S rRNA from human fecal samples reveals stable and host-specific communities of active bacteria
    • Zoetendal E.G., Akkermans A.D.L., De Vos W.M. Temperature gradient gel electrophoresis analysis of 16S rRNA from human fecal samples reveals stable and host-specific communities of active bacteria. Appl Environ Microbiol. 64:1998;3854-3859
    • (1998) Appl Environ Microbiol , vol.64 , pp. 3854-3859
    • Zoetendal, E.G.1    Akkermans, A.D.L.2    De Vos, W.M.3
  • 20
    • 0041507002 scopus 로고    scopus 로고
    • Bacterial composition of murine fecal microflora is indigenous and genetically guided
    • Vaahtovuo J., Toivanen P., Eerola E. Bacterial composition of murine fecal microflora is indigenous and genetically guided. FEMS Microbiol Ecol. 44:2003;131-136
    • (2003) FEMS Microbiol Ecol , vol.44 , pp. 131-136
    • Vaahtovuo, J.1    Toivanen, P.2    Eerola, E.3
  • 21
    • 0037319936 scopus 로고    scopus 로고
    • Application of 16S rDNA-DGGE to examine the microbial ecology associated with a social wasp Vespula germanica
    • Reeson A.F., Jankovic T., Kasper M.L., Rogers S., Austin A.D. Application of 16S rDNA-DGGE to examine the microbial ecology associated with a social wasp Vespula germanica. Insect Mol Biol. 12:2003;85-91
    • (2003) Insect Mol Biol , vol.12 , pp. 85-91
    • Reeson, A.F.1    Jankovic, T.2    Kasper, M.L.3    Rogers, S.4    Austin, A.D.5
  • 22
    • 0142104396 scopus 로고    scopus 로고
    • Axial dynamics, stability, and interspecies similarity of bacterial community structure in the highly compartmentalized gut of soil-feeding termites (Cubitermes spp.)
    • Schmitt-Wagner D., Friedrich M.W., Wagner B., Brune A. Axial dynamics, stability, and interspecies similarity of bacterial community structure in the highly compartmentalized gut of soil-feeding termites (Cubitermes spp.). Appl Environ Microbiol. 69:2003;6018-6024
    • (2003) Appl Environ Microbiol , vol.69 , pp. 6018-6024
    • Schmitt-Wagner, D.1    Friedrich, M.W.2    Wagner, B.3    Brune, A.4
  • 23
    • 0035957371 scopus 로고    scopus 로고
    • Microbial phyllosphere populations are more complex than previously realized
    • Yang C.H., Crowley D.E., Borneman J., Keen N.T. Microbial phyllosphere populations are more complex than previously realized. Proc Natl Acad Sci USA. 98:2001;3889-3894
    • (2001) Proc Natl Acad Sci USA , vol.98 , pp. 3889-3894
    • Yang, C.H.1    Crowley, D.E.2    Borneman, J.3    Keen, N.T.4
  • 24
    • 0242266495 scopus 로고    scopus 로고
    • Stability of the bacterial community in a pulp mill effluent treatment system during normal operation and a system shutdown
    • Smith N.R., Yu Z.T., Mohn W.W. Stability of the bacterial community in a pulp mill effluent treatment system during normal operation and a system shutdown. Water Res. 37:2003;4873-4884
    • (2003) Water Res , vol.37 , pp. 4873-4884
    • Smith, N.R.1    Yu, Z.T.2    Mohn, W.W.3
  • 25
    • 0043031293 scopus 로고    scopus 로고
    • Diversity and seasonal variability of beta-proteobacteria in biofilms of polluted rivers: Analysis by temperature gradient gel electrophoresis and cloning
    • Brummer I.H.M., Felske A., Wagner-Dobler I. Diversity and seasonal variability of beta-proteobacteria in biofilms of polluted rivers: Analysis by temperature gradient gel electrophoresis and cloning. Appl Environ Microbiol. 69:2003;4463-4473
    • (2003) Appl Environ Microbiol , vol.69 , pp. 4463-4473
    • Brummer, I.H.M.1    Felske, A.2    Wagner-Dobler, I.3
  • 26
    • 0035017735 scopus 로고    scopus 로고
    • Fundamental unpredictability in multispecies competition
    • Huisman J., Weissing F.J. Fundamental unpredictability in multispecies competition. Am Nat. 157:2001;488-494
    • (2001) Am Nat , vol.157 , pp. 488-494
    • Huisman, J.1    Weissing, F.J.2
  • 27
    • 0033604549 scopus 로고    scopus 로고
    • Biodiversity of plankton by species oscillations and chaos
    • Huisman J., Weissing F.J. Biodiversity of plankton by species oscillations and chaos. Nature. 402:1999;407-410
    • (1999) Nature , vol.402 , pp. 407-410
    • Huisman, J.1    Weissing, F.J.2
  • 30
    • 0042242559 scopus 로고    scopus 로고
    • Geographic barriers isolate endemic populations of hyperthermophilic archaea
    • A delightful study and a clear demonstration that the biogeography we see depends on the level of resolution we use to demonstrate differences between taxa.
    • Whitaker R.J., Grogan D.W., Taylor J.W. Geographic barriers isolate endemic populations of hyperthermophilic archaea. Science. 301:2003;976-978 A delightful study and a clear demonstration that the biogeography we see depends on the level of resolution we use to demonstrate differences between taxa.
    • (2003) Science , vol.301 , pp. 976-978
    • Whitaker, R.J.1    Grogan, D.W.2    Taylor, J.W.3
  • 32
    • 0035964859 scopus 로고    scopus 로고
    • Ecology - Neutral macroecology
    • Bell G. Ecology - Neutral macroecology. Science. 293:2001;2413-2418
    • (2001) Science , vol.293 , pp. 2413-2418
    • Bell, G.1
  • 33
    • 0035949686 scopus 로고    scopus 로고
    • Phenotypic diversity and ecosystem functioning in changing environments: A theoretical framework
    • Norberg J., Swaney D.P., Dushoff J., Lin J., Casagrandi R., Levin S.A. Phenotypic diversity and ecosystem functioning in changing environments: A theoretical framework. Proc Natl Acad Sci USA. 98:2001;11376-11381
    • (2001) Proc Natl Acad Sci USA , vol.98 , pp. 11376-11381
    • Norberg, J.1    Swaney, D.P.2    Dushoff, J.3    Lin, J.4    Casagrandi, R.5    Levin, S.A.6
  • 34
    • 0038482137 scopus 로고    scopus 로고
    • Diversity and dynamics of microbial communities in engineered environments and their implications for process stability
    • Briones A., Raskin L. Diversity and dynamics of microbial communities in engineered environments and their implications for process stability. Curr Opin Biotechnol. 14:2003;270-276
    • (2003) Curr Opin Biotechnol , vol.14 , pp. 270-276
    • Briones, A.1    Raskin, L.2
  • 35
    • 0034528803 scopus 로고    scopus 로고
    • Single strand conformation polymorphism monitoring of 16S rDNA Archaea during start-up of an anaerobic digester
    • Leclerc M., Delbes C., Moletta R., Godon J.J. Single strand conformation polymorphism monitoring of 16S rDNA Archaea during start-up of an anaerobic digester. FEMS Microbiol Ecol. 34:2001;213-220
    • (2001) FEMS Microbiol Ecol , vol.34 , pp. 213-220
    • Leclerc, M.1    Delbes, C.2    Moletta, R.3    Godon, J.J.4
  • 36
    • 0034547651 scopus 로고    scopus 로고
    • Examination of two years of community dynamics in an anaerobic bioreactor using fluorescence polymerase chain reaction (PCR) single-strand conformation polymorphism analysis
    • Zumstein E., Moletta R., Godon J.J. Examination of two years of community dynamics in an anaerobic bioreactor using fluorescence polymerase chain reaction (PCR) single-strand conformation polymorphism analysis. Environ Microbiol. 2:2000;69-78
    • (2000) Environ Microbiol , vol.2 , pp. 69-78
    • Zumstein, E.1    Moletta, R.2    Godon, J.J.3
  • 37
    • 2942602287 scopus 로고    scopus 로고
    • Diversity of the archael community in 44 anaerobic digesters as determined by single stranded conformation polymorphism analysis and 16S rDNA sequencing
    • in press.
    • Leclerc M, Delgenes J-P, Godon JJ: Diversity of the archael community in 44 anaerobic digesters as determined by single stranded conformation polymorphism analysis and 16S rDNA sequencing. Environmental Microbiology 2004: in press.
    • (2004) Environmental Microbiology
    • Leclerc, M.1    Delgenes, J.-P.2    Godon, J.J.3
  • 38
    • 0037469604 scopus 로고    scopus 로고
    • Methanogenic population structure in a variety of anaerobic bioreactors
    • McHugh S., Carton M., Mahony T., O'Flaherty V. Methanogenic population structure in a variety of anaerobic bioreactors. FEMS Microbiol Lett. 219:2003;297-304
    • (2003) FEMS Microbiol Lett , vol.219 , pp. 297-304
    • McHugh, S.1    Carton, M.2    Mahony, T.3    O'Flaherty, V.4
  • 39
    • 11144354360 scopus 로고    scopus 로고
    • Environmental genome shotgun sequencing of the Sargasso sea
    • A technical tour de force that never the less attempts to grapple with thorny sampling issues in a manner that reveals the magnitude of our ambition.
    • Venter J., Remmington K., Heidelberg J., Halpern A., Ruscch D., Eisen J., Wu D., Paulsen I., Nelson K., Nelson W., et al. Environmental genome shotgun sequencing of the Sargasso sea. Science. 304:2004;66-74 A technical tour de force that never the less attempts to grapple with thorny sampling issues in a manner that reveals the magnitude of our ambition.
    • (2004) Science , vol.304 , pp. 66-74
    • Venter, J.1    Remmington, K.2    Heidelberg, J.3    Halpern, A.4    Ruscch, D.5    Eisen, J.6    Wu, D.7    Paulsen, I.8    Nelson, K.9    Nelson, W.10
  • 40
    • 4644290878 scopus 로고    scopus 로고
    • Estimating bacterial diversity from clone libraries with flat rank abundance distributions
    • in press
    • Lunn M, Sloan WT, Curtis TP: Estimating bacterial diversity from clone libraries with flat rank abundance distributions. Environ Microbiol: in press.
    • Environ Microbiol
    • Lunn, M.1    Sloan, W.T.2    Curtis, T.P.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.