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Volumn 105, Issue 7, 2008, Pages 2504-2509

Identifying the fundamental units of bacterial diversity: A paradigm shift to incorporate ecology into bacterial systematics

Author keywords

Bacillus; Ecotype; Evolution Canyon; Periodic selection; Species concept

Indexed keywords

ALGORITHM; ARTICLE; BACILLUS LICHENIFORMIS; BACILLUS SUBTILIS; BACTERIAL GENETICS; CONTROLLED STUDY; ECOLOGY; ECOTYPE; ISRAEL; MICROBIAL COMMUNITY; MICROBIAL DIVERSITY; NONHUMAN; NUCLEOTIDE SEQUENCE; POPULATION DYNAMICS; PREDICTION; PRIORITY JOURNAL; SIMULATION; BACILLUS; CLASSIFICATION; COMPUTER SIMULATION; MOLECULAR GENETICS; PHYLOGENY; POLLUTION;

EID: 40649125049     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.0712205105     Document Type: Article
Times cited : (239)

References (37)
  • 2
    • 23944525404 scopus 로고    scopus 로고
    • Computational improvements reveal great bacterial diversity and high metal toxicity in soil
    • Gans J, Wolinsky M, Dunbar J (2005) Computational improvements reveal great bacterial diversity and high metal toxicity in soil. Science 309:1387-1390.
    • (2005) Science , vol.309 , pp. 1387-1390
    • Gans, J.1    Wolinsky, M.2    Dunbar, J.3
  • 3
    • 25144486755 scopus 로고    scopus 로고
    • Molecular diversity and ecology of microbial plankton
    • Giovannoni SJ, Stingl U (2005) Molecular diversity and ecology of microbial plankton. Nature 437:343-348.
    • (2005) Nature , vol.437 , pp. 343-348
    • Giovannoni, S.J.1    Stingl, U.2
  • 4
    • 34247884459 scopus 로고    scopus 로고
    • A systematics for discovering the fundamental units of bacterial diversity
    • Cohan FM, Perry EB (2007) A systematics for discovering the fundamental units of bacterial diversity. Curr Biol 17:R373-R386.
    • (2007) Curr Biol , vol.17
    • Cohan, F.M.1    Perry, E.B.2
  • 5
    • 1942519881 scopus 로고    scopus 로고
    • The promise of a DNA taxonomy
    • Blaxter ML (2004) The promise of a DNA taxonomy. Philos Trans R Soc Lond B 359:669-679.
    • (2004) Philos Trans R Soc Lond B , vol.359 , pp. 669-679
    • Blaxter, M.L.1
  • 6
    • 23944437942 scopus 로고    scopus 로고
    • Opinion: Re-evaluating prokaryotic species
    • Gevers D, et al. (2005) Opinion: Re-evaluating prokaryotic species. Nat Rev Microbiol 3:733-739.
    • (2005) Nat Rev Microbiol , vol.3 , pp. 733-739
    • Gevers, D.1
  • 7
    • 33947302827 scopus 로고    scopus 로고
    • Taxonomic parameters revisited: Tarnished gold standards
    • Stackebrandt E, Ebers J (2006) Taxonomic parameters revisited: Tarnished gold standards. Microbiol Today 33:152-155.
    • (2006) Microbiol Today , vol.33 , pp. 152-155
    • Stackebrandt, E.1    Ebers, J.2
  • 8
    • 0028028182 scopus 로고
    • Taxonomic note: A place for DNA: DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology
    • Stackebrandt E, Goebel BM (1994) Taxonomic note: 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
  • 9
    • 0000770675 scopus 로고
    • Report of the ad hoc committee on reconciliation of approaches to bacterial systematics
    • Wayne LG, et al. (1987) Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463-464.
    • (1987) Int J Syst Bacteriol , vol.37 , pp. 463-464
    • Wayne, L.G.1
  • 10
    • 14044262978 scopus 로고    scopus 로고
    • Genomic insights that advance the species definition for prokaryotes
    • Konstantinidis KT, Tiedje JM (2005) Genomic insights that advance the species definition for prokaryotes. Proc Natl Acad Sci USA 102:2567-2572.
    • (2005) Proc Natl Acad Sci USA , vol.102 , pp. 2567-2572
    • Konstantinidis, K.T.1    Tiedje, J.M.2
  • 11
    • 38549155995 scopus 로고    scopus 로고
    • Genomics, environmental genomics and the issue of microbial species
    • Ward DM, et al. (2008) Genomics, environmental genomics and the issue of microbial species. Heredity 100:207-219.
    • (2008) Heredity , vol.100 , pp. 207-219
    • Ward, D.M.1
  • 12
    • 33751258603 scopus 로고    scopus 로고
    • The bacterial species dilemma and the genomic-phylogenetic species concept
    • Staley JT (2006) The bacterial species dilemma and the genomic-phylogenetic species concept. Philos Trans R Soc Lond B 361:1899-1909.
    • (2006) Philos Trans R Soc Lond B , vol.361 , pp. 1899-1909
    • Staley, J.T.1
  • 14
    • 33751210106 scopus 로고    scopus 로고
    • Cyanobacterial ecotypes in the microbial mat community of Mushroom Spring (Yellowstone National Park, Wyoming) as species-like units linking microbial community composition, structure and function
    • Ward DM, et al. (2006) Cyanobacterial ecotypes in the microbial mat community of Mushroom Spring (Yellowstone National Park, Wyoming) as species-like units linking microbial community composition, structure and function. Phil Trans Roy Soc Ser B 361:1997-2008.
    • (2006) Phil Trans Roy Soc Ser B , vol.361 , pp. 1997-2008
    • Ward, D.M.1
  • 15
    • 33747179737 scopus 로고    scopus 로고
    • ed Nurminsky D Landes Bioscience, Georgetown, TX, pp
    • Cohan FM (2005) in Selective Sweep, ed Nurminsky D (Landes Bioscience, Georgetown, TX), pp 78-93.
    • (2005) Selective Sweep , pp. 78-93
    • Cohan, F.M.1
  • 16
    • 18244371073 scopus 로고    scopus 로고
    • Ernst Mayr and the modern concept of species
    • de Queiroz K (2005) Ernst Mayr and the modern concept of species. Proc Natl Acad Sci USA 102(Suppl 1):6600-6607.
    • (2005) Proc Natl Acad Sci USA , vol.102 , Issue.SUPPL. 1 , pp. 6600-6607
    • de Queiroz, K.1
  • 17
    • 0037391247 scopus 로고    scopus 로고
    • Adaptive spatiotemporal distribution of soil microfungi in "Evolution Canyon" II, Lower Nahal Keziv, western Upper Galilee, Israel
    • Grishkan I, Nevo E, Wasser SP, Beharav A (2003) Adaptive spatiotemporal distribution of soil microfungi in "Evolution Canyon" II, Lower Nahal Keziv, western Upper Galilee, Israel. Biol J Linnean Soc 78:527-539.
    • (2003) Biol J Linnean Soc , vol.78 , pp. 527-539
    • Grishkan, I.1    Nevo, E.2    Wasser, S.P.3    Beharav, A.4
  • 18
    • 0028864113 scopus 로고
    • Asian, African and European biota meet at "Evolution Canyon", Israel: Local tests of global biodiversity and genetic diversity patterns
    • Nevo E (1995) Asian, African and European biota meet at "Evolution Canyon", Israel: local tests of global biodiversity and genetic diversity patterns. Proc R Soc London B 262:149-155.
    • (1995) Proc R Soc London B , vol.262 , pp. 149-155
    • Nevo, E.1
  • 19
    • 27644597469 scopus 로고    scopus 로고
    • Adaptation and incipient sympatric speciation of Bacillus simplex under microclimatic contrast at "Evolution Canyons" I and II, Israel
    • Sikorski J, Nevo E (2005) Adaptation and incipient sympatric speciation of Bacillus simplex under microclimatic contrast at "Evolution Canyons" I and II, Israel. Proc Natl Acad Sci USA 102:15924-15929.
    • (2005) Proc Natl Acad Sci USA , vol.102 , pp. 15924-15929
    • Sikorski, J.1    Nevo, E.2
  • 20
    • 33847003680 scopus 로고    scopus 로고
    • Patterns of thermal adaptation of Bacillus simplex to the microclimatically contrasting slopes of "Evolution Canyons" I and II, Israel
    • Sikorski J, Nevo E (2007) Patterns of thermal adaptation of Bacillus simplex to the microclimatically contrasting slopes of "Evolution Canyons" I and II, Israel. Environ Microbiol 9:716-726.
    • (2007) Environ Microbiol , vol.9 , pp. 716-726
    • Sikorski, J.1    Nevo, E.2
  • 21
    • 3242884054 scopus 로고    scopus 로고
    • Fine-scale phylogenetic architecture of a complex bacterial community
    • Acinas SG, et al. (2004) Fine-scale phylogenetic architecture of a complex bacterial community. Nature 430:551-554.
    • (2004) Nature , vol.430 , pp. 551-554
    • Acinas, S.G.1
  • 22
    • 0036324293 scopus 로고    scopus 로고
    • Phylogenetic approaches for describing and comparing the diversity of microbial communities
    • Martin AP (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
  • 24
    • 20444427160 scopus 로고    scopus 로고
    • Time dependency of molecular rate estimates and systematic overestimation of recent divergence times
    • Ho SY, Phillips MJ, Cooper A, Drummond AJ (2005) Time dependency of molecular rate estimates and systematic overestimation of recent divergence times. Mol Biol Evol 22:1561-1568.
    • (2005) Mol Biol Evol , vol.22 , pp. 1561-1568
    • Ho, S.Y.1    Phillips, M.J.2    Cooper, A.3    Drummond, A.J.4
  • 25
    • 0345328128 scopus 로고    scopus 로고
    • Gene sequences useful for predicting relatedness of whole genomes in bacteria
    • Zeigler DR (2003) Gene sequences useful for predicting relatedness of whole genomes in bacteria. Int J Syst Evol Microbiol 53:1893-1900.
    • (2003) Int J Syst Evol Microbiol , vol.53 , pp. 1893-1900
    • Zeigler, D.R.1
  • 26
    • 33846686737 scopus 로고    scopus 로고
    • Adaptive spatiotemporal distribution of soil microfungi in "Evolution Canyon" III, Nahal Shaharut, extreme southern Negev Desert, Israel
    • Grishkan I, Beharav A, Kirzhner V, Nevo E (2007) Adaptive spatiotemporal distribution of soil microfungi in "Evolution Canyon" III, Nahal Shaharut, extreme southern Negev Desert, Israel. Biol J Linnean Soc 90:263-277.
    • (2007) Biol J Linnean Soc , vol.90 , pp. 263-277
    • Grishkan, I.1    Beharav, A.2    Kirzhner, V.3    Nevo, E.4
  • 28
    • 36849028589 scopus 로고    scopus 로고
    • Population level functional diversity in a microbial community revealed by comparative genomic and metagenomic analyses
    • Bhaya D, et al. (2007) Population level functional diversity in a microbial community revealed by comparative genomic and metagenomic analyses. ISME J 1:703-713.
    • (2007) ISME J , vol.1 , pp. 703-713
    • Bhaya, D.1
  • 30
    • 33644617473 scopus 로고    scopus 로고
    • Ecotypes of the Mycobacterium tuberculosis complex
    • Smith NH, et al. (2006) Ecotypes of the Mycobacterium tuberculosis complex. J Theor Biol 239:220-225.
    • (2006) J Theor Biol , vol.239 , pp. 220-225
    • Smith, N.H.1
  • 31
    • 0000569803 scopus 로고
    • ed Lewontin RC Syracuse Univ Press, Syracuse, NY, pp
    • Hutchinson GE (1968) in Population Biology and Evolution, ed Lewontin RC (Syracuse Univ Press, Syracuse, NY), pp 177-186.
    • (1968) Population Biology and Evolution , pp. 177-186
    • Hutchinson, G.E.1
  • 32
    • 36348970645 scopus 로고    scopus 로고
    • Populations under microevolutionary scrutiny: What will we gain?
    • Sikorski J (2008) Populations under microevolutionary scrutiny: What will we gain? Arch Microbiol 189:1-5.
    • (2008) Arch Microbiol , vol.189 , pp. 1-5
    • Sikorski, J.1
  • 33
    • 23844526582 scopus 로고    scopus 로고
    • Bacterial species diversity in cigarettes linked to an investigation of severe pneumonitis in U.S. Military personnel deployed in operation Iraqi freedom
    • Rooney AP, Swezey JL, Wicklow DT, McAtee MJ (2005) Bacterial species diversity in cigarettes linked to an investigation of severe pneumonitis in U.S. Military personnel deployed in operation Iraqi freedom. Curr Microbiol 51:46-52.
    • (2005) Curr Microbiol , vol.51 , pp. 46-52
    • Rooney, A.P.1    Swezey, J.L.2    Wicklow, D.T.3    McAtee, M.J.4
  • 34
    • 0026302576 scopus 로고
    • The potential for genetic exchange by transformation within a natural population of Bacillus subtilis
    • Cohan FM, Roberts MS, King EC (1991) The potential for genetic exchange by transformation within a natural population of Bacillus subtilis. Evolution 45:1393-1421.
    • (1991) Evolution , vol.45 , pp. 1393-1421
    • Cohan, F.M.1    Roberts, M.S.2    King, E.C.3
  • 35
    • 34249027580 scopus 로고    scopus 로고
    • Inference of bacterial microevolution using multilocus sequence data
    • Didelot X, Falush D (2007) Inference of bacterial microevolution using multilocus sequence data. Genetics 175:1251-1266.
    • (2007) Genetics , vol.175 , pp. 1251-1266
    • Didelot, X.1    Falush, D.2
  • 37
    • 34547781750 scopus 로고    scopus 로고
    • Tamura K, Dudley J, Nei M, Kumar S (2007) MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol 24:1596-1599
    • Tamura K, Dudley J, Nei M, Kumar S (2007) MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol 24:1596-1599.


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