메뉴 건너뛰기




Volumn 25, Issue 4, 2010, Pages 689-709

Trashing life's tree

Author keywords

Evolutionary modeling; Lineages; Phylogenetics; The tree of life; Tree of cells

Indexed keywords

EVOLUTIONARY BIOLOGY; PHYLOGENETICS; PHYLOGENY; TAXONOMY;

EID: 77956012769     PISSN: 01693867     EISSN: 15728404     Source Type: Journal    
DOI: 10.1007/s10539-010-9219-1     Document Type: Article
Times cited : (16)

References (72)
  • 1
    • 77956010582 scopus 로고    scopus 로고
    • Andam CP, Williams D, Gogarten JP (2010) Natural taxonomy in light of horizontal gene transfer. Biol Philos. doi: 10. 1007/s10539-010-9212-8.
  • 2
    • 43049101618 scopus 로고    scopus 로고
    • Lateral gene transfer challenges principles of microbial systematics
    • Bapteste E, Boucher Y (2008) Lateral gene transfer challenges principles of microbial systematics. Cell 16: 200-207.
    • (2008) Cell , vol.16 , pp. 200-207
    • Bapteste, E.1    Boucher, Y.2
  • 4
    • 77956011404 scopus 로고    scopus 로고
    • Bapteste E, Burian RM (2010) On the need for integrative phylogenomics: and some steps toward its creation. Biol Philos. doi: 10. 1007/s10539-010-9218-2.
  • 6
    • 0004198890 scopus 로고
    • The evolutionary contingency thesis
    • G. Wolters and J. Lennox (Eds.), Pittsburgh: University of Pittsburgh Press
    • Beatty J (1995) The evolutionary contingency thesis. In: Wolters G, Lennox J (eds) Concepts, theories and rationality in the biological sciences. University of Pittsburgh Press, Pittsburgh.
    • (1995) Concepts, Theories and Rationality in the Biological Sciences
    • Beatty, J.1
  • 7
    • 77956010178 scopus 로고    scopus 로고
    • Beiko RG (2010) Gene sharing and genome evolution: networks in trees and trees in networks. Biol Philos. doi: 10. 1007/s10539-010-9217-3.
  • 8
    • 0037195079 scopus 로고    scopus 로고
    • Modularity, individuality, and evo-devo in butterfly wings
    • Beldade P, Koops K, Brakefield P (2002) Modularity, individuality, and evo-devo in butterfly wings. Proc Natl Acad Sci USA 99: 14262-14267.
    • (2002) Proc Natl Acad Sci USA , vol.99 , pp. 14262-14267
    • Beldade, P.1    Koops, K.2    Brakefield, P.3
  • 9
    • 77956013078 scopus 로고    scopus 로고
    • Bouchard F (2010) Symbiosis, lateral function transfer and the (many) saplings of life. Biol Philos. doi: 10. 1007/s10539-010-9209-3.
  • 10
    • 66449130374 scopus 로고    scopus 로고
    • Revisiting the concept of lineage in prokaryotes: A phylogenetic perspective
    • Boucher Y, Bapteste E (2009) Revisiting the concept of lineage in prokaryotes: a phylogenetic perspective. BioEssays 31: 526-536.
    • (2009) BioEssays , vol.31 , pp. 526-536
    • Boucher, Y.1    Bapteste, E.2
  • 14
    • 33750810896 scopus 로고    scopus 로고
    • The tree of one percent
    • doi:10.1186/gb-2006-7-10-118
    • Dagan T, Martin W (2006) The tree of one percent. Genome Biol 7(10): 118. doi: 10. 1186/gb-2006-7-10-118.
    • (2006) Genome Biol , vol.7 , Issue.10 , pp. 118
    • Dagan, T.1    Martin, W.2
  • 15
    • 33846476262 scopus 로고    scopus 로고
    • Ancestral genome sizes specify the minimum rate of lateral gene transfer during prokaryote evolution
    • Dagan T, Martin W (2007) Ancestral genome sizes specify the minimum rate of lateral gene transfer during prokaryote evolution. Proc Natl Acad Sci USA 104: 870-875.
    • (2007) Proc Natl Acad Sci USA , vol.104 , pp. 870-875
    • Dagan, T.1    Martin, W.2
  • 16
    • 48249151749 scopus 로고    scopus 로고
    • Modular networks and cumulative impact of lateral transfer in prokaryote genome evolution
    • Dagan T, Artzy-Randrup Y, Martin W (2008) Modular networks and cumulative impact of lateral transfer in prokaryote genome evolution. Proc Natl Acad Sci USA 105(29): 10039-10044.
    • (2008) Proc Natl Acad Sci USA , vol.105 , Issue.29 , pp. 10039-10044
    • Dagan, T.1    Artzy-Randrup, Y.2    Martin, W.3
  • 17
    • 77956012075 scopus 로고    scopus 로고
    • Danchin A (2002) The Delphic boat. Harvard University Press, Cambridge.
  • 19
    • 0029786234 scopus 로고    scopus 로고
    • At the core of the archae
    • Doolittle WF (1996) At the core of the archae. Proc Natl Acad Sci USA 93: 8797-8799.
    • (1996) Proc Natl Acad Sci USA , vol.93 , pp. 8797-8799
    • Doolittle, W.F.1
  • 20
    • 0033603539 scopus 로고    scopus 로고
    • Phylogenetic classification and the universal tree
    • Doolittle WF (1999) Phylogenetic classification and the universal tree. Science 284: 2124-2128.
    • (1999) Science , vol.284 , pp. 2124-2128
    • Doolittle, W.F.1
  • 21
    • 17544399692 scopus 로고    scopus 로고
    • W. Ford Doolittle
    • Doolittle WF (2004) W. Ford Doolittle. Curr Biol 14: R176-R177.
    • (2004) Curr Biol , vol.14
    • Doolittle, W.F.1
  • 22
    • 33044496843 scopus 로고    scopus 로고
    • If the tree of life fell, would we recognize the sound?
    • J. Sapp (Ed.), Oxford: Oxford University Press
    • Doolittle WF (2005) If the tree of life fell, would we recognize the sound? In: Sapp J (ed) Microbial phylogeny and evolution: concepts and controversies. Oxford University Press, Oxford, pp 119-133.
    • (2005) Microbial Phylogeny and Evolution: Concepts and Controversies , pp. 119-133
    • Doolittle, W.F.1
  • 23
    • 67651021172 scopus 로고    scopus 로고
    • The practice of classification and the theory of evolution, and what the demise of Charles Darwin's tree of life hypothesis means for both of them
    • Doolittle WF (2009a) The practice of classification and the theory of evolution, and what the demise of Charles Darwin's tree of life hypothesis means for both of them. Philos Trans R Soc Lond B Biol Sci 364: 2221-2228.
    • (2009) Philos Trans R Soc Lond B Biol Sci , vol.364 , pp. 2221-2228
    • Doolittle, W.F.1
  • 24
    • 77957743043 scopus 로고    scopus 로고
    • Doolittle WF (2009b) Eradicating typological thinking in prokaryotic systematics and evolution. Cold Spring Harb Symp Quant Biol doi: 10. 1101/sqb. 2009. 74. 002.
  • 25
    • 33847790997 scopus 로고    scopus 로고
    • Pattern pluralism and the tree of life hypothesis
    • Doolittle WF, Bapteste E (2007) Pattern pluralism and the tree of life hypothesis. Proc Acad Nat Sci USA 104: 2043-2049.
    • (2007) Proc Acad Nat Sci USA , vol.104 , pp. 2043-2049
    • Doolittle, W.F.1    Bapteste, E.2
  • 26
    • 77956237688 scopus 로고    scopus 로고
    • Doolittle WF (2010) The attempt on the life of the tree of life: science, philosophy and politics. Biol Philos. doi: 10. 1007/s10539-010-9210-x.
  • 28
    • 67651064681 scopus 로고    scopus 로고
    • Horizontal gene transfer from extinct and extant lineages: Biological innovation and the coral of life
    • Fournier G, Huang J, Gogarten JP (2009) Horizontal gene transfer from extinct and extant lineages: biological innovation and the coral of life. Philos Trans R Soc Lond B Biol Sci 364: 2229-2239.
    • (2009) Philos Trans R Soc Lond B Biol Sci , vol.364 , pp. 2229-2239
    • Fournier, G.1    Huang, J.2    Gogarten, J.P.3
  • 29
    • 35348878751 scopus 로고    scopus 로고
    • Bacteria, sex and systematics
    • Franklin LR (2007) Bacteria, sex and systematics. Philos Sci 74: 69-95.
    • (2007) Philos Sci , vol.74 , pp. 69-95
    • Franklin, L.R.1
  • 30
    • 57149095052 scopus 로고    scopus 로고
    • Dealing with incongruence in phylogenetic analyses
    • Galtier N, Daubin V (2008) Dealing with incongruence in phylogenetic analyses. Philos Trans R Soc Lond B Biol Sci 363: 4023-4029.
    • (2008) Philos Trans R Soc Lond B Biol Sci , vol.363 , pp. 4023-4029
    • Galtier, N.1    Daubin, V.2
  • 34
    • 70349979453 scopus 로고    scopus 로고
    • Phylogeny of prokaryotes: Does it exist and why should we care?
    • Gribaldo S, Brochier C (2009) Phylogeny of prokaryotes: does it exist and why should we care? Res Microbiol 160: 513-521.
    • (2009) Res Microbiol , vol.160 , pp. 513-521
    • Gribaldo, S.1    Brochier, C.2
  • 35
    • 0033758756 scopus 로고    scopus 로고
    • Pathogenicity islands and the evolution of microbes
    • Hacker J, Kaper JB (2000) Pathogenicity islands and the evolution of microbes. Annu Rev Microbiol 54: 641-679.
    • (2000) Annu Rev Microbiol , vol.54 , pp. 641-679
    • Hacker, J.1    Kaper, J.B.2
  • 36
    • 0033616714 scopus 로고    scopus 로고
    • Horizontal gene transfer among genomes: The complexity hypothesis
    • Jain R, Rivera M, Lake J (1999) Horizontal gene transfer among genomes: the complexity hypothesis. Proc Natl Acad Sci USA 96: 3801-3806.
    • (1999) Proc Natl Acad Sci USA , vol.96 , pp. 3801-3806
    • Jain, R.1    Rivera, M.2    Lake, J.3
  • 37
    • 77952305218 scopus 로고    scopus 로고
    • Natural history as stamp collecting: A brief history
    • Johnson K (2007) Natural history as stamp collecting: a brief history. Arch Nat Hist 34: 244-258.
    • (2007) Arch Nat Hist , vol.34 , pp. 244-258
    • Johnson, K.1
  • 38
    • 0041869987 scopus 로고    scopus 로고
    • The hegemony of molecular biology
    • Kitcher P (1999) The hegemony of molecular biology. Biol Philos 14: 195-210.
    • (1999) Biol Philos , vol.14 , pp. 195-210
    • Kitcher, P.1
  • 42
    • 62749195210 scopus 로고    scopus 로고
    • Uprooting Darwin's tree
    • Lawton G (2009) Uprooting Darwin's tree. New Sci 201: 36-40.
    • (2009) New Sci , vol.201 , pp. 36-40
    • Lawton, G.1
  • 43
    • 1342271382 scopus 로고    scopus 로고
    • From gene trees to organismal phylogeny in prokaryotes: The case of the g-proteobacteria
    • Lerat E, Daubin V, Moran NA (2003) From gene trees to organismal phylogeny in prokaryotes: the case of the g-proteobacteria. PLoS Biol 1: 101-109.
    • (2003) PLoS Biol , vol.1 , pp. 101-109
    • Lerat, E.1    Daubin, V.2    Moran, N.A.3
  • 44
    • 77952890497 scopus 로고    scopus 로고
    • Is the microbial tree of life verificationist?
    • Lienae EK, DeSalle R (2009) Is the microbial tree of life verificationist? Cladisics 25: 1-7.
    • (2009) Cladisics , vol.25 , pp. 1-7
    • Lienae, E.K.1    Desalle, R.2
  • 45
    • 72749088963 scopus 로고    scopus 로고
    • Why is there anything except physics?
    • Loewer B (2009) Why is there anything except physics? Synthese 170: 217-273.
    • (2009) Synthese , vol.170 , pp. 217-273
    • Loewer, B.1
  • 46
    • 61849126837 scopus 로고    scopus 로고
    • Molecular phylogeny: Reconstructing the forest
    • Lopez P, Bapteste P (2009) Molecular phylogeny: reconstructing the forest. C R Biologist 332: 171-182.
    • (2009) C R Biologist , vol.332 , pp. 171-182
    • Lopez, P.1    Bapteste, P.2
  • 47
    • 2642565857 scopus 로고
    • Every word has its own history
    • Malkiel Y (1967) Every word has its own history. Glossa 1: 137-149.
    • (1967) Glossa , vol.1 , pp. 137-149
    • Malkiel, Y.1
  • 49
    • 0004079429 scopus 로고    scopus 로고
    • Princeton: Princeton University Press
    • Michod R (1999) Darwinian dynamics. Princeton University Press, Princeton.
    • (1999) Darwinian Dynamics
    • Michod, R.1
  • 51
    • 0034682335 scopus 로고    scopus 로고
    • Ochman H, Lawrence JG, Groisman EA (2000) Lateral gene transfer and the nature of bacterial innovation. Nature 405: 299-304.
  • 52
    • 34047190388 scopus 로고    scopus 로고
    • Size doesn't matter: Towards a more inclusive philosophy of biology
    • O'Malley M, Dupré J (2007) Size doesn't matter: towards a more inclusive philosophy of biology. Biol Philos 22: 155-191.
    • (2007) Biol Philos , vol.22 , pp. 155-191
    • O'Malley, M.1    Dupré, J.2
  • 53
    • 0242354974 scopus 로고    scopus 로고
    • Horizontal gene transfer and phylogenetics
    • Philippe H, Douady C (2003) Horizontal gene transfer and phylogenetics. Curr Opin Microbiol 6: 498-505.
    • (2003) Curr Opin Microbiol , vol.6 , pp. 498-505
    • Philippe, H.1    Douady, C.2
  • 56
    • 26844508773 scopus 로고    scopus 로고
    • Reexamining microbial evolution through the lens of horizontal transfer
    • R. DeSalle, G. Giribet, and W. Wheeler (Eds.), Basel: Birkhauser
    • Planet P (2002) Reexamining microbial evolution through the lens of horizontal transfer. In: DeSalle R, Giribet G, Wheeler W (eds) Molecular systematics and evolution: theory and practice. Birkhauser, Basel.
    • (2002) Molecular Systematics and Evolution: Theory and Practice
    • Planet, P.1
  • 57
    • 68149093715 scopus 로고    scopus 로고
    • Search for a 'tree of life' in the thicket of the phylogenetic forest
    • doi:10.1186/jbiol159
    • Puigbò P, Wolf YI, Koonin E (2009) Search for a 'tree of life' in the thicket of the phylogenetic forest. J Biol 8: 59. doi: 10. 1186/jbiol159.
    • (2009) J Biol , vol.8 , pp. 59
    • Puigbò, P.1    Wolf, Y.I.2    Koonin, E.3
  • 62
    • 77956011652 scopus 로고    scopus 로고
    • Strevens M (2008) Depth: an account of scientific explanation. Harvard University Press, Cambridge.
  • 63
    • 70349331173 scopus 로고    scopus 로고
    • The cytoplasmic structure hypothesis for ribosome assembly, veritcal inheritance, and phylogeny
    • Thaler D (2009) The cytoplasmic structure hypothesis for ribosome assembly, veritcal inheritance, and phylogeny. BioEssays 31: 774-783.
    • (2009) BioEssays , vol.31 , pp. 774-783
    • Thaler, D.1
  • 65
    • 0003443473 scopus 로고
    • New York: Grand Central Publishing
    • Wilson EO (1994) Naturalist. Grand Central Publishing, New York.
    • (1994) Naturalist
    • Wilson, E.O.1
  • 67
    • 77956012891 scopus 로고    scopus 로고
    • Wilson R (2005) Genes and the agents of life: the individual in the fragile sciences. Cambridge University Press, Cambridge.
  • 68
    • 0037173066 scopus 로고    scopus 로고
    • On the evolution of cells
    • Woese C (2002) On the evolution of cells. Proc Natl Acad Sci USA 99: 8742-8747.
    • (2002) Proc Natl Acad Sci USA , vol.99 , pp. 8742-8747
    • Woese, C.1
  • 69
  • 70
    • 32044461038 scopus 로고    scopus 로고
    • The importance of the tree of life to society
    • J. Cracraft and M. Donoghue (Eds.), Oxford: Oxford University Press
    • Yates T, Salazar-Bravo J, Dragoo J (2004) The importance of the tree of life to society. In: Cracraft J, Donoghue M (eds) Assembling the tree of life. Oxford University Press, Oxford, pp 7-17.
    • (2004) Assembling the Tree of Life , pp. 7-17
    • Yates, T.1    Salazar-Bravo, J.2    Dragoo, J.3
  • 71
    • 1642339676 scopus 로고    scopus 로고
    • Cladogenesis, coalescence and the evolution of the three domains of life
    • Zhaxybayeva O, Gogarten JP (2004) Cladogenesis, coalescence and the evolution of the three domains of life. Trends Genet 20: 182-187.
    • (2004) Trends Genet , vol.20 , pp. 182-187
    • Zhaxybayeva, O.1    Gogarten, J.P.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.