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Volumn 47, Issue 3, 1998, Pages 519-537

Systematic Bias in Phylogenetic Analysis: Is the Strepsiptera Problem Solved?

Author keywords

[No Author keywords available]

Indexed keywords

DNA;

EID: 0032148641     PISSN: 10635157     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Review
Times cited : (124)

References (52)
  • 1
    • 0022474446 scopus 로고
    • Maximum likelihood alignment of DNA sequences
    • BISHOP, M. J., AND E. A. THOMPSON. 1986. Maximum likelihood alignment of DNA sequences. J. Mol. Biol. 190:159-165.
    • (1986) J. Mol. Biol. , vol.190 , pp. 159-165
    • Bishop, M.J.1    Thompson, E.A.2
  • 2
    • 0028963581 scopus 로고
    • Do long branches attract flies?
    • CARMEAN, D., AND B. CRESPI. 1995. Do long branches attract flies? Nature 373:666.
    • (1995) Nature , vol.373 , pp. 666
    • Carmean, D.1    Crespi, B.2
  • 4
    • 1842343465 scopus 로고
    • Strongly expanded 18S rRNA genes correlated with a peculiar morphology in the insect order Strepsiptera
    • CHALWATZIS, N., A. BAUR, E. STETZER, R. KINZELBACH, AND F. K. ZIMMERMAN. 1995. Strongly expanded 18S rRNA genes correlated with a peculiar morphology in the insect order Strepsiptera. Zoology 98:115-126.
    • (1995) Zoology , vol.98 , pp. 115-126
    • Chalwatzis, N.1    Baur, A.2    Stetzer, E.3    Kinzelbach, R.4    Zimmerman, F.K.5
  • 5
    • 0026559592 scopus 로고
    • The consistency of several phylogeny-inference methods under varying evolutionary rates
    • DEBry, R. W. 1992. The consistency of several phylogeny-inference methods under varying evolutionary rates. Mol. Biol. Evol. 9:537-551.
    • (1992) Mol. Biol. Evol. , vol.9 , pp. 537-551
    • DeBry, R.W.1
  • 7
    • 0027500136 scopus 로고
    • Ribosomal RNA secondary structure: Compensatory mutations and implications for phylogenetic analysis
    • DIXON, M. T., AND D. M. HILLIS. 1993. Ribosomal RNA secondary structure: Compensatory mutations and implications for phylogenetic analysis. Mol. Biol. Evol. 10:256-267.
    • (1993) Mol. Biol. Evol. , vol.10 , pp. 256-267
    • Dixon, M.T.1    Hillis, D.M.2
  • 8
    • 84959798530 scopus 로고
    • Cases in which parsimony and compatibility methods will be positively misleading
    • FELSENSTEIN, J. 1978. Cases in which parsimony and compatibility methods will be positively misleading. Syst. Zool. 27:401-410.
    • (1978) Syst. Zool. , vol.27 , pp. 401-410
    • Felsenstein, J.1
  • 10
    • 84959747425 scopus 로고
    • Toward defining the course of evolution: Minimum change for a specific tree topology
    • FITCH, W. M. 1971. Toward defining the course of evolution: Minimum change for a specific tree topology. Syst. Zool. 20:406-416.
    • (1971) Syst. Zool. , vol.20 , pp. 406-416
    • Fitch, W.M.1
  • 11
    • 0028887457 scopus 로고
    • Success of maximum likelihood phylogeny inference in the four-taxon case
    • GAUT, B. S., AND P. O. LEWIS. 1995. Success of maximum likelihood phylogeny inference in the four-taxon case. Mol. Biol. Evol. 12:152-162.
    • (1995) Mol. Biol. Evol. , vol.12 , pp. 152-162
    • Gaut, B.S.1    Lewis, P.O.2
  • 12
    • 0024258114 scopus 로고
    • Amniote phylogeny and the importance of fossils
    • GAUTHIER, J., A. G. KLUGE, AND T. ROWE. 1988. Amniote phylogeny and the importance of fossils. Cladistics 4:105-209.
    • (1988) Cladistics , vol.4 , pp. 105-209
    • Gauthier, J.1    Kluge, A.G.2    Rowe, T.3
  • 13
    • 0027526039 scopus 로고
    • Statistical tests of models of DNA substitution
    • GOLDMAN, N. 1993. Statistical tests of models of DNA substitution. J. Mol. Evol. 36:182-198.
    • (1993) J. Mol. Evol. , vol.36 , pp. 182-198
    • Goldman, N.1
  • 14
    • 0026428609 scopus 로고
    • Is the guinea-pig a rodent?
    • GRAUR, D, W. A. HIDE, AND W.-H. LI. 1991. Is the guinea-pig a rodent? Nature 315:649-652.
    • (1991) Nature , vol.315 , pp. 649-652
    • Graur, D.1    Hide, W.A.2    Li, W.-H.3
  • 15
    • 0022376704 scopus 로고
    • Dating of the human-ape splitting by the molecular clock of mitochondrial DNA
    • HASEGAWA, M., H. KISHINO, AND T. YANO. 1985. Dating of the human-ape splitting by the molecular clock of mitochondrial DNA. J. Mol. Evol. 22:160-174.
    • (1985) J. Mol. Evol. , vol.22 , pp. 160-174
    • Hasegawa, M.1    Kishino, H.2    Yano, T.3
  • 16
    • 0028355535 scopus 로고
    • Molecular evidence for the origin of birds
    • HEDGES, S. B. 1994. Molecular evidence for the origin of birds. Proc. Nat. Acad. Sci., USA 91:2621-2624.
    • (1994) Proc. Nat. Acad. Sci., USA , vol.91 , pp. 2621-2624
    • Hedges, S.B.1
  • 17
    • 0000084234 scopus 로고
    • A framework for the quantitative study of evolutionary trees
    • HENDY, M. D., AND D. PENNY. 1989. A framework for the quantitative study of evolutionary trees. Syst. Zool. 38:297-309.
    • (1989) Syst. Zool. , vol.38 , pp. 297-309
    • Hendy, M.D.1    Penny, D.2
  • 18
    • 0029834661 scopus 로고    scopus 로고
    • Inferring complex phylogenies
    • HILLIS, D. M. 1996. Inferring complex phylogenies. Nature 383:130-131.
    • (1996) Nature , vol.383 , pp. 130-131
    • Hillis, D.M.1
  • 19
    • 11944268967 scopus 로고
    • Performance of phylogenetic methods in simulation
    • HUELSENBECK, J. P. 1995a. Performance of phylogenetic methods in simulation. Syst. Biol. 44:17-48.
    • (1995) Syst. Biol. , vol.44 , pp. 17-48
    • Huelsenbeck, J.P.1
  • 20
    • 0029113744 scopus 로고
    • The robustness of two phylogenetic methods: Four-taxon simulations reveal a slight superiority of maximum likelihood over neighbor joining
    • HUELSENBECK, J. P. 1995b. The robustness of two phylogenetic methods: Four-taxon simulations reveal a slight superiority of maximum likelihood over neighbor joining. Mol. Biol. Evol. 12:843-849.
    • (1995) Mol. Biol. Evol. , vol.12 , pp. 843-849
    • Huelsenbeck, J.P.1
  • 21
    • 0031084114 scopus 로고    scopus 로고
    • Is the Felsenstein zone a fly trap?
    • HUELSENBECK, J. P. 1997. Is the Felsenstein zone a fly trap? Syst. Biol. 46:69-74.
    • (1997) Syst. Biol. , vol.46 , pp. 69-74
    • Huelsenbeck, J.P.1
  • 22
    • 0030328811 scopus 로고    scopus 로고
    • A likelihood ratio test to detect conflicting phylogenetic signal
    • HUELSENBECK, J. P, AND J. J. BULL. 1996. A likelihood ratio test to detect conflicting phylogenetic signal. Syst. Biol. 45:92-98.
    • (1996) Syst. Biol. , vol.45 , pp. 92-98
    • Huelsenbeck, J.P.1    Bull, J.J.2
  • 23
    • 12044255023 scopus 로고
    • Success of phylogenetic methods in the four-taxon case
    • HUELSENBECK, J. P., AND D. M. HILLIS. 1993. Success of phylogenetic methods in the four-taxon case. Syst. Biol. 42:247-264.
    • (1993) Syst. Biol. , vol.42 , pp. 247-264
    • Huelsenbeck, J.P.1    Hillis, D.M.2
  • 24
    • 0002410257 scopus 로고    scopus 로고
    • Parametric bootstrapping in molecular phylogenetics: Applications and performance
    • J. D. Ferraris and S. R. Palumbi, eds. Wiley-Liss, New York
    • HUELSENBECK, J. P., D. M. HILLIS, AND R. JONES. 1996. Parametric bootstrapping in molecular phylogenetics: Applications and performance. Pages 19-45 in Molecular zoology: Advances, strategies, and protocols (J. D. Ferraris and S. R. Palumbi, eds.). Wiley-Liss, New York.
    • (1996) Molecular Zoology: Advances, Strategies, and Protocols , pp. 19-45
    • Huelsenbeck, J.P.1    Hillis, D.M.2    Jones, R.3
  • 25
    • 0025061094 scopus 로고
    • Limitations of the evolutionary parsimony method of phylogenetic analysis
    • JIN, L., AND M. NEI. 1990. Limitations of the evolutionary parsimony method of phylogenetic analysis. Mol. Biol. Evol. 7:82-102.
    • (1990) Mol. Biol. Evol. , vol.7 , pp. 82-102
    • Jin, L.1    Nei, M.2
  • 26
    • 0000732090 scopus 로고
    • Evolution of protein molecules
    • H. Munro, ed. Academic Press, New York
    • JUKES, T. H., AND C. R. CANTOR. 1969. Evolution of protein molecules. Pages 21-132 in Mammalian protein metabolism (H. Munro, ed.). Academic Press, New York.
    • (1969) Mammalian Protein Metabolism , pp. 21-132
    • Jukes, T.H.1    Cantor, C.R.2
  • 27
    • 84981661854 scopus 로고
    • Review of the order Strepsiptera
    • KATHIRITHAMBY, J. 1989. Review of the order Strepsiptera. Syst. Entomol. 14:41-92.
    • (1989) Syst. Entomol. , vol.14 , pp. 41-92
    • Kathirithamby, J.1
  • 28
    • 0019296687 scopus 로고
    • A simple method for estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequences
    • KIMURA, M. 1980. A simple method for estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequences. J. Mol. Evol. 16:111-120.
    • (1980) J. Mol. Evol. , vol.16 , pp. 111-120
    • Kimura, M.1
  • 29
    • 0024307824 scopus 로고
    • Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in Hominoidea
    • KISHINO, H., AND M. HASEGAWA. 1989. Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in Hominoidea. J. Mol. Evol. 29:170-179.
    • (1989) J. Mol. Evol. , vol.29 , pp. 170-179
    • Kishino, H.1    Hasegawa, M.2
  • 30
    • 0000533828 scopus 로고
    • Phylogeny of extant hexapods
    • I. D. Naumann, P. B. Carne, J. F. Lawrence, E. S. Nielsen, J. P. Spradberry, R. W. Taylor, M. J. Whitten, and M. J. Littlejohn, eds. CSIRO, Melbourne Univ. Press, Melbourne
    • KRISTENSEN, N. P. 1991. Phylogeny of extant hexapods. Pages 125-140 in The insects of Australia, 2nd edition (I. D. Naumann, P. B. Carne, J. F. Lawrence, E. S. Nielsen, J. P. Spradberry, R. W. Taylor, M. J. Whitten, and M. J. Littlejohn, eds.). CSIRO, Melbourne Univ. Press, Melbourne.
    • (1991) The Insects of Australia, 2nd Edition , pp. 125-140
    • Kristensen, N.P.1
  • 31
    • 0028177080 scopus 로고
    • A simulation comparison of phylogeny algorithms under equal and unequal evolutionary rates
    • KUHNER, M. K., AND J. FELSENSTEIN. 1994. A simulation comparison of phylogeny algorithms under equal and unequal evolutionary rates. Mol. Biol. Evol. 11:459-468.
    • (1994) Mol. Biol. Evol. , vol.11 , pp. 459-468
    • Kuhner, M.K.1    Felsenstein, J.2
  • 32
    • 0027103147 scopus 로고
    • The molecular taxonomy and evolution of the guinea pig
    • LI, W.-H., W. A. HIDE, A. ZHARKIKH, D.-P. MA, AND D. GRAUR. 1992. The molecular taxonomy and evolution of the guinea pig. J. Hered. 83:174-181.
    • (1992) J. Hered. , vol.83 , pp. 174-181
    • Li, W.-H.1    Hide, W.A.2    Zharkikh, A.3    Ma, D.-P.4    Graur, D.5
  • 33
    • 0027483517 scopus 로고
    • Structure and evolution of opossum, guinea pig, and porcupine cytochrome b genes
    • MA, D.-P., A. ZHARKIKH, D. GRAUR, J. L. VANDEBERG, and W.-H. LI. 1993. Structure and evolution of opossum, guinea pig, and porcupine cytochrome b genes. J. Mol. Evol. 36:327-334.
    • (1993) J. Mol. Evol. , vol.36 , pp. 327-334
    • Ma, D.-P.1    Zharkikh, A.2    Graur, D.3    Vandeberg, J.L.4    Li, W.-H.5
  • 35
    • 0001884732 scopus 로고
    • Relative efficiencies of different tree-making methods for molecular data
    • M. M. Miyamoto and J. Cracraft, eds.. Oxford Univ. Press, Oxford, England
    • NEI, M. 1991. Relative efficiencies of different tree-making methods for molecular data. Pages 90-128 in Phylogenetic analysis of DNA sequences (M. M. Miyamoto and J. Cracraft, eds.). Oxford Univ. Press, Oxford, England.
    • (1991) Phylogenetic Analysis of DNA Sequences , pp. 90-128
    • Nei, M.1
  • 36
    • 0346884598 scopus 로고
    • Using a wrong substitution model in tree-making
    • M. Nei and N. Takahata, eds. Pennsylvania State Univ., University Park
    • RZHETSKY, A., AND T. SITNIKOVA. 1995. Using a wrong substitution model in tree-making. Pages 125-135 in Current topics on molecular evolution (M. Nei and N. Takahata, eds.). Pennsylvania State Univ., University Park.
    • (1995) Current Topics on Molecular Evolution , pp. 125-135
    • Rzhetsky, A.1    Sitnikova, T.2
  • 37
    • 0023375195 scopus 로고
    • The neighbor-joining method: A new method for reconstructing phylogenetic trees
    • SAITOU, N., AND M. NEI. 1987. The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4:406-425.
    • (1987) Mol. Biol. Evol. , vol.4 , pp. 406-425
    • Saitou, N.1    Nei, M.2
  • 38
    • 0141666829 scopus 로고
    • Evolution of 5S RNA and the non-randomness of base replacement
    • SANKOFF, D., C. MOREL, AND R. J. CEDERGREN. 1973. Evolution of 5S RNA and the non-randomness of base replacement. Nature 245:232-234.
    • (1973) Nature , vol.245 , pp. 232-234
    • Sankoff, D.1    Morel, C.2    Cedergren, R.J.3
  • 39
    • 0028512129 scopus 로고
    • A stochastic model and the evolution of autocorrelated DNA sequences
    • SCHÖNIGER, M., AND A. VON HAESELER. 1994. A stochastic model and the evolution of autocorrelated DNA sequences. Mol. Phylogenet. Evol. 3:240-247.
    • (1994) Mol. Phylogenet. Evol. , vol.3 , pp. 240-247
    • Schöniger, M.1    Von Haeseler, A.2
  • 40
    • 12044250136 scopus 로고
    • Parsimony can be consistent!
    • STEEL, M. A., M. D. HENDY, AND D. PENNY. 1993. Parsimony can be consistent! Syst. Biol. 42:581-587.
    • (1993) Syst. Biol. , vol.42 , pp. 581-587
    • Steel, M.A.1    Hendy, M.D.2    Penny, D.3
  • 41
    • 0002618746 scopus 로고    scopus 로고
    • Are guinea pigs rodents? The importance of adequate models in molecular phylogenetics
    • SULLIVAN, J., AND D. L. SWOFFORD. 1997. Are guinea pigs rodents? The importance of adequate models in molecular phylogenetics. J. Mammal. Evol. 4:77-86.
    • (1997) J. Mammal. Evol. , vol.4 , pp. 77-86
    • Sullivan, J.1    Swofford, D.L.2
  • 42
    • 0001336205 scopus 로고    scopus 로고
    • Phylogenetic inference
    • D. M. Hillis, C. Moritz, and B. K. Mable, eds. Sinauer, Sunderland, Massachusetts
    • SWOFFORD, D. L., G. P. OLSEN, P. J. WADDELL, AND D. M. HILLIS. 1996. Phylogenetic inference. Pages 407-514 in Molecular systematics, 2nd edition (D. M. Hillis, C. Moritz, and B. K. Mable, eds.). Sinauer, Sunderland, Massachusetts.
    • (1996) Molecular Systematics, 2nd Edition , pp. 407-514
    • Swofford, D.L.1    Olsen, G.P.2    Waddell, P.J.3    Hillis, D.M.4
  • 43
    • 0028205953 scopus 로고
    • Relative efficiencies of the maximum-likelihood, neighbor-joining, and maximum-parsimony methods when substitution rate varies with site
    • TATENO, Y., N. TAKEZAKI, AND M. NEI. 1994. Relative efficiencies of the maximum-likelihood, neighbor-joining, and maximum-parsimony methods when substitution rate varies with site. Mol. Biol. Evol. 11:261-277.
    • (1994) Mol. Biol. Evol. , vol.11 , pp. 261-277
    • Tateno, Y.1    Takezaki, N.2    Nei, M.3
  • 44
    • 0026079507 scopus 로고
    • An evolutionary model for maximum likelihood alignment of DNA sequences
    • THORNE, J. L., H. KISHINO, AND J. FELSENSTEIN. 1991. An evolutionary model for maximum likelihood alignment of DNA sequences. J. Mol. Evol. 33:114-124.
    • (1991) J. Mol. Evol. , vol.33 , pp. 114-124
    • Thorne, J.L.1    Kishino, H.2    Felsenstein, J.3
  • 45
    • 0026528734 scopus 로고
    • Inching toward reality: An improved likelihood model of sequence evolution
    • THORNE, J. L., H. KISHINO, AND J. FELSENSTEIN. 1992. Inching toward reality: An improved likelihood model of sequence evolution. J. Mol. Evol. 34:3-16.
    • (1992) J. Mol. Evol. , vol.34 , pp. 3-16
    • Thorne, J.L.1    Kishino, H.2    Felsenstein, J.3
  • 48
    • 0023672228 scopus 로고
    • Paired sequence difference in ribosomal RNAs: Evolutionary and phylogenetic implication
    • WHEELER, W. C., AND R. L. HONEYCUTT. 1988. Paired sequence difference in ribosomal RNAs: Evolutionary and phylogenetic implication. Mol. Biol. Evol. 5:90-96.
    • (1988) Mol. Biol. Evol. , vol.5 , pp. 90-96
    • Wheeler, W.C.1    Honeycutt, R.L.2
  • 49
    • 0031084115 scopus 로고    scopus 로고
    • The Strepsiptera problem: Phylogeny of the holometabolous insect orders inferred from 18S and 28S ribosomal sequences and morphology
    • WHITING, M. F., J. C. CARPENTER, Q. D. WHEELER, AND W. C. WHEELER. 1997. The Strepsiptera problem: Phylogeny of the holometabolous insect orders inferred from 18S and 28S ribosomal sequences and morphology. Syst. Biol. 46:1-68.
    • (1997) Syst. Biol. , vol.46 , pp. 1-68
    • Whiting, M.F.1    Carpenter, J.C.2    Wheeler, Q.D.3    Wheeler, W.C.4
  • 50
    • 0027132974 scopus 로고
    • Max mum-likelihood estimation of phylogeny from DNA sequences when substitution rates differ over sites
    • YANG, Z. 1993. Max mum-likelihood estimation of phylogeny from DNA. sequences when substitution rates differ over sites. Mol. Biol. Evol. 10:1396-1401.
    • (1993) Mol. Biol. Evol. , vol.10 , pp. 1396-1401
    • Yang, Z.1
  • 51
    • 0028064845 scopus 로고
    • Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: Approximate methods
    • YANG, Z. 1994. Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: Approximate methods. J. Mol. Evol. 39:306-314.
    • (1994) J. Mol. Evol. , vol.39 , pp. 306-314
    • Yang, Z.1
  • 52
    • 0029878719 scopus 로고    scopus 로고
    • Phylogenetic analysis using parsimony and likelihood methods
    • YANG, Z. 1996. Phylogenetic analysis using parsimony and likelihood methods. J. Mol. Evol. 42:294-307.
    • (1996) J. Mol. Evol. , vol.42 , pp. 294-307
    • Yang, Z.1


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