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Volumn 50, Issue 3, 2009, Pages 514-525

Incongruent gene trees, complex evolutionary processes, and the phylogeny of a group of North American minnows (Hybognathus Agassiz 1855)

Author keywords

Data combinability; Empirical Bayes; Growth hormone intron; Historical hybridization; Mitochondrial DNA; Phylogenetic conflict; S7 ribosomal protein gene

Indexed keywords

MITOCHONDRIAL DNA;

EID: 60349091626     PISSN: 10557903     EISSN: 10959513     Source Type: Journal    
DOI: 10.1016/j.ympev.2008.11.002     Document Type: Article
Times cited : (22)

References (58)
  • 1
    • 27944469437 scopus 로고    scopus 로고
    • Effects of habitat fragmentation on effective population size in the endangered Rio Grande silvery minnow
    • Alò D., and Turner T.F. Effects of habitat fragmentation on effective population size in the endangered Rio Grande silvery minnow. Conserv. Biol. 19 (2005) 1138-1148
    • (2005) Conserv. Biol. , vol.19 , pp. 1138-1148
    • Alò, D.1    Turner, T.F.2
  • 2
    • 0032088099 scopus 로고    scopus 로고
    • Assessing the relative contribution of molecular and morphological characters in simultaneous analysis trees
    • Baker R.H., Yu X., and DeSalle R. Assessing the relative contribution of molecular and morphological characters in simultaneous analysis trees. Mol. Phylogenet. Evol. 9 (1998) 427-436
    • (1998) Mol. Phylogenet. Evol. , vol.9 , pp. 427-436
    • Baker, R.H.1    Yu, X.2    DeSalle, R.3
  • 3
    • 0028046414 scopus 로고
    • Unraveling selection in the mitochondrial genome of Drosophila
    • Ballard J.W.O., and Kreitman M. Unraveling selection in the mitochondrial genome of Drosophila. Genet. Sel. Evol. 138 (1994) 757-772
    • (1994) Genet. Sel. Evol. , vol.138 , pp. 757-772
    • Ballard, J.W.O.1    Kreitman, M.2
  • 4
    • 0029660036 scopus 로고    scopus 로고
    • Redescription, geographic variation, and taxonomic status of Rio Grande silvery minnow, Hybognathus amarus (Girard, 1856)
    • Bestgen K., and Propst D.L. Redescription, geographic variation, and taxonomic status of Rio Grande silvery minnow, Hybognathus amarus (Girard, 1856). Copeia 1996 (1996) 41-55
    • (1996) Copeia , vol.1996 , pp. 41-55
    • Bestgen, K.1    Propst, D.L.2
  • 5
    • 0032170904 scopus 로고    scopus 로고
    • Universal PCR primers for S7 ribosomal protein gene introns in fish
    • Chow S., and Hazama K. Universal PCR primers for S7 ribosomal protein gene introns in fish. Mol. Ecol. 7 (1998) 1255-1256
    • (1998) Mol. Ecol. , vol.7 , pp. 1255-1256
    • Chow, S.1    Hazama, K.2
  • 6
    • 0003151915 scopus 로고
    • Allozymic divergence and systematics of the Rio Grande silvery minnow, Hybognathus amarus (Teleostei: Cyprinidae)
    • Cook J.A., Bestgen K.R., Propst D.L., and Yates T.L. Allozymic divergence and systematics of the Rio Grande silvery minnow, Hybognathus amarus (Teleostei: Cyprinidae). Copeia (1992) 36-44
    • (1992) Copeia , pp. 36-44
    • Cook, J.A.1    Bestgen, K.R.2    Propst, D.L.3    Yates, T.L.4
  • 7
    • 0027341433 scopus 로고
    • Evolutionary significance of introgressive hybridization in cyprinid fishes
    • Dowling T.E., and DeMarais B.D. Evolutionary significance of introgressive hybridization in cyprinid fishes. Nature 362 (1993) 444-446
    • (1993) Nature , vol.362 , pp. 444-446
    • Dowling, T.E.1    DeMarais, B.D.2
  • 8
    • 0037102513 scopus 로고    scopus 로고
    • Evolutionary relationships of the plagopterins (Teleostei: Cyprinidae) from cytochrome b sequences
    • Dowling T.E., Tibbets C.A., Minckley W.L., and Smith G.R. Evolutionary relationships of the plagopterins (Teleostei: Cyprinidae) from cytochrome b sequences. Copeia 2002 (2002) 665-678
    • (2002) Copeia , vol.2002 , pp. 665-678
    • Dowling, T.E.1    Tibbets, C.A.2    Minckley, W.L.3    Smith, G.R.4
  • 10
    • 84959798530 scopus 로고
    • Cases in which parsimony or compatibility methods will be positively misleading
    • Felsenstein J. Cases in which parsimony or compatibility methods will be positively misleading. Syst. Zool. 27 (1978) 401-410
    • (1978) Syst. Zool. , vol.27 , pp. 401-410
    • Felsenstein, J.1
  • 11
    • 0019797407 scopus 로고
    • Evolutionary trees from DNA sequences, a maximum likelihood approach
    • Felsenstein J. Evolutionary trees from DNA sequences, a maximum likelihood approach. J. Mol. Evol. 17 (1981) 368-376
    • (1981) J. Mol. Evol. , vol.17 , pp. 368-376
    • Felsenstein, J.1
  • 12
    • 0000461280 scopus 로고
    • Confidence limits on phylogenies, an approach using the bootstrap
    • Felsenstein J. Confidence limits on phylogenies, an approach using the bootstrap. Evolution 39 (1985) 783-791
    • (1985) Evolution , vol.39 , pp. 783-791
    • Felsenstein, J.1
  • 13
    • 84959747425 scopus 로고
    • Toward defining the course of evolution: minimum change for a specific tree topology
    • Fitch W.M. Toward defining the course of evolution: minimum change for a specific tree topology. Syst. Zool. 20 (1971) 406-416
    • (1971) Syst. Zool. , vol.20 , pp. 406-416
    • Fitch, W.M.1
  • 14
    • 0004294464 scopus 로고    scopus 로고
    • Evidence of extensive intergeneric hybridization among the cyprinid fauna of Clark Creek, Wilkinson Co., Mississippi
    • Grady J.M., and Cashner R.C. Evidence of extensive intergeneric hybridization among the cyprinid fauna of Clark Creek, Wilkinson Co., Mississippi. SouthWest. Nat. 33 (1998) 137-146
    • (1998) SouthWest. Nat. , vol.33 , pp. 137-146
    • Grady, J.M.1    Cashner, R.C.2
  • 16
    • 0000631106 scopus 로고    scopus 로고
    • Molecules versus morphology insys tematics: conflicts, artifacts, and misconceptions
    • Wiens J.J. (Ed), Smithsonian Institution Press, Washington, DC
    • Hillis D.M., and Wiens J.J. Molecules versus morphology insys tematics: conflicts, artifacts, and misconceptions. In: Wiens J.J. (Ed). Phylogenetic Analysis of Morphological Data (2000), Smithsonian Institution Press, Washington, DC 1-19
    • (2000) Phylogenetic Analysis of Morphological Data , pp. 1-19
    • Hillis, D.M.1    Wiens, J.J.2
  • 17
    • 0345047737 scopus 로고
    • Comparison of a pharyngeal filtering apparatus in seven species of the herbivorous cyprinid genus, Hybognathus (Pisces: Cyprinidae)
    • Hlohowskyj C.P., Coburn M.M., and Cavender T.M. Comparison of a pharyngeal filtering apparatus in seven species of the herbivorous cyprinid genus, Hybognathus (Pisces: Cyprinidae). Copeia (1989) 172-183
    • (1989) Copeia , pp. 172-183
    • Hlohowskyj, C.P.1    Coburn, M.M.2    Cavender, T.M.3
  • 18
    • 0031981709 scopus 로고    scopus 로고
    • Status of the Western Slivery Minnow, Hybognathus argyritis, in Canada
    • Houston J. Status of the Western Slivery Minnow, Hybognathus argyritis, in Canada. Can. Field Nat. 112 (1998) 147-153
    • (1998) Can. Field Nat. , vol.112 , pp. 147-153
    • Houston, J.1
  • 19
    • 0031436890 scopus 로고    scopus 로고
    • Phylogeny estimation and hypothesis testing using maximum likelihood
    • Huelsenbeck J.P., and Crandall K.A. Phylogeny estimation and hypothesis testing using maximum likelihood. Annu. Rev. Ecol. Syst. 28 (1997) 437-466
    • (1997) Annu. Rev. Ecol. Syst. , vol.28 , pp. 437-466
    • Huelsenbeck, J.P.1    Crandall, K.A.2
  • 21
    • 0025181359 scopus 로고
    • Maximum likelihood inference of protein phylogeny and the origin of chloroplasts
    • Kishino H., Miyata T., and Hasegawa M. Maximum likelihood inference of protein phylogeny and the origin of chloroplasts. J. Mol. Evol. (1990) 30
    • (1990) J. Mol. Evol. , pp. 30
    • Kishino, H.1    Miyata, T.2    Hasegawa, M.3
  • 22
    • 0842287651 scopus 로고    scopus 로고
    • The burgeoning field of statistical phylogeography
    • Knowles L. The burgeoning field of statistical phylogeography. J. Evol. Biol. 17 (2004) 1-10
    • (2004) J. Evol. Biol. , vol.17 , pp. 1-10
    • Knowles, L.1
  • 23
    • 35748954378 scopus 로고    scopus 로고
    • Effect of branch length uncertainty on posterior probabilities for phylogenetic hypotheses
    • Kolaczkowski B., and Thornton J.W. Effect of branch length uncertainty on posterior probabilities for phylogenetic hypotheses. Mol. Biol. Evol. 24 (2007) 2108-2118
    • (2007) Mol. Biol. Evol. , vol.24 , pp. 2108-2118
    • Kolaczkowski, B.1    Thornton, J.W.2
  • 24
    • 44649184070 scopus 로고    scopus 로고
    • A mixed model of heterotachy improves phylogenetic accuracy
    • Kolaczkowski B., and Thornton J.W. A mixed model of heterotachy improves phylogenetic accuracy. Mol. Biol. Evol. 25 (2008) 1054-1066
    • (2008) Mol. Biol. Evol. , vol.25 , pp. 1054-1066
    • Kolaczkowski, B.1    Thornton, J.W.2
  • 25
    • 0032976397 scopus 로고    scopus 로고
    • Markov chain Monte Carlo algorithms for Bayesian analysis of phylogenetic trees
    • Larget B., and Simon D.L. Markov chain Monte Carlo algorithms for Bayesian analysis of phylogenetic trees. Mol. Biol. Evol. 16 (1999) 750-759
    • (1999) Mol. Biol. Evol. , vol.16 , pp. 750-759
    • Larget, B.1    Simon, D.L.2
  • 26
    • 33646398136 scopus 로고    scopus 로고
    • Phylogenetic relationships of horned lizards (Phrynosoma) based on nuclear and mitochondrial data: evidence for a misleading mitochondrial gene tree
    • Leaché A.D., and McGuire J.A. Phylogenetic relationships of horned lizards (Phrynosoma) based on nuclear and mitochondrial data: evidence for a misleading mitochondrial gene tree. Mol. Phylogenet. Evol. 39 (2006) 628-644
    • (2006) Mol. Phylogenet. Evol. , vol.39 , pp. 628-644
    • Leaché, A.D.1    McGuire, J.A.2
  • 27
    • 19044373497 scopus 로고    scopus 로고
    • Polytomies and Bayesian phylogenetic inference
    • Lewis P.O., Holder M., and Holsinger K. Polytomies and Bayesian phylogenetic inference. Syst. Biol. 54 (2005) 241-253
    • (2005) Syst. Biol. , vol.54 , pp. 241-253
    • Lewis, P.O.1    Holder, M.2    Holsinger, K.3
  • 28
    • 0037565090 scopus 로고    scopus 로고
    • The causes of phylogenetic conflict in a classic Drosophila species group
    • Machado C.A., and Hey J. The causes of phylogenetic conflict in a classic Drosophila species group. Proc. R. Soc. Lond. B Biol. Sci. 270 (2003) 1193-1202
    • (2003) Proc. R. Soc. Lond. B Biol. Sci. , vol.270 , pp. 1193-1202
    • Machado, C.A.1    Hey, J.2
  • 29
    • 0032906031 scopus 로고    scopus 로고
    • Bayesian phylogenetic inference via Markov chain Monte Carlo methods
    • Mau B., Newton M.A., and Larget B. Bayesian phylogenetic inference via Markov chain Monte Carlo methods. Biometrics 55 (1999) 234-249
    • (1999) Biometrics , vol.55 , pp. 234-249
    • Mau, B.1    Newton, M.A.2    Larget, B.3
  • 30
    • 0002349685 scopus 로고
    • Phylogenetic studies of North American minnows, with emphasis on the Genus Cyprinella (Teleostei: Cypriniformes)
    • Mayden R.L. Phylogenetic studies of North American minnows, with emphasis on the Genus Cyprinella (Teleostei: Cypriniformes). Occ. Papers Univ. Kans. Mus. Nat. His. 80 (1989) 1-190
    • (1989) Occ. Papers Univ. Kans. Mus. Nat. His. , vol.80 , pp. 1-190
    • Mayden, R.L.1
  • 33
    • 0036554568 scopus 로고    scopus 로고
    • Strategies to protect biological diversity and the evolutionary processes that sustain it
    • Moritz C. Strategies to protect biological diversity and the evolutionary processes that sustain it. Syst. Biol. 51 (2002) 238-254
    • (2002) Syst. Biol. , vol.51 , pp. 238-254
    • Moritz, C.1
  • 34
    • 1942440859 scopus 로고    scopus 로고
    • Phylogenetic relationships of thorny catfishes (Siluriformes: Doradidae) inferred from molecular and morphological data
    • Moyer G.R., Burr B.M., and Krajewski C. Phylogenetic relationships of thorny catfishes (Siluriformes: Doradidae) inferred from molecular and morphological data. Zool. J. Linn. Soc. Lond. 140 (2004) 551-575
    • (2004) Zool. J. Linn. Soc. Lond. , vol.140 , pp. 551-575
    • Moyer, G.R.1    Burr, B.M.2    Krajewski, C.3
  • 35
    • 16344376448 scopus 로고    scopus 로고
    • Genetic and ecological dynamics of species replacement in an arid-land river system
    • Moyer G.R., Osborne M., and Turner T.F. Genetic and ecological dynamics of species replacement in an arid-land river system. Mol. Ecol. 14 (2005) 1263-1273
    • (2005) Mol. Ecol. , vol.14 , pp. 1263-1273
    • Moyer, G.R.1    Osborne, M.2    Turner, T.F.3
  • 36
    • 15944407703 scopus 로고    scopus 로고
    • Historical demography, selection, and coalescence of mitochondrial and nuclear genes in Prochilodus species of northern South America
    • Moyer G.R., Winemiller K.O., McPhee M.V., and Turner T.F. Historical demography, selection, and coalescence of mitochondrial and nuclear genes in Prochilodus species of northern South America. Evolution 59 (2005) 599-610
    • (2005) Evolution , vol.59 , pp. 599-610
    • Moyer, G.R.1    Winemiller, K.O.2    McPhee, M.V.3    Turner, T.F.4
  • 39
    • 0031773680 scopus 로고    scopus 로고
    • MODELTEST, testing the model of DNA substitution
    • Posada D., and Crandall K.A. MODELTEST, testing the model of DNA substitution. Bioinformatics 14 (1998) 817-818
    • (1998) Bioinformatics , vol.14 , pp. 817-818
    • Posada, D.1    Crandall, K.A.2
  • 40
    • 0041386108 scopus 로고    scopus 로고
    • MRBAYES 3, Bayesian phylogenetic inference under mixed models
    • Ronquist F., and Huelsenbeck J.P. MRBAYES 3, Bayesian phylogenetic inference under mixed models. Bioinformatics 19 (2003) 1572-1574
    • (2003) Bioinformatics , vol.19 , pp. 1572-1574
    • Ronquist, F.1    Huelsenbeck, J.P.2
  • 41
    • 0026660413 scopus 로고
    • A simple method for estimating and testing minimum-evolutionary trees
    • Rzhetsky A., and Nei M. A simple method for estimating and testing minimum-evolutionary trees. Mol. Biol. Evol. 9 (1992) 945-967
    • (1992) Mol. Biol. Evol. , vol.9 , pp. 945-967
    • Rzhetsky, A.1    Nei, M.2
  • 43
    • 0037467157 scopus 로고    scopus 로고
    • Resolving taxonomy and historic distribution for conservation of rare great plains fishes: Hybognathus (Teleostei: Cyprinidae) in eastern Colorado basins
    • Scheurer J.A., Bestgen K.R., and Fausch K.D. Resolving taxonomy and historic distribution for conservation of rare great plains fishes: Hybognathus (Teleostei: Cyprinidae) in eastern Colorado basins. Copeia (2003) 1-12
    • (2003) Copeia , pp. 1-12
    • Scheurer, J.A.1    Bestgen, K.R.2    Fausch, K.D.3
  • 44
    • 0028086791 scopus 로고
    • Phylogenetic relationships of the genus Hybognathus (Teleostei: Cyprinidae)
    • Schmidt T.R. Phylogenetic relationships of the genus Hybognathus (Teleostei: Cyprinidae). Copeia 1994 (1994) 622-630
    • (1994) Copeia , vol.1994 , pp. 622-630
    • Schmidt, T.R.1
  • 45
    • 0000193756 scopus 로고
    • The complete sequence of the mitochondrial cytochrome b gene in the Cherryfin Shiner, Lythrurus roseipinnis (Teleostei:Cyprinidae)
    • Schmidt T.R., and Gold J.R. The complete sequence of the mitochondrial cytochrome b gene in the Cherryfin Shiner, Lythrurus roseipinnis (Teleostei:Cyprinidae). Copeia 1993 (1993) 880-883
    • (1993) Copeia , vol.1993 , pp. 880-883
    • Schmidt, T.R.1    Gold, J.R.2
  • 46
    • 0034434196 scopus 로고    scopus 로고
    • Hybridization in freshwater fishes, a review of case studies and cytonuclear methods of biological inference
    • Scribner K.T., Page K.D., and Barton M. Hybridization in freshwater fishes, a review of case studies and cytonuclear methods of biological inference. Rev. Fish Biol. Fish. 10 (2001) 293-323
    • (2001) Rev. Fish Biol. Fish. , vol.10 , pp. 293-323
    • Scribner, K.T.1    Page, K.D.2    Barton, M.3
  • 47
    • 0037058998 scopus 로고    scopus 로고
    • Conflict between mitochondrial and nuclear DNA phylogenies of a recent species radiation, what mitochondrial DNA reveals and conceals about modes of speciation in Hawaiian crickets
    • Shaw K.L. Conflict between mitochondrial and nuclear DNA phylogenies of a recent species radiation, what mitochondrial DNA reveals and conceals about modes of speciation in Hawaiian crickets. Proc. Natl. Acad. Sci. USA 99 (2002) 16122-16127
    • (2002) Proc. Natl. Acad. Sci. USA , vol.99 , pp. 16122-16127
    • Shaw, K.L.1
  • 48
    • 0032766857 scopus 로고    scopus 로고
    • Multiple comparisons of log-likelihoods with applications to phylogenetic inference
    • Shimodaira H., and Hasegawa M. Multiple comparisons of log-likelihoods with applications to phylogenetic inference. Mol. Biol. Evol. 16 (1999) 1114-1116
    • (1999) Mol. Biol. Evol. , vol.16 , pp. 1114-1116
    • Shimodaira, H.1    Hasegawa, M.2
  • 49
    • 0141819297 scopus 로고    scopus 로고
    • Molecular systematics of North American phoxinin genera (Actinopterygii: Cyprinidae) inferred from mitochondrial 12S and 16S ribosomal RNA sequences
    • Simons A.M., Berendzen P.B., and Mayden R.L. Molecular systematics of North American phoxinin genera (Actinopterygii: Cyprinidae) inferred from mitochondrial 12S and 16S ribosomal RNA sequences. Zool. J. Linn. Soc. Lond. 139 (2003) 63-80
    • (2003) Zool. J. Linn. Soc. Lond. , vol.139 , pp. 63-80
    • Simons, A.M.1    Berendzen, P.B.2    Mayden, R.L.3
  • 51
    • 0034035066 scopus 로고    scopus 로고
    • Parsimony, likelihood, and the role of models in molecular phylogenetics
    • Steel M., and Penny P. Parsimony, likelihood, and the role of models in molecular phylogenetics. Mol. Biol. Evol. 17 (2000) 839-850
    • (2000) Mol. Biol. Evol. , vol.17 , pp. 839-850
    • Steel, M.1    Penny, P.2
  • 52
    • 0002618746 scopus 로고    scopus 로고
    • Are guinea pigs rodents? The importance of adequate models in molecular phylogenetics
    • Sullivan J., and Swofford D.L. Are guinea pigs rodents? The importance of adequate models in molecular phylogenetics. J Mamm Evol 4 (1997) 77-86
    • (1997) J Mamm Evol , vol.4 , pp. 77-86
    • Sullivan, J.1    Swofford, D.L.2
  • 54
    • 0001336205 scopus 로고    scopus 로고
    • Phylogenetic inference
    • Hillis D.M., Moritz C., and Mable B.K. (Eds), Sinauer Associates, Inc., Massachusetts
    • Swofford D.L., Olsen G.J., Waddell P.J., and Hillis D.M. Phylogenetic inference. In: Hillis D.M., Moritz C., and Mable B.K. (Eds). Molecular Systematics (1996), Sinauer Associates, Inc., Massachusetts 407-514
    • (1996) Molecular Systematics , pp. 407-514
    • Swofford, D.L.1    Olsen, G.J.2    Waddell, P.J.3    Hillis, D.M.4
  • 55
    • 0021066244 scopus 로고
    • Evoltionary relationships of DNA in finite populations
    • Tajima F. Evoltionary relationships of DNA in finite populations. Genetics 105 (1983) 437-460
    • (1983) Genetics , vol.105 , pp. 437-460
    • Tajima, F.1
  • 56
    • 17644420043 scopus 로고    scopus 로고
    • Phylogeographic analysis of mitochondrial gene flow and introgression in the salamander, Plethodon shermani
    • Weisrock D.W., Kozak K.H., and Larson A. Phylogeographic analysis of mitochondrial gene flow and introgression in the salamander, Plethodon shermani. Mol. Ecol. 14 (2005) 1457-1472
    • (2005) Mol. Ecol. , vol.14 , pp. 1457-1472
    • Weisrock, D.W.1    Kozak, K.H.2    Larson, A.3
  • 57
    • 0028214103 scopus 로고
    • Estimating the pattern of nucleotide substitutions
    • Yang Z. Estimating the pattern of nucleotide substitutions. J. Mol. Evol. 39 (1994) 105-111
    • (1994) J. Mol. Evol. , vol.39 , pp. 105-111
    • Yang, Z.1
  • 58
    • 0036699481 scopus 로고    scopus 로고
    • Increased taxon sampling greatly reduces phylogenetic error
    • Zwickl D.J., and Hillis D.M. Increased taxon sampling greatly reduces phylogenetic error. Syst. Biol. 4 (2002) 588-598
    • (2002) Syst. Biol. , vol.4 , pp. 588-598
    • Zwickl, D.J.1    Hillis, D.M.2


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