A molecular analysis of the interrelationships of tetraodontiform fishes (Acanthomorpha: Tetraodontiformes)

Molecular Phylogenetics and Evolution

Volumn 34, Issue 3, 2005, Pages 525-544

  Holcroft, Nancy I ^a,b  

^a UNIVERSITY OF KANSAS   (United States)

^b JOHNSON COUNTY COMMUNITY COLLEGE   (United States)

Author keywords

12S; 16S; Phylogenetics; RAG1; Takifugu; Tetraodon

Indexed keywords

ACANTHOMORPHA; BALISTIDAE; CENTRARCHIDAE; DIODONTIDAE; MOLIDAE; MONACANTHIDAE; OSTRACIIDAE; PISCES; TAKIFUGU; TETRAODON; TETRAODONTIDAE; TETRAODONTIFORMES;

EID: 15944401420     PISSN: 10557903     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.ympev.2004.11.003     Document Type: Article

References (52)

1. R. Arai Karyological and osteological approach to phylogenetic systematics of tetraodontiform fishes Bull. Nat. Sci. Mus., Tokyo, Ser. A 9 1983 175 210
2. Artedi, P., 1738. Petri Artedi sueci genera piscium. Ichthyologiae, pars III. Lugduni
3. K. Bremer The limits of amino acid sequence data in angiosperm phylogenetic reconstruction Evolution 42 1988 795 803
4. K. Bremer Branch support and tree stability Cladistics 10 1994 295 304
5. W.-J. Chen, C. Bonillo, and G. Lecointre Repeatability of clades as a criterion of reliability: a case study for molecular phylogeny of Acanthomorpha (Teleostei) with larger number of taxa Mol. Phylogenet. Evol. 26 2003 262 288
6. E.D. Cope Observations on the systematic relations of the fishes Am. Nat. 5 1871 579 593
7. C. Dareste On the natural affinities of the Balistidae Ann. Mag. Nat. Hist. Ser. 4 10 1872 68 70
8. P. de Rijk, Y. Van de Peer, S. Chapelle, and R. de Wachter Database on the structure of large ribosomal subunit DNA Nucleic Acids Res. 22 1994 3495 3501
9. C. Elmerot, U. Arnason, T. Gojobori, and A. Janke The mitochondrial genome of the pufferfish, Fugu rubripes, and ordinal teleostean relationships Gene 295 2002 163 172
10. J. Felsenstein Confidence limits on phylogenies: an approach using the bootstrap Evolution 39 1985 783 791
11. A. Hassanin, G. Lecointre, and S. Tillier The 'evolutionary signal' of homoplasy in protein-coding gene sequences and its consequences for a priori weighting in phylogeny C. R. Acad. Sci. Paris 321 1998 611 620
12. W. Hennig Phylogenetic Systematics 1966 University of Illinois Press Urbana
13. D.M. Hillis, and J.J. Bull An empirical test of bootstrapping as a method for assessing confidence in phylogenetic analysis Syst. Biol. 42 1993 182 192
14. N.I. Holcroft A molecular test of alternative hypotheses of tetraodontiform (Acanthomorpha: Tetraodontiformes) sister group relationships using data from the RAG1 gene Mol. Phylogenet. Evol. 32 2004 749 760
15. G.J. Klassen Phylogeny and biogeography of the Ostraciinae (Tetraodontiformes: Ostraciidae) Bull. Mar. Sci. 57 1995 393 441
16. T. Kocher, W. Thomas, A. Meyer, S. Edwards, S. Pääbo, F. Villablanca, and A. Wilson Dynamics of mitochondrial DNA evolution in animals: amplification and sequencing with conserved primers Proc. Natl. Acad. Sci. USA 86 1989 6196 6200
17. S. Kumar, K. Tamura, and M. Nei MEGA: Molecular evolutionary genetics analysis software for microcomputers Comput. Appl. Biosci. 10 1994 189 191
18. G.V. Lauder, and K.F. Liem The evolution and interrelationships of the actinopterygian fishes Bull. Mus. Comp. Zool. 150 1983 95 197
19. Leis, J.M., 1984. Tetraodontiformes: relationships. In: Moser, H.G., Richards, W.J., Cohen, D.M., Fahay, M.P., Kendall Jr., A.W., Richardson, S.L. (Eds.), Ontogeny and Systematics of Fishes. Am. Soc. Ichthyol. and Herp., pp. 459-463 (Spec. Publ. No. 1)
20. A.E. Leviton, R.H. Gibbs, E. Heal, and C.E. Dawson Standards in herpetology and ichthyology: part I. Standard symbolic codes for institutional resource collections in herpetology and ichthyology Copeia 1985 1985 802 832
21. K. Matsuura Phylogeny of the superfamily Balistoidea (Pisces: Tetraodontiformes) Mem. Fac. Fish., Hokkaido Univ. 26 1979 49 169
22. M. Miya, H. Takeshima, H. Endo, N.B. Ishiguro, J.G. Inoue, T. Mukai, T.P. Satoh, M. Yamaguchi, A. Kawaguchi, K. Mabuchi, S.M. Shirai, and M. Nishida Major patterns of higher teleostean phylogenies: a new perspective based on 100 complete mitochondrial DNA sequences Mol. Phylogenet. Evol. 26 2003 121 138
23. H. Mok, and S. Shen Osteology and phylogeny of the Squamipinnes Taiwan Mus. Spec. Public. Ser. Zool. 1 1983 1 87
24. J.S. Nelson Fishes of the World third ed. 1994 Wiley New York
25. Nylander, J.A.A., 2004. MrModeltest 2.0. Distributed by the author. Uppsala, Sweden
26. S.R. Palumbi Nucleic acids II: the polymerase chain reaction D.M. Hillis C. Moritz B.K. Mable Molecular Systematics 1996 Sinauer Sunderland, MA 205 247
27. B.R. Peixoto, Y. Mikawa, and S. Brenner Characterization of the recombinase activating gene-1 and 2 locus in the Japanese pufferfish, Fugu rubripes Gene 246 2000 275 283
28. F. Ronquist, and J.P. Huelsenbeck MrBayes 3: Bayesian phylogenetic inference under mixed models Bioinformatics 19 2003 1572 1574
29. D.E. Rosen Zeiformes as primitive plectognath fishes Am. Mus. Novit. 2782 1984 1 45
30. R.K. Saiki Amplification of genomic DNA M.A. Innis D.H. Gelfand J.J. Sninsky T.J. White PCR Protocols: A Guide to Methods and Applications 1990 Academic Press New York 13 20
31. F. Santini, and J.C. Tyler Phylogeny and biogeography of the extant species of triplespine fishes (Triacanthidae, Tetraodontiformes) Zool. Scr. 31 2002 321 330
32. F. Santini, and J.C. Tyler Phylogeny of the ocean sunfishes (Molidae, Tetraodontiformes), a highly derived group of teleost fishes Ital. J. Zool. 69 2002 37 43
33. F. Santini, and J.C. Tyler A phylogeny of the families of fossil and extant tetraodontiform fishes (Acanthomorpha, Tetraodontiformes), Upper Cretaceous to Recent Zool. J. Linn. Soc. 139 2003 565 617
34. S.C. Shen, and K.Y. Wu Phylogenetic study of balistoid fishes based on intestinal coiling pattern Acta Zool. Taiwan. 6 1995 41 56
35. Sorenson, M.D., 1999. TreeRot, version 2. Boston University, Boston, MA
36. S. Suga, K. Wada, and M. Ogawa Fluoride concentration in teeth of tetraodontiform fishes and its phylogenetic significance Jpn. J. Ichthyol. 28 1981 304 312
37. D.L. Swofford PAUP*. Phylogenetic Analysis Using Parsimony (* and Other Methods). Version 4 2002 Sinauer Associates Sunderland, MA
38. T. Tamura, and M. Nei Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA data Mol. Biol. Evol. 10 1993 512 526
39. K.L. Tang, P.B. Berendzen, E.O. Wiley, G.D. Johnson, R. Winterbottom, and J.F. Morrissey The phylogenetic relationships of the suborder Acanthuroidei (Teleostei: Perciformes) based on molecular and morphological evidence Mol. Phylogenet. Evol. 11 1999 415 425
40. A.R. Templeton Phylogenetic inference from restriction endo-nuclease cleavage site maps with particular reference to the evolution of apes and humans Evolution 37 1983 221 244
41. Tyler, J.C., 1980. Osteology, phylogeny, and higher classification of the fishes of the order Plectognathi (Tetraodontiformes). NOAA Tech. Rept. NMFS Circ. 434, 1-422
42. J.C. Tyler, G.D. Johnson, I. Nakamura, and B.B. Collette Morphology of Luvarus imperialis (Luvaridae), with a phylogenetic analysis of the Acanthuroidei (Pisces) Smithson. Contrib. Zool. 485 1989 1 78
43. Y. Van de Peer, I. Van den Broeck, P. de Rijk, and R. de Wachter Database on the structure of small subunit DNA Nucleic Acids Res. 22 1994 3488 3494
44. Wagner Jr., W.H., 1961. Problems in the classification of ferns. In: Recent Advances in Botany. Vol. I. University of Toronto Press, Toronto, pp. 841-844
45. Wagner Jr., W.H., 1969. The construction of a classification. In: Systematic Biology. Natl. Acad. Sci. USA Publ. 1692, pp. 67-90
46. W.H. Wagner Jr. Origin and philosophy of the groundplan-divergence method of cladistics Syst. Bot. 5 1980 173 193
47. L.E. Watrous, and Q.D. Wheeler The out-group comparison method of character analysis Syst. Zool. 30 1981 1 11
48. Willughby, F., 1686. Historia piscium libri quatuor. Oxford
49. R. Winterbottom The familial phylogeny of the Tetraodontiformes (Acanthopterygii: Pisces) as evidenced by their comparative myology Smithson. Contrib. Zool. 155 1974 1 201
50. R. Winterbottom Myological evidence for the phylogeny of the recent genera of surgeonfishes (Percomorpha, Acanthuridae), with comments on the Acanthuroidei Copeia 1993 1993 21 39
51. R. Winterbottom, and J.C. Tyler Phylogenetic relationships of aracanin genera of boxfishes (Ostraciidae: Tetraodontiformes) Copeia 1984 1983 902 917
52. F. Wright The 'effective number of codons' used in a gene Gene 87 1990 23 29