Where do rodents fit? Evidence from the complete mitochondrial genome of Sciurus vulgaris [2]

Molecular Biology and Evolution

Volumn 17, Issue 6, 2000, Pages 979-983

  Reyes, Aurelio ^a,b   Gissi, Carmela ^b   Pesole, Graziano ^c   Catzeflis, François M ^d   Saccone, Cecilia ^b  

^a CNR   (Italy)

^b UNIVERSITY OF BARI   (Italy)

^c UNIVERSITY OF MILAN   (Italy)

^d UNIV MONTPELLIER   (France)

Author keywords

Mammalian evolution; Mitochondrial DNA; Rodent paraphyly; Rodent phylogeny; Rodent polyphyly; Sciurus vulgaris

Indexed keywords

GENE SEQUENCE; GENETIC ANALYSIS; GENOME; LETTER; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; RODENT; SQUIRREL;

MAMMALIA; RODENTIA; SCIURIDAE; SCIURUS VULGARIS;

EID: 0034117084     PISSN: 07374038     EISSN: None     Source Type: Journal    
DOI: 10.1093/oxfordjournals.molbev.a026379     Document Type: Letter

References (32)

1. ADACHI, J., and M. HASEGAWA. 1996. MOLPHY version 2.3: programs for molecular phylogenetics based on maximum likelihood. Comput. Sci. Monogr. 28:1-150.
2. BUGGE, J. 1985. Systematic value of the carotid arterial pattern in rodents. Pp. 333-354 in W. P. LUCKETT and J.-L. HARTENBERGER, eds. Evolutionary relationships among rodents. A multidisciplary analysis. Plenum Press, New York and London.
3. CAO, Y., N. OKADA, and M. HASEGAWA. 1997. Phylogenetic position of guinea pigs revisited. Mol. Biol. Evol. 14:461-464.
4. D'ERCHIA, A. M., C. GISSI, G. PESOLE, C. SACCONE, and U. ARNASON. 1996. The guinea-pig is not a rodent. Nature 381:597-599.
5. EISENBERG, J. F. 1981. The mammalian radiations. An analysis of trends in evolution, adaptation, and behavior. University of Chicago Press, Chicago.
6. GRAUR, D., W. A. HIDE, and H.-W. LI. 1991. Is the guinea-pig a rodent? Nature 351:649-652.
7. GRAUR, D., A. ZARKIKH, W. A. HIDE, and H.-W. LI. 1992. The biochemical phylogeny of guinea pigs and gundies and the paraphyly of the order Rodentia. Comp. Biochem. Physiol. B 101:495-498.
8. HARTENBERGER, J.-L. 1985. The order Rodentia: major questions on their evolutionary origin, relationships and suprafamilial systematics. Pp. 1-32 in W. P. LUCKETT and J.-L. HARTENBERGER, eds. Evolutionary relationships among rodents. A multidisciplinary analysis. Plenum Press, New York.
9. HARTENBERGER, J.-L. 1996. Les débuts de la radiation adaptive des Rodentia (Mammalia). C. R. Acad. Sci. Paris 323:631-637.
10. HARTENBERGER, J.-L. 1998. Description de la radiation des Rodentia (Mammalia) du Paléocène supérieur au Miocène; incidences phylogénétiques. C. R. Acad. Sci. Paris 326:439-444.
11. HUCHON, D., F. CATZEFLIS, and E. DOUZERY. 1999. Molecular evolution of the nuclear von Willebrand factor gene in mammals and the phylogeny of rodents. Mol. Biol. Evol. 16:577-589.
12. 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.
13. KRAMEROV, D., N. VASSETZKY, and I. SERDOBOVA. 1999. The evolutionary position of dormice (Gliridae) in Rodentia determined by a novel short retroposon. Mol. Biol. Evol. 16: 715-717.
14. LAVOCAT, R., and J.-P. PARENT. 1985. Phylogenetic analysis of middle ear features in fossil and living rodents. Pp. 333-354 in W. P. LUCKETT and J.-L. HARTENBERGER, eds. Evolutionary relationships among rodents. A multidisciplinary analysis. Plenum Press New York and London.
15. LI, W.-H., W. A. HIDE, A. ZHARKIKA, D. P. MA, and D. GRAUR. 1992. The molecular taxonomy and evolution of the guinea pig. J. Hered. 83:174-181.
16. LUCKETT, W. P., and J.-L. HARTENBERGER. 1993. Monophyly or polyphyly of the order Rodentia: possible conflict between morphological and molecular interpretations. J. Mamm. Evol. 1:127-147.
17. MCKENNA, M. C., and S. K. BELL. 1997. Classification of mammals above the species level. Columbia University Press, New York.
18. MUSE, S. V., and B. S. GAUT. 1994. A likelihood approach for comparing synonymous and nonsynonymous nucleotide substitution rates, with application to the chloroplast genome. Mol. Biol. Evol. 11:715-724.
19. NEBDAL, M. A., R. L. HONEYCUTT, and D. A. SCHLITTER. 1996. Higher-level systematics of rodents (Mammalia, Rodentia): evidence from the mitochondrial 12S rRNA gene. J. Mamm. Evol 3:201-237.
20. PHILIPPE, H. 1997. Rodent monophyly: pitfalls of molecular phylogenies. J. Mol. Evol. 45:712-715.
21. PHILIPPE, H., and J. LAURENT. 1998. How good are deep phylogenetic trees? Curr. Opin. Genet. Dev. 8:616-623.
22. PUMO, D. E., P. S. FINAMORE, W. R. FRANEK, C. J. PHILLIPS, S. TARZAMI, and D. BALZARANO. 1998. Complete mitochondrial genome of a neotropical fruit bat, Artibeus jamaicensis, and a new hypothesis of the relationships of bats to other eutherian mammals. J. Mol. Evol. 47:709-717.
23. REYES, A., G. PESOLE, and C. SACCONE. 1998. Complete mitochondrial DNA sequence of the fat dormouse, Glis glis: further evidence of rodent paraphyly. Mol. Biol. Evol. 15: 499-505.
24. RZHETSKY, A., and M. NEI. 1992. A simple method for estimating and testing minimum evolution trees. Mol. Biol. Evol. 9:945-967.
25. SACCONE, C., C. LANAVE, G. PESOLE, and G. PREPARATA. 1990. Influence of base composition on quantitative estimates of gene evolution. Methods Enzymol. 183:570-583.
26. SAITOU, N., and M. NEI. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4:406-425.
27. SPRINGER, M. S., G. C. CLEVEN, O. MADSEN, W. DE JONG, V. G. WADDELL, H. M. AMRINE, and M. J. STANHOPE. 1997. Endemic African mammals shake the phylogenetic tree. Nature 388:61-64.
28. SULLIVAN, J., and D. L. SWOFFORD. 1997. Are guinea pigs rodents? The importance of adequate models in molecular phylogenetics. J. Mamm. Evol. 4:77-86.
29. SWOFFORD, D. L. 1998. PAUP* (developmental version). Sinauer, Sunderland, Mass.
30. URSING, B. M., and U. ARNASON. 1998. Analyses of mitochondrial genomes strongly support a hippopotamus-whale clade. Proc. R. Soc. Lond. B Biol. Sci. 265:2251-2255.
31. WILSON, D. E., and D. M. REEDER. 1993. Mammal species of the world. A taxonomic and geographic reference. Smithsonian Institution Press, Washington, D.C., and London.
32. YANG, Z. 1994. Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: approximate methods. J. Mol. Evol. 39:306-314.