Large, rapidly evolving intergenic spacers in the mitochondrial DNA of the salamander family Ambystomatidae (Amphibia: Caudata)

Molecular Biology and Evolution

Volumn 14, Issue 11, 1997, Pages 1167-1176

  McKnight, Mark L ^a   Shaffer, H Bradley ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AMBYSTOMA; ARTICLE; EVOLUTION; GENE SEQUENCE; GENETIC VARIABILITY; NONHUMAN; NUCLEIC ACID BASE SUBSTITUTION; NUCLEOTIDE SEQUENCE; SALAMANDER; SPECIES DIFFERENCE;

EID: 0030734732     PISSN: 07374038     EISSN: None     Source Type: Journal    
DOI: 10.1093/oxfordjournals.molbev.a025726     Document Type: Article

References (38)

1. ANDERSON, S., A. T. BANKIER, B. G. BARRELL et al. (14 co-authors). 1981. Sequence and organisation of the human mitochondrial genome. Nature 290:457-465.
2. ANDERSON, S., M. H. L. DE BRUUN, A. R. COULSON. I. C. EPEKON, F. SANGER, and I. G. YOUNG. 1982. Complete sequence of bovine mitochondrial DNA. Conserved features of the mammalian milocnondriyl genome. J. Mol. Biol. 156:683-717.
3. AVISE, J. C. 1994. Molecular markers, natural history and evolution. Chapman and Hall. New York.
4. BERG, T., T. MOUM, and S. JOHANSEN. 1995. Variable numbers of .simple tandem repeals make birds of the order Ciconiiformes heteroplasmic in their mitochondrial genomes. Curr. Genet. 27:257-262.
5. BIBB, M. J., R. A. VAN ETTEN, C. T. WRIGHT, M. W. WALBERG, and D.-A. CLAYTON. 1981. Sequence and gene organization of mouse mitochondrial DNA. Cell 26:167-180.
6. BROUGHTON, R. E., and T. E. DOWLING. 1994. Length variation in the mitochondrial DNA of the minnow Cyprinella spiloptera. Genetics 138:179-190.
7. CHANG, Y. S., F. L. HUANG, and T. B. LO. 1994. The complete nucleotide sequence and gene organization of carp (Cyprinus carpio) mitochondrial genome. J. Mol. Evol. 38:138-155.
8. CLAYTON. D. A. 1982. Replication of animal mitoehondrial DNA. Cell 28:693-705.
9. _. 1992. Transcription and replication of animal mitochondrial DNAs Int. Rev. Cytol. 141:217-232.
10. DEJARDINS, P., and R. MORAIS. 1990. Sequence and gene organization of the chicken mitochondrial genome: a novel gene order in higher vertebrates. J. Mol. Biol. 212:599-634.
11. FELSENSTIN, J. 1991. PHYLIP (phylogeny inference package). Version 3.4. Distributed by the author, Depanment of Genetics, University of Washington, Seville.
12. HOELZEL, A. R., J. M. HANCOCK, and G. A. DOVER. 1993. Generation of VNTRs and heteroplasmy by sequence turnover in the mitochondrial control region of two elephant seal species J. Mol. Evol. 37:190-197.
13. HOELZEL, A. R., J. V. LOPEZ, G. A. DOVER, and S. J. O'BRIRN. 1994. Rapid evolution of a hetertiplamic repetitive sequence in the mitochondrial DNA control region of carnivores. J. Mol. Evol. 39:191-199.
14. HOLMAN, J. A. 1968. Lower Oligocene amphibians from Saskatchewan. Q. J. Fla. Acad. Sci. 31:273-289.
15. KOCHER, T. D., W. K. THOMAS, A. MEYER, S. V. EDWARDS, S. PÄÄBO, F. X. VILLABLANCA, and A. C. WILSON. 1989. Dynamics of mitochondrial DNA evolution in animals: amplification and sequencing with conserved primers. Proc. Natl. Acad. Sci. USA 86:6196-6200.
16. KRAUS, F. 1988. An empirical evaluation of the use of the ontogeny polarization criterion in phylogenetic inference. Syst. Zool. 37:106-141.
17. KRAUS, F., and J. W. PETRANKA. 1989. A new species of Ambystoma from the Ohio River drainage- Copeia 1989:94-110.
18. KUMAZAWA, Y., H. OTA, M. NISHIDA, and T. OZAWA. 1996. Gene rearrangements in snake mitochondrial genomes: highly concerted evolution of control-region-like sequences duplicated and inserted into a tRNA gene duster. Mol. Biol. Evol. 13:1242-1254.
19. LARSON, A., and W. W. DIMMICK. 1993. Phylogenetic relationships of the salamander families: an analysis of congruence among morphological and molecular characters, Herpetol. Monogr. 7:77-93.
20. LEE, W.-J., J. CONROY, W. H. HOWELL, and T. D. KOCHER. 1995. Structure and evolution of teleast mitochondrial control regions. J. Mol. Evol. 41:54-66.
21. MACEY, J. R., A. LARSON, N. B. ANANJEVA, Z. FANG, and T. J. PAPENFVSS. 1997. Two novel gene orders and the role of light-strand replication in rearrangement of the vertebrate mitochondrial genome. Mol. Biol. Evol. 14:91-104.
22. MIRACLE, A. L., and D. E. CAMPTON. 1995. Tandem repeat sequence variation and length heteroplasmy in the mitochondrial DNA d-loop of the threatened Gulf of Mexico sturgeon, Acipenser oxyrhynchus desotoi. J. Hered. 86:22-27.
23. MORITZ, C. 1991. Evolutionary dynamics of mitochondrial DNA duplications in parthenogenetic geckos, Heterronotia binoei. Genetics 129:221-230.
24. MORITZ, C., and W. M. BROWN. 1987. Tandem duplications in animal milochondrial DNAs: variation in incidence and gene content among lizards. Proc. Natl. Acad. Sci. USA 84:7183-7187.
25. MORITZ, C., T. E. DOWLING, and W. M. BROWN. 1987. Evolution of animal milochondrial DNA: relevance for population biology and systematic Annu. Rev. Ecol. Syst. 18:269-292.
26. OJALA, D., C. MERKEL, R. GELFAND, and G. ATTARDI. 1980. The tRNA genes punctuate the reading of genetic information in human milodiondrial DNA. Cell 22:393-403.
27. RAND, D. M. 1993. Endotherms, ectoherms, and mitochondrial genome size variation. J. Mol. Evol. 37:281-295.
28. ROE, B. A., D.-P. MA, R. K. WILSON, and J. F.-H. WONG. 1985. The complete nucleotide sequence of the Xenopus laevis mitochondrial genome. J. Biol. Chem. 260:9759-9774.
29. SAVAGE, D. E., and D. E. RUSSELL. 1983. Mammalian palcofaunas of the world. Addison-Wesley. Reading, Mass.
30. SHAFFER, H. B., J. M. CLARK, and F. KKAUS. 1991. When molecules and morphology clash: a phylogenetic analysis of the North American ambystomatid salamanders (Cauuaia: Ambystomatidae). Syst. Zool. 40:284-303,
31. SHAFFER, H. B., and M. L. MCKNIGHT. 1996. The polytypic species revisited: genetic differentiation and molecular phylogenetics of the tiger salamander (Ambystoma tigrirum) (Amphibia: Caudata) complex. Evolution 50:417-433.
32. STANTON, D. J., L. L. DAEHLER, C. C. MORITZ, and W. M. BROWN. 1994. Sequences with the potential to form stemand-loop structures are associated with coding-region du-plications in animal muochondrial DNA. Genetics 137:233-24L
33. STEBBINS, R. C. 1985. A field guide to western reptiles and amphibians. Houghton Mifflin, Boston.
34. TIHEN. J. A. 1958. Comments on the osteology and phylogeny of ambystoniatid salamanders. Bull. Fla. State Mus. Biol. Sci. 3:1-50.
35. WALLIS, G. P. 1987. Mitochondrial DNA insertion polymorphism and germ line heteroplasmy in the Triturus crislatus complex. Heredity 58:229-238.
36. WOLSTENHOLME, D. R. 1992. Animal mitochondrial DNA: structure and evolution. Int. Rev. Cytol. 141:173-216.
37. ZEVERING, C. E., C. MORITZ, A. HEIDEMAN, and R. A. STRUM. 1991. Parallel origins of duplications and the formation of pseudogenes in mitochondnal DNA from parthenogenetic lizards (Heteronotia binoei; Gekkonidae). J. Mol. Evol. 33:431-441.
38. ZUKER, M., J. A. JAEGER, and D. H. TURNER. 1991. A comparison of optimal and suboptimal RNA secondary structures predicted by free energy minimization with structures determined by phylogenetic comparison. Nucleic Acids Res. 19:2707-2714.