Evolutionary dynamics of tandem repeats in the mitochondrial DNA control region of the minnow Cyprinella spiloptera

Molecular Biology and Evolution

Volumn 14, Issue 12, 1997, Pages 1187-1196

  Broughton, Richard E ^a,b   Dowling, Thomas E ^a  

^a ARIZONA STATE UNIVERSITY   (United States)

^b Cornell University ^*  (United States)

Author keywords

Cyprinella spiloptera; Mitochondrial DNA; Tandem repeat evolution

Indexed keywords

MITOCHONDRIAL DNA;

ARTICLE; CONTROLLED STUDY; FISH; GENETIC MODEL; MOLECULAR EVOLUTION; NONHUMAN; NUCLEOTIDE SEQUENCE; TANDEM REPEAT;

ANIMALIA; CYPRINELLA SPILOPTERA; CYPRINIDAE; PHOXINUS PHOXINUS;

EID: 0030728456     PISSN: 07374038     EISSN: None     Source Type: Journal    
DOI: 10.1093/oxfordjournals.molbev.a025728     Document Type: Article

References (40)

1. ARNASON, E., and D. M. RAND. 1992. Heteroplasmy of short tandem repeats in mitochondrial DNA of Atlantic cod, Ga- dus morhua. Genetics 132:211-220.
2. BROUGHTON, R. E., and T. E. DOWLING. 1994. Length variation in mitochondrial DNA of the minnow Cyprinella spilop- tera. Genetics 138:179-190.
3. BROWN, J. R., A. T. BECKENBACH, and M. J. SMITH. 1992. Mitochondrial DNA length variation and heteroplasmy in populations of white sturgeon (Acipenser transmontanus). Genetics 132:221-228.
4. BROWN, W. M. 1985. The mitochondrial genome of animals. Pp. 95-130 in R. MACINTYRE, ed. Molecular evolutionary genetics. Plenum Press, New York.
5. BUROKER, N. E., J. R. BROWN, T. A. GILBERT, P. J. O'HARA, A. T. BECKENBACH, W. K. THOMAS, and M. J. SMITH. 1990. Length heteroplasmy of sturgeon mitochondrial DNA; an illegitimate elongation model. Genetics 124:157-163.
6. CHANG, D. D., W. W. HAUSWIRTH, and D. A. CLAYTON. 1985. Replication priming and transcription initiate from precisely the same site in mouse mitochondrial DNA. EMBO J. 4:1559-1567.
7. CLAYTON, D. A. 1991. Nuclear gadgets in mitochondrial DNA replication and transcription. Trends Biochem. Sci. 16:107-111.
8. _. 1992. Transcription and replication of animal mitochondrial DNAs. Int. Rev. Cytol. 141:217-232.
9. DEVEREUX, J., P. HAEBERLI, and O. SMITHIES. 1984. A comprehensive set of sequence analysis programs for the VAX. Nucleic Acids Res. 12:387-395.
10. DOVER, G. A. 1982. Molecular drive: a cohesive mode of species evolution. Nature 299:111-117.
11. ELDER, J. F., and B. J. TURNER. 1995. Concerted evolution of repetitive DNA sequences in eukaryotes. Q. Rev. Biol. 70:297-319.
12. FORAN, D. R., J. E. HIXSON, and W. M. BROWN. 1988. Com- parisons of ape and human sequences that regulate mitochondrial DNA transcription and D-loop synthesis. Nucleic Acids Res: 13:5841-5861.
13. FUMAGALLI, L., P. TABERLET, L. FAVRE, and J. HAUSSER. 1996. Origin and evolution of homologous repeated sequences in the mitochondrial DNA control region of shrews. Mol. Biol. Evol. 13:31-46.
14. GHIVIZZANI, S. C., S. L. D. MACKAY, C. S. MADSEN, P. J. LAIPIS, and W. W. HAUSWIRTH. 1993. Transcribed heteroplasmic repeated sequences in the porcine mitochondrial DNA D-loop region. J. Mol. Evol. 37:36-47.
15. GLICKMAN, B. W., and L. S. RIPLEY. 1984. Structural intermediates of deletion mutagenesis: a role for palindromic DNA. Proc. Natl. Acad. Sci. USA 81:512-516.
16. HAYASAKA, K., T. ISHIDA, and S. HORAI. 1991. Heteroplasmy and polymorphism in the major noncoding region of mitochondrial DNA in Japanese monkeys: association with tandemly repeated sequences. Mol. Biol. Evol. 8:399-415.
17. HOELZEL, A. R., J. M. HANCOCK, and G. A. DOVER. 1993. Generation of VNTRs and heteroplasmy by sequence turn-over in the mitochondrial control region of two elephant seal species. J. Mol. Evol. 37:190-197.
18. KUMAR, S., K. TAMURA, and M. NEI. 1993. MEGA: molecular evolutionary genetics analysis. The Pennsylvania State University, University Park.
19. LEE, W.-J., J. CONROY, W. H. HOWELL, and T. D. KOCHER. 1995. Structure and evolution of teleost mitochondrial control regions. J. Mol. Evol. 41:54-66.
20. LEVINSON, G., and G. A. GUTMAN. 1987. Slipped-strand mispairing: a major mechanism for DNA sequence evolution. Mol. Biol. Evol. 4:203-221.
21. MADSEN, C. S., S. C. GHIVIZZANI, and W. W. HAUSWIRTH. 1993. In vivo and in vitro evidence for slipped mispairing in mammalian mitochondrial DNA. Proc. Natl. Acad. Sci. USA 90:7671-7675.
22. MUNDY, N. I., C. S. WINCHELL, and D. S. WOODRUFF. 1996. Tandem repeats and heteroplasmy in the mitochondrial DNA control region of the loggerhead shrike (Lanius ludovicianus). J. Hered. 87:21-26.
23. OHTA, T. 1983. On the evolution of multigene families. Theor. Popul. Biol. 23:216-240.
24. PIERCE, J. C., D. KONG, and W. MASKER. 1991. The effect of the length of direct repeats and the presence of palindromes on deletion between directly repeated DNA sequences in bacteriophage T7. Nucleic Acids Res. 19:3901-3905.
25. RAND, D. M. 1993. Endotherms, ectotherms, and mitochondrial genome-size variation. J. Mol. Evol. 37:281-295.
26. _. 1994. Concerted evolution and RAPing in mitochondrial VNTRs and the molecular geography of cricket populations. Pp. 227-245 in B. SCHIERWATER, B. STREIT, G. P. WAGNER, and R. DESALLE, eds. Molecular ecology and evolution: approaches and applications. Birkhauser Verlag, Basel.
27. RICE, W. R. 1989. Analyzing tables of statistical tests. Evolution 43:223-225.
28. RZHETSKY, A., and M. NEI. 1992. A simple method for estimating and testing minimum-evolution trees. Mol. Biol. Evol. 9:945-967.
29. SACCONE, C., G. PESOLE, and E. SBISA. 1991. The main regulatory region of mammalian mitochondrial DNA: structure-function model and evolutionary pattern. J. Mol. Evol. 33:83-91.
30. SAITOU, N., and M. NEI. 1987. The neighbor joining method: a new method for reconstructing phylogenetic trees. Mol Biol. Evol. 4:406-425.
31. SHEDLOCK, A. M., J. D. PARKER, D. A. CRISPIN, T. W. PIETSCH, and G. C. BURMER. 1992. Evolution of the salmonid mi- tochondrial control region. Mol. Phylogenet. Evol. 1:179-192.
32. SMITH, G. P. 1973. Unequal crossover and the evolution of multigene families. Cold Spring Harb. Symp. Quant. Biol. 38:507-513.
33. SOLIGNAC, M., M. MONNEROT, and J.-C. MOUNOLOU. 1986. Concerted evolution of sequence repeats in Drosophila mitochondrial DNA. J. Mol. Evol. 24:53-60.
34. STANTON, D. J., L. L. DAHLER, C. MORITZ, and W. M. BROWN. 1994. Sequences with the potential to form stem-and-loop structures are associated with coding-region duplications in animal mitochondrial DNA. Genetics 137:233-241.
35. STEWART, D. T., and A. J. BAKER. 1994. Patterns of sequence variation in the mitochondrial D-loop region of shrews. Mol. Biol. Evol. 11:9-21.
36. SWOFFORD, D. L. 1993. PAUP: phylogenetic analysis using parisimony. Version 3.1.1. Illinois Natural History Survey, Champaign.
37. TEMPLETON, A. R. 1983. Phylogenetic inference from restriction endonuclease cleavage site maps with particular refer- ence to the evolution of humans and the apes. Evolution 37:221-244.
38. TURNER, T. F. 1997. Mitochondrial control region sequences and phylogenetic systematics of darters (Teleostei: Percidae). Copeia 1997:319-338.
39. WILKINSON, G. S., and A. M. CHAPMAN. 1991. Length and sequence variation in evening bat D-loop mtDNA. Genetics 128:607-617.
40. WILKINSON, G. S., F. MAYER, G. KERTH, and B. PETRI. 1997. Evolution of repeated sequence arrays in the D-loop of bat mitochondrial DNA. Genetics 146:1035-1048.