Nucleotide variation at the runt locus in Drosophila melanogaster and Drosophila simulans

Molecular Biology and Evolution

Volumn 16, Issue 6, 1999, Pages 724-731

  Labate, Joanne A ^a,b   Biermann, Christiane H ^a   Eanes, Walter F ^a  

^a STONY BROOK UNIVERSITY   (United States)

^b IOWA STATE UNIVERSITY   (United States)

Author keywords

Drosophila melanogaster; Drosophila simulans; Molecular evolution; Polymorphism; Population genetics; Runt

Indexed keywords

NUCLEOTIDE;

ALLELE; ARTICLE; DROSOPHILA MELANOGASTER; GENE LOCUS; GENE SEQUENCE; GENETIC POLYMORPHISM; GENETIC RECOMBINATION; GENETIC VARIABILITY; HETEROZYGOSITY; MOLECULAR EVOLUTION; NONHUMAN; NUCLEOTIDE SEQUENCE; POPULATION GENETICS; SIMULATION;

DROSOPHILA MELANOGASTER; DROSOPHILA SIMULANS; MARTES PENNANTI; MELANOGASTER;

EID: 0032975573     PISSN: 07374038     EISSN: None     Source Type: Journal    
DOI: 10.1093/oxfordjournals.molbev.a026157     Document Type: Article

References (48)

1. AGUADÉ, M., N. MIYASHITA, and C. H. LANGLEY. 1989. Reduced variation in the yellow-achaete-scute region in natural populations of Drosophila melanogaster. Genetics 122:607-615.
2. AKASHI, H. 1994. Synonymous codon usage in Drosophila melanogaster: natural selection and translational accuracy. Genetics 136:927-935.
3. _. 1996. Molecular evolution between Drosophila melanogaster and D. simulans: reduced codon bias, faster rates of amino acid substitution, and larger proteins in D. melanogaster. Genetics 144:1297-1307.
4. BALLARD, W. O. J., and M. KREITMAN. 1994. Unraveling selection in the mitochondrial genome of Drosophila. Genetics 138:757-772.
5. BEGUN, D. J. 1996. Population genetics of silent and replacement variation in Drosophila simulans and D. melanogaster: X/autosome differences? Mol. Biol. Evol. 13:1405-1407.
6. BEGUN, D. J., and C. F. AQUADRO. 1992. Levels of naturally occurring DNA polymorphism correlate with recombination rates in D. melanogaster. Nature 356:519-520.
7. _. 1993. African and North American populations of Drosophila melanogaster are very different at the DNA level. Nature 365:548-550.
8. _. 1995a. Evolution at the tip and base of the X chromosome in an African population of Drosophila melanogaster. Mol. Biol. Evol. 12:382-390.
9. _. 1995b. Molecular variation at the vermilion locus in geographically diverse populations of Drosophila melanogaster and D. simulans. Genetics 140:1019-1032.
10. BERRY, A. J., J. W. AJIOKA, and M. KREITMAN. 1991. Lack of polymorphism on the Drosophila fourth chromosome resulting from selection. Genetics 129:1111-1117.
11. BRAVERMAN, J. M., R. R. HUDSON, N. L. KAPLAN, C. H. LANGLEY, and W. STEPHAN. 1995. The hitchhiking effect on the site frequency spectrum of DNA polymorphisms. Genetics 140:783-796.
12. CACCONE, A., E. N. MORIYAMA, J. M. GLEASON, L. NIGRO, and J. R. POWELL. 1996. A molecular phylogeny for the Drosophila melanogaster subgroup and the problem of polymorphism data. Mol. Biol. Evol. 13:1224-1232.
13. CHARLESWORTH, D., B. CHARLESWORTH, and M. T. MORGAN. 1995. The pattern of neutral molecular variation under the background selection model. Genetics 141:1619-1632.
14. COYNE, J. A., and M. KREITMAN. 1986. Evolutionary genetics of two sibling species, Drosophila simulans and D. sechellia. Evolution 40:673-691.
15. DUFFY, J. B., and J. P. GERGEN. 1991. The Drosophila segmentation gene runt acts as a position-specific numerator element necessary for the uniform expression of the sex-determining gene Sex-lethal. Genes Dev. 5:2176-2187.
16. DUFFY, J. B., M. A. KANIA, and J. P. GERGEN. 1991. Expression and function of the Drosophila gene runt in early stages of neural development. Development 113:1223-1230.
17. EANES, W. F., J. W. AJIOKA, J. HEY, and C. WESLEY. 1989. Restriction-map variation associated with the G6PD polymorphism in natural populations of Drosophila melanogaster. Mol. Biol. Evol. 6:384-397.
18. EANES, W. F., M. KIRCHNER, J. YOON, C. H. BIERMANN, I.-N. WANG, M. A. MCCARTNEY, and B. C. VERRELLI. 1996. Historical selection, amino acid polymorphism and lineage-specific divergence at the G6pd locus in Drosophila melanogaster and D. simulans. Genetics 144:1027-1041.
19. FU, Y.-X., and W.-H. LI. 1993. Statistical tests of neutrality of mutations. Genetics 133:693-709.
20. HAMBLIN, M. T., and C. F. AQUADRO. 1996. High nucleotide sequence variation in a region of low recombination in Drosophila simulans is consistent with the background seo lection model. Mol. Biol. Evol. 13:1133-1140.
21. _. 1997. Contrasting patterns of nucleotide sequence variation at the glucose dehydrogenase (Gld) locus in different populations of Drosophila melanogaster. Genetics 145:1053-1062.
22. HASSON, E., I.-N. WANG, L.-W. ZENG, M. KREITMAN, and W. F. EANES. 1998. Nucleotide variation in the triosephosphate isomerase (Tpi) locus of Drosophila melanogaster and Drosophila simulans. Mol. Biol. Evol. 15:756-769.
23. HEY, J., and R. M. KLIMAN. 1993. Population genetics and phylogenetics of DNA sequence variation at multiple loci within the Drosophila melanogaster species complex. Mol. Biol. Evol. 10:804-822.
24. HUDSON, R. R. 1987. Estimating the recombination parameter of a finite population model without selection. Genet. Res. 50:245-250.
25. _. 1990. Gene genealogies and the coalescent process. Pp. 1-44 in D. FUTUYMA and J. ANTONOVICS, eds. Oxford surveys in evolutionary biology. Oxford University Press, New York.
26. _. 1993. The how and why of generating gene genealogies. Pp. 23-36 in N. TAKAHATA and A. G. CLARK, eds. Mechanisms of molecular evolution. Sinauer, Sunderland, Mass.
27. HUDSON, R. R., K. BAILEY, D. SKARECKY, J. KWIATOWSKI, and F. J. AYALA. 1994. Evidence for positive selection in the superoxide dismutase (Sod) region of Drosophila melanogaster. Genetics 136:1329-1340.
28. HUDSON, R. R., and N. L. KAPLAN. 1985. Statistical properties of the number of recombination events in the history of a sample of DNA sequences. Genetics 111:147-164.
29. _. 1988. The coalescent process in models with selection and recombination. Genetics 120:831-840.
30. HUDSON, R. R., M. KREITMAN, and M. AGUADÉ. 1987. A test of neutral molecular evolution based on nucleotide data. Genetics 116:153-159.
31. KANIA, M. A., A. S. BONNER, J. B. DUFFY, and J. P. GERGEN. 1990. The Drosophila segmentation gene runt encodes a novel nuclear regulatory protein that is also expressed in the developing nervous system. Genes Dev. 4:1701-1713.
32. KAPLAN, N. L., R. R. HUDSON, and C. H. LANGLEY. 1989. The "hitchhiking effect" revisited. Genetics 123:887-899.
33. KLIMAN, R. M., and J. HEY. 1993. DNA sequence variation at the period locus within and among species of the Drosophila melanogaster complex. Genetics 133:375-387.
34. KREITMAN, M. 1983. Nucleotide polymorphism at the alcohol dehydrogenase locus of Drosophila melanogaster. Nature 304:412-417.
35. KREITMAN, M., and R. R. HUDSON. 1991. Inferring the evolutionary histories of the Adh and Adh-dup loci in Drosophila melanogaster from patterns of polymorphism and divergence. Genetics 127:565-582.
36. LANGLEY, C. H., J. MACDONALD, N. MIYASHITA, and M. AGUADÉ. 1993. Lack of correlation between interspecific divergence and intraspecific polymorphism at the suppressor of forked region in Drosophila melanogaster and Drosophila simulans. Proc. Natl. Acad. Sci. USA 90:1800-1803.
37. LI, W.-H., and D. GRAUR. 1991. Fundamentals of molecular evolution. Sinauer, Sunderland, Mass.
38. MCDONALD, J. H., and M. KREITMAN. 1991. Adaptive protein evolution at the ADH locus in Drosophila. Nature 351: 652-654.
39. MORIYAMA, E. N., and J. R. POWELL. 1996. Intraspecific nuclear DNA sequence variation in Drosophila. Mol. Biol. Evol. 13:261-277.
40. NEI, M., and W.-H. LI. 1979. Mathematical model for studying genetic variation in terms of restriction endonucleases. Proc. Natl. Acad. Sci. USA 76:5269-5273.
41. NÜSSLEIN-VOLHARD, C., and E. WIESCHAUS. 1980. Mutations affecting segment number and polarity in Drosophila. Nature 287:795-801.
42. O'NEIL, M. T., and J. M. BELOTE. 1992. Interspecific comparison of the transformer gene of Drosophila reveals an unusually high degree of evolutionary divergence. Genetics 131:113-128.
43. RAND, D. M., M. DORFSMAN, and L. M. KANN. 1994. Neutral and non-neutral evolution of Drosophila mitochondrial DNA. Genetics 138:741-756.
44. RICHTER, B., M. LONG, R. C. LEWONTIN, and E. NITASAKA. 1997. Nucleotide variation and conservation at the dpp locus, a gene controlling early development in Drosophila. Genetics 145:311-323.
45. TAJIMA, F. 1989. Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123: 585-595.
46. TAYLOR, W. R. 1986. The classification of amino acid conservation. J. Theor. Biol. 119:205-218.
47. WALTHOUR, C. S., and S. W. SCHAEFFER. 1994. Molecular population genetics of sex determination genes - the transformer gene of Drosophila melanogaster. Genetics 136:1367-1372.
48. WATTERSON, G. A. 1975. On the number of segregating sites in genetical models without recombination. Theor. Popul. Biol. 7:256-276.