Summary
Recent sequencing of over 2300 nucleotides containing the alcohol dehydrogenase (Adh) locus in each of 11Drosophila melanogaster lines makes it possible to estimate the approximate age of the electrophoretic “fast-slow” polymorphism. Our estimates, based on various possible patterns of evolution, range from 610,000 to 3,500,000 years, with 1,000,000 years as a reasonable point estimate. Furthermore, comparison of these sequences with those of the homologous region ofD. simulans andD. mauritiana allows us to infer the pattern of evolutionary change of theD. melanogaster sequences. The integrity of the Adh-f electrophoretic alleles as a single lineage is supported by both unweighted pair-group method (UPGMA) and parsimony analyeses. However, considerable divergence among the Adh-s lines seems to have preceded the origin of the Adh-f allele. Comparisons of the sequences ofD. melanogaster genes with those ofD. simulans andD. mauritiana genes suggest that the split between the latter two species occurred more recently than the divergence of some of the present-day Adh-s genes inD. melanogaster. The phylogenetic analyses of theD. melanogaster sequences show that the fastslow distinction is not perfect, and suggest that intragenic recombination or gene conversion occurred in the evolution of this locus. We extended conventional phylogenetic analyses by using a statistical technique for detecting and characterizing recombination events. We show that the pattern of differentiation of DNA sequences inD. melanogaster is roughly compatible with the neutral theory of molecular evolution.
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References
Aquadro CF, Kaplan N, Risko KJ (1984) An analysis of the dynamics of mammalian mitochondrial DNA sequence evolution. Mol Biol Evol 1:423–434
Ashburner M, Bodmer M, Lemeunier F (1984) On the evolutionary relationships ofDrosophila melanogaster. Dev Genet 4:295–312
Bodmer M, Ashburner M (1984) Conservation and change in the DNA sequence coding for alcohol dehydrogenase in sibling species ofDrosophila. Nature 309:425–430
Brown AHD, Clegg MT (1983) Analysis of variation in related DNA sequences. In: Weir BS (ed) Statistical analysis of DNA sequence data. Marcel Dekker, New York, pp 107–132
Chakraborty R (1977) Estimation of time of divergence from phylogenetic studies. Can J Genet Cytol 19:217–223
Cohn VH, Thompson MA, Moore GP (1984) Nucleotide sequence comparison of the Adh gene in three drosophilids. J Mol Evol 20:31–37
Easteal S, Oakeshott JG (1985) Estimating divergence times ofDrosophila species from DNA sequence comparisons. Mol Biol Evol 2:87–91
Fitch WM (1977) On the problem of discovering the most parsimonious tree. Am Nat 111:223–257
Fitch WM, Margoliash E (1967) Construction of phylogenetic trees. Science 155:279–284
Hudson RR (1983) Properties of a neutral allele model with intragenic recombination. Theor Popul Biol 23:183–201
Johnson FM, Schaffer HE (1973) Isozyme variability in species of the genusDrosophila. VII. Genotype-environment relationships in populations ofDrosophila melanogaster from the eastern United States. Biochem Genet 10:149–163
Jukes TH, Cantor CH (1969) Evolution of protein molecules. In: Munro HN (ed) Mammalian protein metabolism. Academic Press, New York, pp 21–132
Kazazian HH Jr, Chakravarti A, Orkin SH, Antonarakis SE (1983) DNA polymorphisms in the human β globin gene cluster. In: Nei M, Koehn RK (ed) Evolution of genes and proteins. Sinauer Associates, Sunderland, Massachusetts, pp 137–146
Kimura M (1969) The number of heterozygous nucleotide sites maintained in a finite population due to steady flux of mutations. Genetics 61:893–903
Kimura M (1983) The neutral theory of molecular evolution. Cambridge University Press, London
Kimura M, Ohta T (1972) On the stochastic model for estimation of mutational distance between homologous proteins. J Mol Evol 2:87–90
Kingman JFC (1982) On the genealogy of large populations. J Appl Prob 19A:27–43
Kreitman M (1983) Nucleotide polymorphism at the alcohol dehydrogenase locus ofDrosophila melanogaster. Nature 304: 412–417
Li W-H, Gojobori T (1983) Rapid evolution of goat and sheep globin genes following gene duplication. Mol Biol Evol 1:94–108
Li W-H, Luo C-C, Wu C-I (1985) Evolution of DNA sequences. In: MacIntyre RJ (ed) Molecular evolutionary genetics. Plenum Press, New York, pp 1–94
Nei M, Li W-H (1979) Mathematical model for studying genetic variation in terms of restriction endonucleases. Proc Natl Acad Sci USA 76:5269–5273
Nei M, Tajima F (1981) DNA polymorphism detectable by restriction endonucleases. Genetics 97:145–163
Nei M, Tajima F, Tateno Y (1983) Accuracy of estimated phylogenetic trees from molecular data. II. Gene frequency data. J Mol Evol 19:153–170
Nei M, Stephens JC, Saitou N (1985) Methods for computing the standard errors of branching points in an evolutionary tree and their application to molecular data from humans and apes. Mol Biol Evol 2:66–85
Oakeshott JG, Gibson JB, Anderson PR, Knibb WR, Anderson DG, Chambers GK (1982) Alcohol dehydrogenase and glycerol-3-phosphate dehydrogenase clines inDrosophila melanogaster on different continents. Evolution 36:86–96
Stephens JC (1985) Statistical methods of DNA sequence analysis: detection of intragenic recombination or gene conversion. Mol Biol Evol 2:539–556
Tajima F (1983) Evolutionary relationship of DNA sequences in finite populations. Genetics 105:437–460
Takahata N, Nei M (1985) Gene genealogy and variance of interpopulational nucleotide differences. Genetics 110:323–344
Tateno Y, Nei M, Tajima F (1982) Accuracy of estimated phylogenetic trees from molecular data. I. Distantly related species. J Mol Evol 18:387–404
Thatcher DR (1980) The complete amino acid sequence of three alcohol dehydrogenase alleloenzymes (AdhN-11, Adhs and AdhUF) from the fruitflyDrosophila melanogaster. Biochem J 187:875–886
Watterson GA (1975) On the number of segregating sites in genetic models without recombination. Theor Popul Biol 7: 256–276
Zwiebel LJ, Cohn VH, Wright DR, Moore GP (1982) Evolution of single-copy DNA and the ADH gene in seven drosophilids. J Mol Evol 19:62–71
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Claiborne Stephens, J., Nei, M. Phylogenetic analysis of polymorphic DNA sequences at the Adh locus inDrosophila melanogaster and its sibling species. J Mol Evol 22, 289–300 (1985). https://doi.org/10.1007/BF02115684
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DOI: https://doi.org/10.1007/BF02115684