Is Esterase-P encoded by a cryptic pseudogene in Drosophila melanogaster?

Genetics

Volumn 144, Issue 4, 1996, Pages 1511-1518

  Balakirev, Evgeniy S ^a,b   Ayala, Francisco J ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b INSTITUTE OF MARINE BIOLOGY   (Russian Federation)

Author keywords

[No Author keywords available]

Indexed keywords

ESTERASE;

ARTICLE; CODON; DROSOPHILA MELANOGASTER; GENE AMPLIFICATION; GENE EXPRESSION; GENE SEQUENCE; NONHUMAN; PRIORITY JOURNAL; PSEUDOGENE;

AMINO ACID SEQUENCE; ANIMALS; BASE SEQUENCE; DROSOPHILA MELANOGASTER; ESTERASES; MOLECULAR SEQUENCE DATA; PSEUDOGENES;

DROSOPHILA MELANOGASTER; MELANOGASTER;

EID: 0030482589     PISSN: 00166731     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (87)

1. ARNHEIM, N., 1983 Concerted evolution of multigene families, pp. 38-61 in Evolution of Genes and Proteins, edited by M. NEI and R. KOEHN. Sinauer Associates, Sunderland, MA.
2. ARONSHTAM, A. D., and B. A. KUSIN, 1974 Formation of sexual dimorphism of est-6 gene expression in development of Drosophila melanogaster and Drosophila simulans. Zh. Obshchei Biologii 35: 926-933 (in Russian).
3. ATKINSON, P. W., L. E. MILLS, W. T. STARMER and D. T. SULLIVAN, 1988 Structure and evolution of the Adh genes of Drosophila mojavensis. Genetics 120: 713-723.
4. AUBERT, D., C. BISANZ-SEYER and M. HERZOG, 1992 Mitochondrial rps 14 is a transcribed and edited pseudogene in Arabidopsis thaliana. Plant Mol. Biol. 20: 1169-1174.
5. BRADY, J. P., and R. C. RICHMOND, 1992 An evolutionary model for the duplication and divergence of esterase genes in Drosophila. J. Mol. Evol. 34: 506-521.
6. BRADY, J. P., R. C. RICHMOND and J. G. OAKESHOTT, 1990 Cloning of the esterase-5 locus from Drosophila pseudoobscura and comparison with its homologue in D. melanogaster. Mol. Biol. Evol. 7: 525-546.
7. CARTER, P., and J. A. WELLS, 1988 Dissecting the catalytic triad of a serine protease. Nature 332: 564-568.
8. COLLET, C., K. M. NIELSEN, R. J. RUSSELL, M. KARL, J. G. OAKESHOTT et al., 1990 Molecular analysis of duplicated esterase genes in Drosophila melanogaster. Mol. Biol. Evol. 7: 9-28.
9. CURRIE, P. D., and D. T. SULLIVAN, 1994 Structure, expression and duplication of genes which encode phosphoglyceromutase of Drosophila melanogaster. Genetics 138: 353-363.
10. EAST, P. D., A. GRAHAM and G. WHITINGTON, 1990 Molecular isolation and preliminary characterisation of a duplicated esterase locus in Drosophila buzzatii, pp. 389-406 in Ecological and Evolutionary Genetics of Drosophila, edited by J. S. F. BARKER, W. T. STARMER and R. J. MACINTURE. Plenum Press, New York.
11. FEDOROFF, N. V., and D. D. BROWN, 1978 The nucleotide sequence of the repeating unit in the oocyte 5S ribosomal DNA of Xenopus laevis. Cold Spring Harbor Symp. Quant. Biol. 42: 1195-1200.
12. FISHER, R. A., 1935 The sheltering of lethals. Amer. Nat. 69: 446-453.
13. FISHER, J. A., and T. MANIATIS, 1985 Structure and transcription of the Drosophila mulleri alcohol dehydrogenase. Nucleic Acids Res. 13: 6899-6917.
14. FÜRBAß, R., and J. VANSELOW, 1995 An aromatase pseudogene is transcribed in the bovine placenta. Gene 154: 287-291.
15. GEORGIEV, P., and V. YELAGIN, 1992 Super-unstable mutations associated with P-M hybrid dysgenesis in Drosophila melanogaster. Genetica 87: 17-29.
16. GILBERT, D. J., and R. C. RICHMOND, 1982 Esterase 6 in Drosophila melanogaster: reproductive function of active and null males at low temperature. Proc. Natl. Acad. Sci. USA 79: 2962-2966.
17. GOJOBORI, T., W.-H. LI and D. GRAUR, 1982 Patterns of nucleotide substitution in pseudogenes and functional genes. J. Mol. Evol. 18: 360-369.
18. HEALY, M. J., M. M. DUMANCIC and J. G. OAKESHOTT, 1991 Biochemical and physiological studies of soluble esterases from Drosophila melanogaster. Biochem. Genet. 29: 365-388.
19. HICKEY, D. A., L. BALLY-CUIF, S. ABUKASHAWA, V. PAYANT and B. F. BENKEL, 1991 Concerted evolution of duplicated protein-coding genes in Drosophila. Proc. Natl. Acad. Sci. USA 88: 1611-1615.
20. HUDSON, R. R., K. BAILEY, A. 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.
21. JACQ, C., J. R. MILLER and G. G. BROWNLEE, 1977 A pseudogene structure in 5S DNA of Xenopus laevis. Cell 12: 109-120.
22. JEFFS, P., and M. ASHBURNER, 1991 Processed pseudogenes in Drosophila. Proc. R. Soc. London B 244: 151-159.
23. JEFFS, P. S., E. C. HOLMES and M. ASHBURNER, 1994 The molecular evolution of the alcohol dehydrogenase and alcohol dehydrogenase-related genes in the Drosophila melanogaster species subgroup. Mol. Biol. Evol. 11: 287-304.
24. JOHNSON, F. M., B. B. WALLIS and C. DENNISTON, 1966 Recessive esterase deficiencies controlled by alleles of Est C and Est 6 in D. melanogaster. Drosoph. Inf. Serv. 41: 159.
25. KIMURA, M., 1983 The Neutral Theory of Molecular Evolution. Cambridge University Press, Cambridge.
26. KOROCHKIN, L., A. ARONSHTAM and N. MATVEEVA, 1974 Genetics of esterases in Drosophila. III. Influence of different chromosomes on esterase pattern in Drosophila. Biochem. Genet. 12: 9-24.
27. KOROCHKIN, L. I., M. Z. LUDWIG, E. V. POLIAKOVA and M. R. PHILINOVA, 1987 Some molecular genetic aspects of cellular differentiation in Drosophila. Sov. Sci. Rev. F. Physiol. Gen. Biol. 1: 411-466.
28. KOROCHKIN, L., M. LUDWIG, N. TAMARINA, I. USPENSKY, G. YENIKOLOPOV et al., 1990 Molecular genetic mechanisms of tissue-specific esterase isozymes and protein expression in Drosophila, pp. 399-440 in Isozymes: Structure, Function, and Use in Biology and Medicine, edited by C. MARKERT and J. SCANDALIOS. Wiley-Liss, Inc. New York.
29. KUMAR, S., K. TAMURA and M. NEI, 1993 MEGA: molecular evolutionary genetics analysis, version 1.0. The Pennsylvania State University, University Park, PA.
30. KUZIN, B., A. ARONSHTAM and L. KOROCHKIN, 1975 Studies of the determination of the est-6 gene expression in male genitals of Drosophila melanogaster. Ontogenez 6: 323-330 (in Russian).
31. KWIATOWSKI, J., D. SKARECKY, S. HERNANDEZ, D. PHAM, F. QUIJAS et al., 1991 High fidelity of the polymerase chain reaction. Mol. Biol. Evol. 8: 884-887.
32. KWIATOWSKI, J., D. SKARECKY, K. BAILEY and F. J. AYALA, 1994 Phylogeny of Drosophila and related genera inferred from the nucleotide sequence of the CU, ZN SOD gene. J. Mol. Evol. 38: 443-454.
33. KYLSTEN, P., C. SAMAKOVLIS and D. HULTMARK, 1990 The cecropin loeus in Drosophila; a compact gene cluster involved in the response to infection. EMBO J. 9: 217-224.
34. LANGLEY, C. H., R. A. VOELKER, A. J. LEIGH BROWN, S. OHNISHI, B. DICKSON et al., 1981 Null allele frequencies at allozyme loci in natural populations of Drosophila melanogaster. Genetics 99: 151-156.
35. LI, W.-H., 1980 Rate of gene silencing at duplicate loci: a theoretical study and interpretation of data from tetraploid fishes. Genetics 95: 237-258.
36. LI, W.-H., 1982 Evolutionary change of duplicate genes, pp. 55-92 in Isozymes: Current Topics in Biological and Medical Research, Vol. 6, edited by M. C. RATTAZZI, J. G. SCANDALIOS and G. S. WHITT. Alan R. Liss, New York.
37. LI, W.-H., 1983 Evolution of duplicate genes and pseudogenes, pp. 14-37 in Evolution of Genes and Proteins, edited by M. NEI and R. K. KOEHN. Sinauer Associates, Sunderland, MA.
38. LI, W.-H., 1993 Unbiased estimation of the rates of synonymous and nonsynonymous substitution. J. Mol. Evol. 36: 96-99.
39. LI, W.-H., T. GOJOBORI and M. NEI, 1981 Pseudogenes as a paradigm of neutral evolution. Nature 292: 237-239.
40. LI, W.-H., C.-I. WU and C.-C. LUO, 1985a A new method for estimating synonymous and nonsynonymous rates of nucleotide substitution considering the relative likelihood of nucleotide and codon changes. Mol. Biol. Evol. 2: 150-174.
41. LI, W.-H., C.-C. LUO and C.-I WU, 1985b Evolution of DNA sequences, pp. 1-94 in Molecular Evolutionary Genetics, edited by R. J. MACINTYRE. Plenum Press, New York.
42. LUDWIG, M. Z., N. A. TAMARINA and R. C. RICHMOND, 1993 Localization of sequences controlling the spatial, temporal, and sex-specific expression of the esterase 6 locus in Drosophila melanogaster adults. Proc. Natl. Acad. Sci. USA 90: 6233-6237.
43. MANE, S. D., C. S. TEPPER and R. C. RICHMOND, 1983 Purification and characterization of esterase 6, a polymorphic carboxylesterase of Drosophila melanogaster. Biochem. Genet. 21: 1019-1040.
44. MATTERS, G. L., and U. W. GOODENOUGH, 1992 A gene/pseudogene tandem duplication encodes a cysteine-rich protein expressed during zygote development in Chlamydomonas reinhardtii. Mol. Gen. Genet. 232: 81-88.
45. MCCARREY, J. R., and K. THOMAS, 1987 Human testis-specific PGK gene lacks introns and possesses characteristics of a processed gene. Nature 326: 501-505.
46. MENOTTI-RAYMOND, M., W. T. STARMER and D. T. SULLIVAN, 1991 Characterization of the structure and evolution of the Adh region of Drosophila hydei. Genetics 127: 355-366.
47. MIYATA, T., and H. HAYASHIDA, 1981 Extraordinarily high evolutionary rate of pseudogenes: evidence for the presence of selective pressure against changes between synonymous codons. Proc. Natl. Acad. Sci. USA 78: 5739-5743.
48. MIYATA, T., and T. YASUNAGA, 1981 Rapidly evolving mouse a globin-related pseudo gene and its evolutionary history. Proc. Natl. Acad. Sci. USA 78: 450-453.
49. MODIANO, G., G. BATTISTUZZI and A. G. MOTULSKY, 1981 Nonrandom patterns of codon usage and of nucleotide substitutions in human α- and β-globin genes: an evolutionary strategy reducing the rate of mutations with drastic effects? Proc. Natl. Acad. Sci. USA 78: 1110-1114.
50. MYERS, M., R. C. RICHMOND and J. G. OAKESHOTT, 1988 On the origins of esterases. Mol. Biol. Evol. 5: 113-119.
51. NAGYIAKI, T., 1984 The evolution of multigene families under intrachromosomal gene conversion. Genetics 106: 529-548.
52. NEI, M., and A. K. ROYCHOUDHURY, 1973 Probability of fixation of nonfunctional genes at duplicate loci. Amer. Nat. 107: 362-372.
53. OAKESHOTT, J. G., P. H. COOKE, R. C. RICHMOND, A. BORTOLI, A. Y. GAME et al., 1989 Molecular population genetics of structural variance of esterase-6 in Drosophila melanogaster. Genome 31: 788-796.
54. OAKESHOTT, J. G., E. A. VAN PAPENRECHT, T. M. BOYCE, M. J. HEALY and R. J. RUSSELL, 1993 Evolutionary genetics of Drosophila esterases. Genetica 90: 239-268.
55. OAKESHOTT, J. G., T. M. BOYCE, R. J. RUSSELL and M. J. HEALY, 1995 Molecular insights into the evolution of an enzyme; esterase 6 in Drosophila. TREE 10: 103-110.
56. OHTA, T., 1984 Some models of gene conversion for treating the evolution of multigene families. Genetics 106: 517-528.
57. PALUMBI, S., A. MARTIN, S. ROMANO, W. O. MCMILLAN, L. STICE et al., 1991 The simple fool's guide to PCR, version 2.0. Department of Zoology and Kewalo Marine Laboratory, University of Hawaii, Honolulu.
58. POWELL, J. R., and R. DESALLE, 1995 Drosophila molecular phylogenies and their uses, pp. 87-138 in Evolutionary Biology, edited by M. K. HECHT, R. J. MACINTURE and M. T. CLEGG. Plenum Press, New York.
59. PROCUNIER, W. S., J. J. SMITH and R. C. RICHMOND, 1991 Physical mapping of the Esterase-6 locus of Drosophila melanogaster. Genetica 84: 203-208.
60. PRUDHOMMEAU, C., and J. PROUST, 1990 I-R hybrid dysgenesis in Drosophila melanogaster - nature and site specificity of induced recessive lethals. Mutat. Res. 230: 135-157.
61. RICHMOND, R. C., D. G. GILBERT, K. B. SHEEHAN, M. H. GROMKO and F. M. BUTTERWORTH, 1980 Esterase 6 and reproduction in Drosophila melanogaster. Science 207: 1483-1485.
62. RICHMOND, R. C., K. M. NIELSEN, J. P. BRADY and E. M. SNELLA, 1990 Physiology, biochemistry and molecular biology of the Est-6 locus in Drosophila melanogaster, pp. 273-292 in Ecological and Evolutionary Genetics of Drosophila, edited by J. S. F. BARKER, W. T. STARMER and R. J. MACINTURE. Plenum Press, New York.
63. SAAD, M., A. Y. GAME, M. HEALY and J. G. OAKESHOTT, 1994 Associations of esterase 6 allozyme and activity variation with reproductive fitness in Drosophila melanogaster. Genetica 94: 43-56.
64. SAITOU, N., and M. NEI, 1987 The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4: 406-425.
65. SANGER, F., S. NICKLEN and A. R. COULSON, 1977 DNA sequencing with chain terminating inhibitors. Proc. Natl. Acad. Sci. USA 75: 5463-5467.
66. SATTA, Y., 1993 How the ratio of nonsynonymous to synonymous pseudogene substitutions can be less than one. Immunogenetics 38: 450-454.
67. SCHAFER, D., 1992 Developmental and molecular studies of Adh in Drosophila buzzatii. M.Sc. Thesis, University of New England, Armidale, New South Wales.
68. SCHRAG, J. D., Y. LI, S. WU and M. CYGLER, 1991 Ser-His-Glu triad forms the catalytic site of the lipase from Geotrichum candidum. Nature 351: 761-764.
69. SEAGER, R. D., and F. J. AYALA, 1982 Chromosome interactions in Drosophila melanogaster. I. Viability studies. Genetics 102: 467-483.
70. SHEEHAN, K. B., R. C. RICHMOND and B. J. COCHRANE, 1979 Studies of esterase 6 in Drosophila melanogaster. III. The developmental pattern and tissue distribution. Insect Biochem. 9: 443-450.
71. SHIBATA, H., and T. YAMAZAKI, 1995 Molecular evolution of the duplicated Amy locus in the Drosophila melanogaster species subgroup: concerted evolution only in the coding region and an excess of nonsynonymous substitutions in speciation. Genetics 141: 223-236.
72. SIBBALD, P. R., and B. J. BLENCOWE, 1990 A completely conserved rat U6 snRNA pseudogene coding sequence is sandwiched between a cytochrome c retropseudogene and a LINE-like sequence. Nucleic Acids Res. 18: 1063.
73. SORGE, J., E. GROSS, C. WEST and E. BEUTLER, 1990 High level transcription of the glucocerebrosidase pseudogene in normal subjects and patients with Gaucher disease. J. Clin. Invest. 86: 1137-1141.
74. SULLIVAN, D. T., W. T. STARMER, S. W. CURTISS, M. MENOTTI-RAYMOND and J. YUM, 1994 Unusual molecular evolution of an Adh pseudogene in Drosophila. Mol. Biol. Evol. 11: 443-458.
75. SUSSMAN, J. L., M. HAREL, F. FROLOW, C. OEFNER, A. GOLDMAN et al., 1991 Atomic structure of acetylcholinesterase from Torpedo californica: a prototypic acetylcholine-binding protein? Science 253: 872-879.
76. SVED, J. A., 1979 The "hybrid dysgenesis" syndrome in Drosophila melanogaster. Bioscience 29: 659-664.
77. THOMPSON, J. D., D. G. HIGGINS and T. J. GIBSON, 1994 CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22: 4673-4680.
78. THROCKMORTON, L. H., 1975 The phylogeny, ecology and geography of Drosophila, pp. 421-469 in Handbook of Genetics, Vol. 3, edited by R. C. KING. Plenum Press, New York.
79. USPENSKY, I., M. LUDWIG and L. KOROCHKIN, 1988 Comparative analysis of carboxyl esterase in different organs of Drosophila male reproductive system in the melanogaster species group. Zh. Obshchei Biologii 49: 601-610 (in Russian).
80. VANIN, E., 1985 Processed pseudogenes: characteristics and evolution. Ann. Rev. Genet. 19: 253-272.
81. VOELKER, R. A., C. H. LANGLEY, A. J. LEIGH BROWN, S. OHNISHI, B. DICKSON et al., 1980 Enzyme null alleles in natural populations of Drosophila melanogaster: frequencies in a North Carolina population. Proc. Natl. Acad. Sci. USA 77: 1091-1095.
82. WEINER, A. M., P. L. DEININGER and A. EFSTRATIADIS, 1986 Nonviral retroposons: genes, pseudogenes, and transposable elements generated by the reverse flow of genetic information. Ann. Rev. Biochem. 55: 631-661.
83. WILDE, C. D., 1986 Pseudogenes. CRC Crit. Rev. Biochem. 19: 323-352.
84. YENIKOLOPOV, G., B. KUZIN, M. EVGENIEV, M. LUDWIG, L. KOROCHKIN et al., 1983 The cloning and expression of the gene encoding organ-specific Est-S from the genome of D. virilis. EMBO J. 2: 1-7.
85. YENIKOLOPOV, G., R. KHECHUMIAN, B. KUZIN, L. KOROCHKIN and G. GEORGIEV, 1989a Molecular organization of the esterase multigene family of Drosophila virilis. Tissue-specific expression of the Est-S gene during the development of D. virilis. Genetika 25: 406-416 (in Russian).
86. YENIKOLOPOV, G. N., O. A. MALEVANTSCHUK, N. I. PEUNOVA, P. V. SERGEEV and G. P. GEORGIEV, 1989b Est locus of Drosophila virilis contains two related genes. Dokl. Acad. Nauk SSSR 306: 1247-1249 (in Russian).
87. YUM, J., W. T. STARMER and D. T. SULLIVAN, 1991 The structure of the Adh locus of Drosophila mettleri: an intermediate in the evolution of the Adh locus in the repleta group of Drosophila. Mol. Biol. Evol. 8: 857-867.