메뉴 건너뛰기




Volumn 150, Issue 2, 1998, Pages 767-775

The correlation between synonymous and nonsynonymous substitutions in drosophila: Mutation, selection or relaxed constraints?

Author keywords

[No Author keywords available]

Indexed keywords

DNA; RNA;

EID: 0031658304     PISSN: 00166731     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article
Times cited : (56)

References (41)
  • 1
    • 0028220048 scopus 로고
    • Synonymous codon usage in Drosophila melanogaster. Natural selection and translational accuracy
    • AKASHI, H., 1994 Synonymous codon usage in Drosophila melanogaster. Natural selection and translational accuracy. Genetics 136: 927-935.
    • (1994) Genetics , vol.136 , pp. 927-935
    • Akashi, H.1
  • 2
    • 0028797897 scopus 로고
    • Inferring weak selection from patterns of polymorphism and divergence at "silent" sites in Drosophila DNA
    • AKASHI, H., 1995 Inferring weak selection from patterns of polymorphism and divergence at "silent" sites in Drosophila DNA. Genetics 139: 1067-1076.
    • (1995) Genetics , vol.139 , pp. 1067-1076
    • Akashi, H.1
  • 3
    • 0023057525 scopus 로고
    • Diversity in G+C content at the third positions of codons in vertebrate genes and its cause
    • AOTA, S., and T. IKEMURA, 1986 Diversity in G+C content at the third positions of codons in vertebrate genes and its cause. Nucleic Acids Res. 14: 6345-6355.
    • (1986) Nucleic Acids Res. , vol.14 , pp. 6345-6355
    • Aota, S.1    Ikemura, T.2
  • 5
    • 0022914759 scopus 로고
    • Compositional constraints and genome evolution
    • BERNARDI, G., and G. BERNARDI, 1986 Compositional constraints and genome evolution. J. Mol. Evol. 24: 1-11.
    • (1986) J. Mol. Evol. , vol.24 , pp. 1-11
    • Bernardi, G.1    Bernardi, G.2
  • 6
    • 0023126266 scopus 로고
    • Coevolution of codon usage and tRNA abundance
    • BULMER, M., 1987 Coevolution of codon usage and tRNA abundance. Nature 325: 728-730.
    • (1987) Nature , vol.325 , pp. 728-730
    • Bulmer, M.1
  • 7
    • 0025941139 scopus 로고
    • The selection-mutation-drift theory of synonymous codon usage
    • BULMER, M., 1991 The selection-mutation-drift theory of synonymous codon usage. Genetics 129: 897-907.
    • (1991) Genetics , vol.129 , pp. 897-907
    • Bulmer, M.1
  • 8
    • 0018337789 scopus 로고
    • Studies on tRNA adaptation, tRNA turnover, precursor tRNA and tRNA gene distribution in Bombix mori by using two-dimensional polyacrylmide gel electrophoresis
    • CHEVALLIER, A., and J. P. GAREL, 1979 Studies on tRNA adaptation, tRNA turnover, precursor tRNA and tRNA gene distribution in Bombix mori by using two-dimensional polyacrylmide gel electrophoresis. Biochemie 61: 245-262.
    • (1979) Biochemie , vol.61 , pp. 245-262
    • Chevallier, A.1    Garel, J.P.2
  • 9
    • 0029563023 scopus 로고
    • A method for estimating the numbers of synonymous and nonsynonymous substitutions per site
    • COMERON, J. M., 1995 A method for estimating the numbers of synonymous and nonsynonymous substitutions per site. J. Mol. Evol. 41: 1152-1159.
    • (1995) J. Mol. Evol. , vol.41 , pp. 1152-1159
    • Comeron, J.M.1
  • 10
    • 0029914165 scopus 로고    scopus 로고
    • Synonymous substitutions in the Xdh gene of Drosophila: Heterogeneous distribution along the coding region
    • COMERON, J. M., and M. AGUADÉ, 1996 Synonymous substitutions in the Xdh gene of Drosophila: Heterogeneous distribution along the coding region. Genetics 144: 1053-1062.
    • (1996) Genetics , vol.144 , pp. 1053-1062
    • Comeron, J.M.1    Aguadé, M.2
  • 11
    • 0023192595 scopus 로고
    • Correlation between molecular clock ticking, codon usage, fidelity of DNA repair, chromosome banding and chromatin compactness in germline cells
    • FILIPSKI, J., 1987 Correlation between molecular clock ticking, codon usage, fidelity of DNA repair, chromosome banding and chromatin compactness in germline cells. FEBS Lett. 217: 184-186.
    • (1987) FEBS Lett. , vol.217 , pp. 184-186
    • Filipski, J.1
  • 12
    • 0015162378 scopus 로고
    • Rate of change of concomitantly variable codons
    • FITCH, W. M., 1971 Rate of change of concomitantly variable codons. J. Mol. Evol. 1: 84-96.
    • (1971) J. Mol. Evol. , vol.1 , pp. 84-96
    • Fitch, W.M.1
  • 13
    • 0000205114 scopus 로고
    • The silkworm, a model for molecular and cellular biologist
    • GAREL, J. P., 1982 The silkworm, a model for molecular and cellular biologist. Trends Biochem. Sci. 7: 105-108.
    • (1982) Trends Biochem. Sci. , vol.7 , pp. 105-108
    • Garel, J.P.1
  • 14
    • 0022180868 scopus 로고
    • Amino acid composition and the evolutionary rates of protein-coding genes
    • GRAUR, D., 1985 Amino acid composition and the evolutionary rates of protein-coding genes. J. Mol. Evol. 22: 53-63.
    • (1985) J. Mol. Evol. , vol.22 , pp. 53-63
    • Graur, D.1
  • 15
    • 0020363515 scopus 로고
    • Preferential codon usage in prokaryotic genes: The optimal codon-anticodon interaction energy and the selective codon usage in efficiently expressed genes
    • GROSJEAN, H., and W. FIERS, 1982 Preferential codon usage in prokaryotic genes: the optimal codon-anticodon interaction energy and the selective codon usage in efficiently expressed genes. Gene 18: 199-209.
    • (1982) Gene , vol.18 , pp. 199-209
    • Grosjean, H.1    Fiers, W.2
  • 16
    • 0021958933 scopus 로고
    • Codon usage and tRNA content in unicellular and multicellular organisms
    • IKEMURA, T., 1985 Codon usage and tRNA content in unicellular and multicellular organisms. Mol. Biol. Evol. 2: 13-34.
    • (1985) Mol. Biol. Evol. , vol.2 , pp. 13-34
    • Ikemura, T.1
  • 17
    • 0000732090 scopus 로고
    • Evolution of protein molecules
    • edited by H. N. MUNRO. Academic Press, New York
    • JUKES, T. H., and C. R. CANTOR, 1969 Evolution of protein molecules, pp. 21-132 in Mammalian Protein Metabolism III, edited by H. N. MUNRO. Academic Press, New York.
    • (1969) Mammalian Protein Metabolism , vol.3 , pp. 21-132
    • Jukes, T.H.1    Cantor, C.R.2
  • 18
    • 0019296687 scopus 로고
    • A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences
    • KIMURA, M., 1980 A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J. Mol. Evol. 16: 111-120.
    • (1980) J. Mol. Evol. , vol.16 , pp. 111-120
    • Kimura, M.1
  • 20
    • 0028040734 scopus 로고
    • The effects of mutation and natural selection on codon bias in the genes of Drosophila
    • KLIMAN, R. M., and J. HEY, 1994 The effects of mutation and natural selection on codon bias in the genes of Drosophila. Genetics 137: 1049-1056.
    • (1994) Genetics , vol.137 , pp. 1049-1056
    • Kliman, R.M.1    Hey, J.2
  • 21
    • 0002214201 scopus 로고    scopus 로고
    • The population and evolutionary genetics of codon bias
    • edited by R. SING and C. KRIMBAS. Columbia University Press, New York. in press
    • KREITMAN, M., and M. ANTEZANA, 1998 The population and evolutionary genetics of codon bias, in Evolutionary Genetics from Molecules to Morphology, edited by R. SING and C. KRIMBAS. Columbia University Press, New York. (in press).
    • (1998) Evolutionary Genetics from Molecules to Morphology
    • Kreitman, M.1    Antezana, M.2
  • 22
    • 0021712452 scopus 로고
    • Interaction of silent and replacement changes in eukaryotic coding sequences
    • LIPMAN, D. J., and W. J. WILBUR, 1985 Interaction of silent and replacement changes in eukaryotic coding sequences. J. Mol. Evol. 21: 161-167.
    • (1985) J. Mol. Evol. , vol.21 , pp. 161-167
    • Lipman, D.J.1    Wilbur, W.J.2
  • 23
    • 0028922906 scopus 로고
    • Testing the covarion hypothesis of molecular evolution
    • MIYAMOTO, M. M., and W. M. FITCH, 1995 Testing the covarion hypothesis of molecular evolution. Mol. Biol. Evol. 12: 503-513.
    • (1995) Mol. Biol. Evol. , vol.12 , pp. 503-513
    • Miyamoto, M.M.1    Fitch, W.M.2
  • 24
    • 0026725308 scopus 로고
    • Rates of synonymous substitution and base composition of nuclear genes in Drosophila
    • MORIYAMA, E. N., and T. GOJOBORI, 1992 Rates of synonymous substitution and base composition of nuclear genes in Drosophila. Genetics 130: 855-864.
    • (1992) Genetics , vol.130 , pp. 855-864
    • Moriyama, E.N.1    Gojobori, T.2
  • 25
    • 0027153966 scopus 로고
    • Codon usage bias and base composition of nuclear genes in Drosophila
    • MORIYAMA, E. N., and D. L. HARTL, 1993 Codon usage bias and base composition of nuclear genes in Drosophila. Genetics 134: 847-858.
    • (1993) Genetics , vol.134 , pp. 847-858
    • Moriyama, E.N.1    Hartl, D.L.2
  • 26
    • 0028932702 scopus 로고
    • Frequencies of synonymous substitutions in mammals are gene-specific and correlated with frequencies of nonsynonymous substitutions
    • MOUCHIROUD, D., C. GAUTIER and G. BERNARDI, 1995 Frequencies of synonymous substitutions in mammals are gene-specific and correlated with frequencies of nonsynonymous substitutions. J. Mol. Evol. 40: 107-113.
    • (1995) J. Mol. Evol. , vol.40 , pp. 107-113
    • Mouchiroud, D.1    Gautier, C.2    Bernardi, G.3
  • 27
    • 0029583490 scopus 로고
    • Variation in synonymous substitution rates among mammalian genes and the correlation between synonymous and nonsynonymous divergences
    • OHTA, T., and Y. INA, 1995 Variation in synonymous substitution rates among mammalian genes and the correlation between synonymous and nonsynonymous divergences. J. Mol. Evol. 41: 717-720.
    • (1995) J. Mol. Evol. , vol.41 , pp. 717-720
    • Ohta, T.1    Ina, Y.2
  • 28
    • 0031017384 scopus 로고    scopus 로고
    • Site-directed mutations reveal long-range compensatory interactions in the Adh gene of Drosophila melanogaster
    • PARSH, J., S. TANDA and W. STEPHAN, 1997 Site-directed mutations reveal long-range compensatory interactions in the Adh gene of Drosophila melanogaster. Proc. Natl. Acad. Sci. USA 94: 928-933.
    • (1997) Proc. Natl. Acad. Sci. USA , vol.94 , pp. 928-933
    • Parsh, J.1    Tanda, S.2    Stephan, W.3
  • 29
    • 0023274170 scopus 로고
    • The rate of synonymous substitution in enterobacterial genes is inversely related to codon usage bias
    • SHARP, P. M., and W.-H. LI, 1987 The rate of synonymous substitution in enterobacterial genes is inversely related to codon usage bias. Mol. Biol. Evol. 4: 222-230.
    • (1987) Mol. Biol. Evol. , vol.4 , pp. 222-230
    • Sharp, P.M.1    Li, W.-H.2
  • 30
    • 0024591558 scopus 로고
    • On the rate of DNA sequence evolution in Drosophila
    • SHARP, P. M., and W.-H. LI, 1989 On the rate of DNA sequence evolution in Drosophila. J. Mol. Evol. 28: 398-402.
    • (1989) J. Mol. Evol. , vol.28 , pp. 398-402
    • Sharp, P.M.1    Li, W.-H.2
  • 31
    • 0023046874 scopus 로고
    • Codon usage in yeast: Cluster analysis clearly differentiates highly and lowly expressed genes
    • SHARP, P. M., T. M. F. TUOHY and K. R. MOSURSKI, 1986 Codon usage in yeast: cluster analysis clearly differentiates highly and lowly expressed genes. Nucleic Acids Res. 14: 5125-5139.
    • (1986) Nucleic Acids Res. , vol.14 , pp. 5125-5139
    • Sharp, P.M.1    Tuohy, T.M.F.2    Mosurski, K.R.3
  • 32
    • 0024116811 scopus 로고
    • "Silent" sites in Drosophila genes are not neutral: Evidence of selection among synonymous codons
    • SHIELDS, D. C., P. M. SHARP, D. G. HIGGINS and F. WRIGHT, 1988 "Silent" sites in Drosophila genes are not neutral: evidence of selection among synonymous codons. Mol. Biol. Evol. 5: 704-716.
    • (1988) Mol. Biol. Evol. , vol.5 , pp. 704-716
    • Shields, D.C.1    Sharp, P.M.2    Higgins, D.G.3    Wright, F.4
  • 34
    • 0027968068 scopus 로고
    • CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice
    • THOMPSON, J. D., D. G. HIGGINS and T. J. GIBSON, 1994 CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22: 4673-4680.
    • (1994) Nucleic Acids Res. , vol.22 , pp. 4673-4680
    • Thompson, J.D.1    Higgins, D.G.2    Gibson, T.J.3
  • 35
    • 0024596324 scopus 로고
    • Nucleic acid composition, codon usage, and rate of synonymous substitution in protein-coding genes
    • TICHER, A., and D. GRAUR, 1989 Nucleic acid composition, codon usage, and rate of synonymous substitution in protein-coding genes. J. Mol. Evol. 28: 286-298.
    • (1989) J. Mol. Evol. , vol.28 , pp. 286-298
    • Ticher, A.1    Graur, D.2
  • 36
    • 0029946596 scopus 로고    scopus 로고
    • Evolutionary changes in the expression pattern of a developmentally essential gene in three Drosophila species
    • WANG, D., J. L. MARSH and F. J. AYALA, 1996 Evolutionary changes in the expression pattern of a developmentally essential gene in three Drosophila species. Proc. Natl. Acad. Sci. USA 93: 7103-7107.
    • (1996) Proc. Natl. Acad. Sci. USA , vol.93 , pp. 7103-7107
    • Wang, D.1    Marsh, J.L.2    Ayala, F.J.3
  • 37
    • 0029917485 scopus 로고    scopus 로고
    • Nucleotide variation at the Gpdh locus in the genus Drosophila
    • WELLS, R. S., 1996 Nucleotide variation at the Gpdh locus in the genus Drosophila. Genetics 143: 375-384.
    • (1996) Genetics , vol.143 , pp. 375-384
    • Wells, R.S.1
  • 38
    • 0015787150 scopus 로고
    • Analysis of tRNAs during the development of Drosophila
    • WHITE, B. N., G. M. TENER, J. HOLDEN and D. T. SUZUKI, 1973 Analysis of tRNAs during the development of Drosophila. Dev. Biol. 33: 185-195.
    • (1973) Dev. Biol. , vol.33 , pp. 185-195
    • White, B.N.1    Tener, G.M.2    Holden, J.3    Suzuki, D.T.4
  • 39
    • 0027422858 scopus 로고
    • Mammalian gene evolution: Nucleotide sequence divergence between mouse and rat
    • WOLFE, K. H., and P. M. SHARP, 1993 Mammalian gene evolution: Nucleotide sequence divergence between mouse and rat. J. Mol. Evol. 37: 441-456.
    • (1993) J. Mol. Evol. , vol.37 , pp. 441-456
    • Wolfe, K.H.1    Sharp, P.M.2
  • 40
    • 0024497416 scopus 로고
    • Mutation rates differ among regions of the mammalian genome
    • WOLFE, K. H., P. M. SHARP and W.-H. LI, 1989 Mutation rates differ among regions of the mammalian genome. Nature 337: 283-285.
    • (1989) Nature , vol.337 , pp. 283-285
    • Wolfe, K.H.1    Sharp, P.M.2    Li, W.-H.3
  • 41
    • 7344250636 scopus 로고    scopus 로고
    • The molecular clock revisited: The rate of synonymous vs. replacement change in Drosophila
    • ZENG, L.-W., J. M. COMERON, B. CHEN and M. KREITMAN, 1998 The molecular clock revisited: the rate of synonymous vs. replacement change in Drosophila. Genetica 102/103: 369-382.
    • (1998) Genetica , vol.102-103 , pp. 369-382
    • Zeng, L.-W.1    Comeron, J.M.2    Chen, B.3    Kreitman, M.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.