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Volumn 25, Issue 11, 2008, Pages 2269-2277

Developmental stage and level of codon usage bias in Drosophila

Author keywords

Codon usage bias; Development; Drosophila; Larval stage; Melanogaster; Protein synthesis; Pseudoobscura

Indexed keywords

DROSOPHILA PROTEIN;

EID: 54149101347     PISSN: 07374038     EISSN: 15371719     Source Type: Journal    
DOI: 10.1093/molbev/msn189     Document Type: Article
Times cited : (19)

References (47)
  • 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
    • 0029985179 scopus 로고    scopus 로고
    • Molecular evolution between Drosophila melanogaster and D. simulans: Reduced codon bias, faster rates of amino acid substitution, and larger proteins in D. melanogaster
    • Akashi H. 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.
    • (1996) Genetics , vol.144 , pp. 1297-1307
    • Akashi, H.1
  • 3
    • 0035546157 scopus 로고    scopus 로고
    • Gene expression and molecular evolution
    • Akashi H. 2001. Gene expression and molecular evolution. Curr Opin Genet Dev. 11:660-666.
    • (2001) Curr Opin Genet Dev , vol.11 , pp. 660-666
    • Akashi, H.1
  • 4
    • 0030903283 scopus 로고    scopus 로고
    • Natural selection and the frequency distributions of "silent" DNA polymorphisms in Drosophila
    • Akashi H, Schaeffer SW. 1997. Natural selection and the frequency distributions of "silent" DNA polymorphisms in Drosophila. Genetics. 146:295-307.
    • (1997) Genetics , vol.146 , pp. 295-307
    • Akashi, H.1    Schaeffer, S.W.2
  • 5
    • 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
  • 6
    • 0037274714 scopus 로고    scopus 로고
    • In vivo introduction of unpreferred synonymous codons into the Drosophila Adh gene results in reduced levels of ADH protein
    • Carlini DB, Stephan W. 2003. In vivo introduction of unpreferred synonymous codons into the Drosophila Adh gene results in reduced levels of ADH protein. Genetics. 163:239-243.
    • (2003) Genetics , vol.163 , pp. 239-243
    • Carlini, D.B.1    Stephan, W.2
  • 7
    • 84984088333 scopus 로고
    • A biochemical study of the growth of Drosophila melanogaster
    • Church RB, Robertson FW. 1966. A biochemical study of the growth of Drosophila melanogaster. J Exp Zool. 162:337-351.
    • (1966) J Exp Zool , vol.162 , pp. 337-351
    • Church, R.B.1    Robertson, F.W.2
  • 8
    • 0036263105 scopus 로고    scopus 로고
    • Population, evolutionary and genomic consequences of interference selection
    • Comeron JM, Kreitman M. 2002. Population, evolutionary and genomic consequences of interference selection. Genetics. 161:389-410.
    • (2002) Genetics , vol.161 , pp. 389-410
    • Comeron, J.M.1    Kreitman, M.2
  • 9
    • 0032894285 scopus 로고    scopus 로고
    • Natural selection on synonymous sites is correlated with gene length and recombination in Drosophila
    • Comeron JM, Kreitman M, Aguadé M. 1999. Natural selection on synonymous sites is correlated with gene length and recombination in Drosophila. Genetics. 151:239-249.
    • (1999) Genetics , vol.151 , pp. 239-249
    • Comeron, J.M.1    Kreitman, M.2    Aguadé, M.3
  • 10
    • 0024416614 scopus 로고
    • Codon choice and gene expression: Synonymous codons differ in translational accuracy
    • Dix DB, Thompson RC. 1989. Codon choice and gene expression: synonymous codons differ in translational accuracy. Proc Natl Acad Sci USA. 86:6888-6892.
    • (1989) Proc Natl Acad Sci USA , vol.86 , pp. 6888-6892
    • Dix, D.B.1    Thompson, R.C.2
  • 11
    • 0015947382 scopus 로고
    • Functional adaptation of tRNA population
    • Garel J-P. 1974. Functional adaptation of tRNA population. J Theor Biol. 43:211-225.
    • (1974) J Theor Biol , vol.43 , pp. 211-225
    • Garel, J.-P.1
  • 12
    • 0030833845 scopus 로고    scopus 로고
    • Interspecific and intraspecific comparisons of the period locus in the Drosophila willistoni sibling species
    • Gleason JM, Powell JR. 1997. Interspecific and intraspecific comparisons of the period locus in the Drosophila willistoni sibling species. Mol Biol Evol. 14:741-753.
    • (1997) Mol Biol Evol , vol.14 , pp. 741-753
    • Gleason, J.M.1    Powell, J.R.2
  • 13
    • 0020491327 scopus 로고
    • Codon usage in bacteria: Correlation with gene expressivity
    • Gouy M, Gautier C. 1982. Codon usage in bacteria: correlation with gene expressivity. Nucleic Acids Res. 10:7055-7074.
    • (1982) Nucleic Acids Res , vol.10 , pp. 7055-7074
    • Gouy, M.1    Gautier, C.2
  • 14
    • 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, Fiers W. 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
  • 15
    • 0037388263 scopus 로고    scopus 로고
    • Absolute mRNA concentrations from sequence-specific calibration of oligonucleotide arrays
    • Hekstra D, Taussig AR, Magnasco M, Naef F. 2003. Absolute mRNA concentrations from sequence-specific calibration of oligonucleotide arrays. Nucleic Acids Res. 31:1962-1968.
    • (2003) Nucleic Acids Res , vol.31 , pp. 1962-1968
    • Hekstra, D.1    Taussig, A.R.2    Magnasco, M.3    Naef, F.4
  • 16
    • 0034927555 scopus 로고    scopus 로고
    • Analysis of variance for gene expression microarray data
    • Kerr MK, Martin M, Churchill GA. 2000. Analysis of variance for gene expression microarray data. J Comput Biol. 7:819-837.
    • (2000) J Comput Biol , vol.7 , pp. 819-837
    • Kerr, M.K.1    Martin, M.2    Churchill, G.A.3
  • 17
    • 0034074410 scopus 로고    scopus 로고
    • rRNA operon copy number reflects ecological strategies of bacteria
    • Klappenbach JA, Dunbar JM, Schmidt TM. 2002. rRNA operon copy number reflects ecological strategies of bacteria. Appl Environ Microbiol. 66:1328-1333.
    • (2002) Appl Environ Microbiol , vol.66 , pp. 1328-1333
    • Klappenbach, J.A.1    Dunbar, J.M.2    Schmidt, T.M.3
  • 18
    • 0032829163 scopus 로고    scopus 로고
    • Recent selection on synonymous codon usage in Drosophila
    • Kliman RM. 1999. Recent selection on synonymous codon usage in Drosophila. J Mol Evol. 49:343-351.
    • (1999) J Mol Evol , vol.49 , pp. 343-351
    • Kliman, R.M.1
  • 19
    • 0028040734 scopus 로고
    • The effects of mutation and natural selection on codon bias in genes of Drosophila
    • Kliman RM, Hey J. 1994. The effects of mutation and natural selection on codon bias in genes of Drosophila. Genetics. 137:1049-1056.
    • (1994) Genetics , vol.137 , pp. 1049-1056
    • Kliman, R.M.1    Hey, J.2
  • 20
    • 0037986699 scopus 로고    scopus 로고
    • Hill-Robertson interference in Drosophila melanogaster: Reply to Marais, Mouchiroud, and Duret
    • Kliman RM, Hey J. 2003. Hill-Robertson interference in Drosophila melanogaster: reply to Marais, Mouchiroud, and Duret. Genet Res. 81:89-90.
    • (2003) Genet Res , vol.81 , pp. 89-90
    • Kliman, R.M.1    Hey, J.2
  • 21
    • 0025763551 scopus 로고
    • Codon bias and gene expression
    • Kurland CG. 1991. Codon bias and gene expression. FEBS Lett. 285:165-169.
    • (1991) FEBS Lett , vol.285 , pp. 165-169
    • Kurland, C.G.1
  • 22
    • 0035826858 scopus 로고    scopus 로고
    • Does recombination improve selection on codon usage? Lessons from nematode and fly complete genomes
    • Marais G, Mouchiroud D, Duret L. 2001. Does recombination improve selection on codon usage? Lessons from nematode and fly complete genomes. Proc Nat Acad Sci USA. 98:5688-5692.
    • (2001) Proc Nat Acad Sci USA , vol.98 , pp. 5688-5692
    • Marais, G.1    Mouchiroud, D.2    Duret, L.3
  • 23
    • 1142302213 scopus 로고    scopus 로고
    • Selection on codon usage in Drosophila americana
    • Maside X, Lee AW, Charlesworth B. 2004. Selection on codon usage in Drosophila americana. Curr Biol. 14:150-154.
    • (2004) Curr Biol , vol.14 , pp. 150-154
    • Maside, X.1    Lee, A.W.2    Charlesworth, B.3
  • 25
    • 0026725308 scopus 로고
    • Rates of synonymous substitution and base composition of nuclear genes in Drosophila
    • Moriyama EN, Gojobori T. 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
  • 26
    • 0030731696 scopus 로고    scopus 로고
    • Codon usage bias and tRNA abundance in Drosophila
    • Moriyama EN, Powell JR. 1997. Codon usage bias and tRNA abundance in Drosophila. J Mol Evol. 45:514-523.
    • (1997) J Mol Evol , vol.45 , pp. 514-523
    • Moriyama, E.N.1    Powell, J.R.2
  • 27
    • 0032126484 scopus 로고    scopus 로고
    • Gene length and codon usage bias in Drosophila melanogaster, Saccharomyces cerevisiae and Escherichia coli
    • Moriyama EN, Powell JR. 1998. Gene length and codon usage bias in Drosophila melanogaster, Saccharomyces cerevisiae and Escherichia coli. Nucleic Acids Res. 26:3188-3193.
    • (1998) Nucleic Acids Res , vol.26 , pp. 3188-3193
    • Moriyama, E.N.1    Powell, J.R.2
  • 28
    • 0030861159 scopus 로고    scopus 로고
    • Evolution of codon usage bias in Drosophila
    • Powell JR, Moriyama EN. 1997. Evolution of codon usage bias in Drosophila. Proc Natl Acad Sci USA. 94:7784-7790.
    • (1997) Proc Natl Acad Sci USA , vol.94 , pp. 7784-7790
    • Powell, J.R.1    Moriyama, E.N.2
  • 29
    • 11244324849 scopus 로고    scopus 로고
    • Intragenic spatial patterns of codon usage bias in prokaryotic and eukaryotic genomes
    • Qin H, Wu WB, Comeron JM, Kreitman M, Li W-H. 2004. Intragenic spatial patterns of codon usage bias in prokaryotic and eukaryotic genomes. Genetics. 168:2245-2260.
    • (2004) Genetics , vol.168 , pp. 2245-2260
    • Qin, H.1    Wu, W.B.2    Comeron, J.M.3    Kreitman, M.4    Li, W.-H.5
  • 30
    • 0011435743 scopus 로고
    • Abrupt decline in the rate of accumulation of total protein and yolk in postvitellogenic egg chambers of Drosophila
    • Ruddell A, Jacobs-Lorena M. 1983. Abrupt decline in the rate of accumulation of total protein and yolk in postvitellogenic egg chambers of Drosophila. Rouxs Arch Dev Biol. 192:189-195.
    • (1983) Rouxs Arch Dev Biol , vol.192 , pp. 189-195
    • Ruddell, A.1    Jacobs-Lorena, M.2
  • 31
    • 0030617966 scopus 로고    scopus 로고
    • Density-dependent selection in Drosophila: Evolution of growth rate and body size
    • Santos M, Borash DJ, Amitabh J, Bounlutay N, Mueller LD. 1997. Density-dependent selection in Drosophila: evolution of growth rate and body size. Evolution. 5:420-432.
    • (1997) Evolution , vol.5 , pp. 420-432
    • Santos, M.1    Borash, D.J.2    Amitabh, J.3    Bounlutay, N.4    Mueller, L.D.5
  • 32
    • 0038675397 scopus 로고    scopus 로고
    • The kinetics of embryo drying in Drosophila melanogaster as a function of the steps in permeabilization: Experimental
    • Schreuders PD, Kassis JN, Cole KW, Schneider U, Mahowald AP, Mazur P. 1996. The kinetics of embryo drying in Drosophila melanogaster as a function of the steps in permeabilization: experimental. J Insect Physiol. 42:501-516.
    • (1996) J Insect Physiol , vol.42 , pp. 501-516
    • Schreuders, P.D.1    Kassis, J.N.2    Cole, K.W.3    Schneider, U.4    Mahowald, A.P.5    Mazur, P.6
  • 35
    • 0024591558 scopus 로고
    • On the rate of DNA sequence evolution in Drosophila
    • Sharp PM, Li W-H. 1989. On the rate of DNA sequence evolution in Drosophila. J Mol Evol. 29:398-402.
    • (1989) J Mol Evol , vol.29 , pp. 398-402
    • Sharp, P.M.1    Li, W.-H.2
  • 36
    • 0001906841 scopus 로고
    • Codon usage
    • Maronni G, editor, New York: Oxford University Press. p
    • Sharp PM, Lloyd AT. 1993. Codon usage. In: Maronni G, editor. An atlas of Drosophila genes. New York: Oxford University Press. p. 378-397.
    • (1993) An atlas of Drosophila genes , pp. 378-397
    • Sharp, P.M.1    Lloyd, A.T.2
  • 37
    • 0024116811 scopus 로고
    • Silent sites in Drosophila are not neutral: Evidence of selection among synonymous codons
    • Shields DC, Sharp PM, Higgins DG, Wright F. 1988. "Silent" sites in Drosophila 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
  • 38
    • 0025978946 scopus 로고
    • Queuine metabolism and cadmium toxicity in Drosophila melanogaster
    • Siard T, Jacobson KB, Farkas WR. 1991. Queuine metabolism and cadmium toxicity in Drosophila melanogaster. Biofactor. 3:41-47.
    • (1991) Biofactor , vol.3 , pp. 41-47
    • Siard, T.1    Jacobson, K.B.2    Farkas, W.R.3
  • 39
    • 0001875439 scopus 로고
    • Transcription of eukaryotic tRNA genes
    • Söll D, RajBhandary UL, editors, Washington DC, ASM Press. p
    • Sprague KU. 1995. Transcription of eukaryotic tRNA genes. In: Söll D, RajBhandary UL, editors. tRNA structure, biosynthesis, and function. Washington (DC): ASM Press. p. 31-50.
    • (1995) tRNA structure, biosynthesis, and function , pp. 31-50
    • Sprague, K.U.1
  • 40
    • 0027137721 scopus 로고
    • Effect on fitness components of enhanced expression of elongation factor EF-1a. I. The contrasting approaches of molecular and population biologists
    • Stearns SC, Kaiser M, Hillesheim E. 1993. Effect on fitness components of enhanced expression of elongation factor EF-1a. I. The contrasting approaches of molecular and population biologists. Am Nat. 142:961-993.
    • (1993) Am Nat , vol.142 , pp. 961-993
    • Stearns, S.C.1    Kaiser, M.2    Hillesheim, E.3
  • 42
    • 0037975700 scopus 로고    scopus 로고
    • Bayesian analysis of gene expression levels: Statistical quantification of relative mRNA level across multiple strains or treatments
    • Townsend JP, Hartl DL. 2002. Bayesian analysis of gene expression levels: statistical quantification of relative mRNA level across multiple strains or treatments. Genome Biol. 3:2-16.
    • (2002) Genome Biol , vol.3 , pp. 2-16
    • Townsend, J.P.1    Hartl, D.L.2
  • 45
    • 0015787150 scopus 로고
    • Analysis of tRNAs during the development of Drosophila
    • White B, Tener G, Holden J, Suzuki D. 1973. Analysis of tRNAs during the development of Drosophila. Dev Biol. 33:185-195.
    • (1973) Dev Biol , vol.33 , pp. 185-195
    • White, B.1    Tener, G.2    Holden, J.3    Suzuki, D.4
  • 47
    • 0025318864 scopus 로고
    • The effective number of codons used in a gene
    • Wright F. 1990. The effective number of codons used in a gene. Gene. 87:23-29.
    • (1990) Gene , vol.87 , pp. 23-29
    • Wright, F.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.