메뉴 건너뛰기




Volumn 92, Issue 1, 2003, Pages 1-7

The extent of codon usage bias in human RNA viruses and its evolutionary origin

Author keywords

Base composition; Codon usage bias; Dinucleotide; Mutation pressure; Translational selection

Indexed keywords

BASE; DINUCLEOTIDE; VIRUS VECTOR;

EID: 0037372775     PISSN: 01681702     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0168-1702(02)00309-X     Document Type: Article
Times cited : (406)

References (29)
  • 1
    • 0031738130 scopus 로고    scopus 로고
    • Translational selection and molecular evolution
    • Akashi H., Eyre-Walker A. Translational selection and molecular evolution. Curr. Opin. Genet. Devel. 8:1998;688-693.
    • (1998) Curr. Opin. Genet. Devel. , vol.8 , pp. 688-693
    • Akashi, H.1    Eyre-Walker, A.2
  • 2
    • 0022540321 scopus 로고
    • CpG-rich islands and function of DNA methylation
    • Bird A.P. CpG-rich islands and function of DNA methylation. Nature. 321:1986;209-213.
    • (1986) Nature , vol.321 , pp. 209-213
    • Bird, A.P.1
  • 4
    • 0033551151 scopus 로고    scopus 로고
    • Expression pattern and, surprisingly, gene length shape codon usage in Caenorhabditis, Drosophila, Arabidopsis
    • Duret L., Mouchiroud D. Expression pattern and, surprisingly, gene length shape codon usage in Caenorhabditis, Drosophila, Arabidopsis. Proc. Natl. Acad. Sci. USA. 96:1999;4482-4487.
    • (1999) Proc. Natl. Acad. Sci. USA , vol.96 , pp. 4482-4487
    • Duret, L.1    Mouchiroud, D.2
  • 5
    • 0033168465 scopus 로고    scopus 로고
    • Isochores result from mutation not selection
    • Francino H.P., Ochman H. Isochores result from mutation not selection. Nature. 400:1999;30-31.
    • (1999) Nature , vol.400 , pp. 30-31
    • Francino, H.P.1    Ochman, H.2
  • 6
    • 0000287611 scopus 로고
    • Codon usage in bacteria: Correlation with expressivity
    • Gouy M., Gautier C. Codon usage in bacteria: correlation with expressivity. Nucleic Acids Res. 12:1982;539-549.
    • (1982) Nucleic Acids Res. , vol.12 , pp. 539-549
    • Gouy, M.1    Gautier, C.2
  • 8
    • 0030111265 scopus 로고    scopus 로고
    • Codon usage limitation in the expression of HIV-1 envelope glycoprotein
    • Hass J., Park E., Seed B. Codon usage limitation in the expression of HIV-1 envelope glycoprotein. Curr. Biol. 6:1996;315-324.
    • (1996) Curr. Biol. , vol.6 , pp. 315-324
    • Hass, J.1    Park, E.2    Seed, B.3
  • 9
    • 0029057423 scopus 로고
    • The tendency of lentiviral open reading frames to become A-rich, constraints imposed by viral genome organisation and cellular tRNA availability
    • Hemert F.J., Berkhout B. The tendency of lentiviral open reading frames to become A-rich, constraints imposed by viral genome organisation and cellular tRNA availability. J. Mol. Evol. 41:1995;132-140.
    • (1995) J. Mol. Evol. , vol.41 , pp. 132-140
    • Hemert, F.J.1    Berkhout, B.2
  • 10
    • 0036147047 scopus 로고    scopus 로고
    • Rates of molecular evolution in RNA viruses: A quantitative phylogenetic analysis
    • Jenkins G.M., Rambaut A., Pybus O.G., Holmes E.C. Rates of molecular evolution in RNA viruses: a quantitative phylogenetic analysis. J. Mol. Evol. 54:2002;152-161.
    • (2002) J. Mol. Evol. , vol.54 , pp. 152-161
    • Jenkins, G.M.1    Rambaut, A.2    Pybus, O.G.3    Holmes, E.C.4
  • 11
    • 0025074342 scopus 로고
    • Contrasts in codon usage of latent versus productive genes of Epstein-Barr virus-data and hypotheses
    • Karlin S., Blaisdell B.E., Schachtel G.A. Contrasts in codon usage of latent versus productive genes of Epstein-Barr virus-data and hypotheses. J. Virol. 64:1990;4264-4273.
    • (1990) J. Virol. , vol.64 , pp. 4264-4273
    • Karlin, S.1    Blaisdell, B.E.2    Schachtel, G.A.3
  • 12
    • 0028221062 scopus 로고
    • Why is CpG suppressed in the genomes of virtually all small eukaryotic viruses but not those of large eukaryotic viruses?
    • Karlin S., Doerfler W., Cardon L.R. Why is CpG suppressed in the genomes of virtually all small eukaryotic viruses but not those of large eukaryotic viruses? J. Virol. 68:1994;2889-2897.
    • (1994) J. Virol. , vol.68 , pp. 2889-2897
    • Karlin, S.1    Doerfler, W.2    Cardon, L.R.3
  • 13
    • 0028040734 scopus 로고
    • The effects of mutation and natural selection on codon bias in the genes of Drosophila
    • Kliman R.M., Hey J. The effects of mutation and natural selection on codon bias in the genes of Drosophila. Genetics. 137:1994;1049-1056.
    • (1994) Genetics , vol.137 , pp. 1049-1056
    • Kliman, R.M.1    Hey, J.2
  • 14
    • 0032991791 scopus 로고    scopus 로고
    • CpG islands in chromatin organisation and gene expression
    • Kundu T.K., Rao M.R.S. CpG islands in chromatin organisation and gene expression. J. Biochem. 125:1999;217-222.
    • (1999) J. Biochem. , vol.125 , pp. 217-222
    • Kundu, T.K.1    Rao, M.R.S.2
  • 15
    • 0004732896 scopus 로고    scopus 로고
    • Analysis of HIV-1 env gene sequences reveals evidence for a low effective number in the viral population
    • Leigh Brown A.J. Analysis of HIV-1 env gene sequences reveals evidence for a low effective number in the viral population. Proc. Natl. Acad. Sci. USA. 94:1997;1862-1865.
    • (1997) Proc. Natl. Acad. Sci. USA , vol.94 , pp. 1862-1865
    • Leigh Brown, A.J.1
  • 16
    • 0033828846 scopus 로고    scopus 로고
    • Codon usage in nucleopolyhedroviruses
    • Levin D.B., Whittome B. Codon usage in nucleopolyhedroviruses. J. Gen. Virol. 81:2000;2313-2325.
    • (2000) J. Gen. Virol. , vol.81 , pp. 2313-2325
    • Levin, D.B.1    Whittome, B.2
  • 17
    • 0033844505 scopus 로고    scopus 로고
    • The evolution of base composition and phylogenetic inference
    • Mooers A.Ø., Holmes E.C. The evolution of base composition and phylogenetic inference. Trends Ecol. Evol. 15:2000;365-369.
    • (2000) Trends Ecol. Evol. , vol.15 , pp. 365-369
    • Mooers, A.Ø.1    Holmes, E.C.2
  • 18
    • 0032126484 scopus 로고    scopus 로고
    • Gene length and codon usage bias in Drosophila melanogaster, Saccharomyces cerevisiae and Escherichia coli
    • Moriyama E.N., Powell J.R. Gene length and codon usage bias in Drosophila melanogaster, Saccharomyces cerevisiae and Escherichia coli. Nucleic Acids Res. 26:1998;3188-3193.
    • (1998) Nucleic Acids Res. , vol.26 , pp. 3188-3193
    • Moriyama, E.N.1    Powell, J.R.2
  • 19
    • 0033515583 scopus 로고    scopus 로고
    • Lack of evolutionary stasis during alternating replication of an arbovirus in insect and mammalian cells
    • Novella I.S., Hershey C.L., Escarmis C., Domingo E., Holland J.J. Lack of evolutionary stasis during alternating replication of an arbovirus in insect and mammalian cells. J. Mol. Biol. 287:1999;459-465.
    • (1999) J. Mol. Biol. , vol.287 , pp. 459-465
    • Novella, I.S.1    Hershey, C.L.2    Escarmis, C.3    Domingo, E.4    Holland, J.J.5
  • 21
    • 0030844829 scopus 로고    scopus 로고
    • Monopartite negative strand RNA genomes
    • Pringle C.R., Easton A.J. Monopartite negative strand RNA genomes. Semin. Virol. 8:1997;49-57.
    • (1997) Semin. Virol. , vol.8 , pp. 49-57
    • Pringle, C.R.1    Easton, A.J.2
  • 22
    • 0023274170 scopus 로고
    • The rate of synonymous substitution in enterobacterial genes is inversely related to codon usage bias
    • Sharp P.M., Li W.H. The rate of synonymous substitution in enterobacterial genes is inversely related to codon usage bias. Mol. Biol. Evol. 4:1987;223-230.
    • (1987) Mol. Biol. Evol. , vol.4 , pp. 223-230
    • Sharp, P.M.1    Li, W.H.2
  • 23
    • 0024591558 scopus 로고
    • On the rate of DNA-sequence evolution in Drosophila
    • Sharp P.M., Li W.H. On the rate of DNA-sequence evolution in Drosophila. J. Mol. Evol. 28:1989;398-402.
    • (1989) J. Mol. Evol. , vol.28 , pp. 398-402
    • Sharp, P.M.1    Li, W.H.2
  • 24
  • 25
    • 0023046874 scopus 로고
    • Codon usage in yeast, cluster analysis clearly differentiates highly and lowly expressed genes
    • Sharp P.M., Touhy T.M.F., Mosurski K.R. Codon usage in yeast, cluster analysis clearly differentiates highly and lowly expressed genes. Nucleic Acids Res. 14:1986;5125-5143.
    • (1986) Nucleic Acids Res. , vol.14 , pp. 5125-5143
    • Sharp, P.M.1    Touhy, T.M.F.2    Mosurski, K.R.3
  • 26
    • 0033039492 scopus 로고    scopus 로고
    • Structural constraints on RNA virus evolution
    • Simmonds P., Smith D.B. Structural constraints on RNA virus evolution. J. Virol. 73:1999;5787-5794.
    • (1999) J. Virol. , vol.73 , pp. 5787-5794
    • Simmonds, P.1    Smith, D.B.2
  • 27
    • 0024497416 scopus 로고
    • Mutation rates differ among regions of the mammalian genome
    • Wolfe K., Sharp P.M., Li W.H. Mutation rates differ among regions of the mammalian genome. Nature. 337:1989;283-285.
    • (1989) Nature , vol.337 , pp. 283-285
    • Wolfe, K.1    Sharp, P.M.2    Li, W.H.3
  • 28
    • 0025318864 scopus 로고
    • The effective number of codons used in a gene
    • Wright F. The effective number of codons used in a gene. Gene. 87:1990;23-29.
    • (1990) Gene , vol.87 , pp. 23-29
    • Wright, F.1
  • 29
    • 0345188623 scopus 로고    scopus 로고
    • Papillomavirus capsid protein expression level depends on the match between codon usage and tRNA availability
    • Zhou J., Liu W.J., Peng S.W., Sun X.Y., Frazer I. Papillomavirus capsid protein expression level depends on the match between codon usage and tRNA availability. J. Virol. 73:1999;4972-4982.
    • (1999) J. Virol. , vol.73 , pp. 4972-4982
    • Zhou, J.1    Liu, W.J.2    Peng, S.W.3    Sun, X.Y.4    Frazer, I.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.