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Volumn 22, Issue 10, 2005, Pages 2022-2026

A dissection of volatility in yeast

Author keywords

Codon bias; Nonsynonymous substitution rate; Selection; Volatility; Yeast

Indexed keywords

AMINO ACID;

EID: 24744444753     PISSN: 07374038     EISSN: None     Source Type: Journal    
DOI: 10.1093/molbev/msi192     Document Type: Article
Times cited : (9)

References (25)
  • 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
    • 0037108764 scopus 로고    scopus 로고
    • Linkage limits the power of natural selection in Drosophila
    • Betancourt, A., and D. Presgraves. 2002. Linkage limits the power of natural selection in Drosophila. Proc. Natl. Acad. Sci. USA 99(21):13616-13620.
    • (2002) Proc. Natl. Acad. Sci. USA , vol.99 , Issue.21 , pp. 13616-13620
    • Betancourt, A.1    Presgraves, D.2
  • 3
    • 0346991738 scopus 로고    scopus 로고
    • The problem of counting sites in the estimation of the synonymous and nonsynonymous substitution rates: Implications for the correlation between synonymous substitution rate and codon usage bias
    • Bierne, N., and A. Eyre-Walker. 2003. The problem of counting sites in the estimation of the synonymous and nonsynonymous substitution rates: implications for the correlation between synonymous substitution rate and codon usage bias. Genetics 165:1587-1597.
    • (2003) Genetics , vol.165 , pp. 1587-1597
    • Bierne, N.1    Eyre-Walker, A.2
  • 4
    • 84993842127 scopus 로고
    • Are codon usage patterns in unicellular organisms determined by selection mutation balance?
    • Bulmer, M. 1988. Are codon usage patterns in unicellular organisms determined by selection mutation balance? J. Evol. Biol. 1:15-26.
    • (1988) J. Evol. Biol. , vol.1 , pp. 15-26
    • Bulmer, M.1
  • 5
    • 13844320047 scopus 로고    scopus 로고
    • Not detecting selection using a single genome
    • Chen, W., J. J. Emerson, and T. M. Martin. 2005. Not detecting selection using a single genome. Nature 433:E6-E7.
    • (2005) Nature , vol.433
    • Chen, W.1    Emerson, J.J.2    Martin, T.M.3
  • 6
    • 0034666040 scopus 로고    scopus 로고
    • Relationship of codon bias to MRNA concentration and protein length in Saccharomyces cerevisiae
    • Coghlan, A., and K. H. Wolfe, 2000. Relationship of codon bias to MRNA concentration and protein length in Saccharomyces cerevisiae. YEAST 16:1131-1145.
    • (2000) YEAST , vol.16 , pp. 1131-1145
    • Coghlan, A.1    Wolfe, K.H.2
  • 7
    • 14544278538 scopus 로고    scopus 로고
    • The comparative method rules! Codon volatility cannot detect positive Darwinian selection using a single genome sequence
    • Dagan, T., and D. Graur. 2004. The comparative method rules! Codon volatility cannot detect positive Darwinian selection using a single genome sequence. Mol. Biol. Evol. 22:1260-1272.
    • (2004) Mol. Biol. Evol. , vol.22 , pp. 1260-1272
    • Dagan, T.1    Graur, D.2
  • 8
    • 14544291667 scopus 로고    scopus 로고
    • Codon volatility as an indicator of positive selection: Data from eukaryotic genome comparisons
    • Friedman, R., and A. L. Hughes. 2004. Codon volatility as an indicator of positive selection: data from eukaryotic genome comparisons. Mol. Biol. Evol. 22:542-546.
    • (2004) Mol. Biol. Evol. , vol.22 , pp. 542-546
    • Friedman, R.1    Hughes, A.L.2
  • 10
    • 0038349948 scopus 로고    scopus 로고
    • Sequencing and comparison of yeast species to identify genes and regulatory elements
    • Kellis, M., N. Patterson, M. Endrizzi, and E. S. Lander. 2003. Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature 423:241-254.
    • (2003) Nature , vol.423 , pp. 241-254
    • Kellis, M.1    Patterson, N.2    Endrizzi, M.3    Lander, E.S.4
  • 11
    • 0041670890 scopus 로고    scopus 로고
    • Selection conflicts, gene expression, and codon usage trends in yeast
    • Kliman, R. M., I. Naheelah, and M. Santiago. 2003. Selection conflicts, gene expression, and codon usage trends in yeast. J. Mol. Evol. 57:98-109.
    • (2003) J. Mol. Evol. , vol.57 , pp. 98-109
    • Kliman, R.M.1    Naheelah, I.2    Santiago, M.3
  • 12
    • 11944249127 scopus 로고    scopus 로고
    • Correlated evolution of synonymous and nonsynonymous sites in Drosophila
    • Marais, G., T. Domazet-Loso, D. Tautz, and B. Charlesworth. 2004. Correlated evolution of synonymous and nonsynonymous sites in Drosophila. J. Mol. Evol. 59:771-779.
    • (2004) J. Mol. Evol. , vol.59 , pp. 771-779
    • Marais, G.1    Domazet-Loso, T.2    Tautz, D.3    Charlesworth, B.4
  • 13
    • 13844320854 scopus 로고    scopus 로고
    • Detecting selection needs comparative data
    • Nielsen, R., and M. J. Hubisz. 2005. Detecting selection needs comparative data. Nature 433:E6.
    • (2005) Nature , vol.433
    • Nielsen, R.1    Hubisz, M.J.2
  • 14
    • 0034978556 scopus 로고    scopus 로고
    • Highly expressed genes in yeast evolve slowly
    • Pal, C., B. Papp, and L. D. Hurst. 2001. Highly expressed genes in yeast evolve slowly. Genetics 158:927-931.
    • (2001) Genetics , vol.158 , pp. 927-931
    • Pal, C.1    Papp, B.2    Hurst, L.D.3
  • 16
    • 2342423945 scopus 로고    scopus 로고
    • Detecting selection using a single genome sequence of M. tuberculosis and P. falciparum
    • Plotkin, J. B., J. Dushoff, and H. B. Fraser. 2004. Detecting selection using a single genome sequence of M. tuberculosis and P. falciparum. Nature 428:942-945.
    • (2004) Nature , vol.428 , pp. 942-945
    • Plotkin, J.B.1    Dushoff, J.2    Fraser, H.B.3
  • 17
    • 24744437054 scopus 로고    scopus 로고
    • Reply
    • _. 2005. Reply. Nature 433:E7-E8.
    • (2005) Nature , vol.433
  • 18
    • 1242284655 scopus 로고    scopus 로고
    • An analysis of determinants of amino acid substitution rates in bacterial proteins
    • Rocha, E. P. C., and A. Danchin. 2004. An analysis of determinants of amino acid substitution rates in bacterial proteins. Mol. Biol. Evol. 21(1):108-116.
    • (2004) Mol. Biol. Evol. , vol.21 , Issue.1 , pp. 108-116
    • Rocha, E.P.C.1    Danchin, A.2
  • 19
    • 0026002819 scopus 로고
    • Determinants of DNA sequence divergence between Escherichia coli and Salmonella typhimurium: Codon usage, map position, and concerted evolution
    • Sharp, P. M., 1991. Determinants of DNA sequence divergence between Escherichia coli and Salmonella typhimurium: codon usage, map position, and concerted evolution. J. Mol. Evol. 33:23-33.
    • (1991) J. Mol. Evol. , vol.33 , pp. 23-33
    • Sharp, P.M.1
  • 20
    • 16344386580 scopus 로고    scopus 로고
    • Gene "volatility" is most unlikely to reveal adaptation
    • Sharp, P. M. 2004. Gene "volatility" is most unlikely to reveal adaptation. Mol. Biol. Evol. 22:807-809.
    • (2004) Mol. Biol. Evol. , vol.22 , pp. 807-809
    • Sharp, P.M.1
  • 21
    • 0025988205 scopus 로고
    • Synonymous codon usage in Saccharomyces cerevisiae
    • Sharp, P. M., and E. Cowe. 1991. Synonymous codon usage in Saccharomyces cerevisiae. Yeast 7:657-678.
    • (1991) Yeast , vol.7 , pp. 657-678
    • Sharp, P.M.1    Cowe, E.2
  • 22
    • 0023650543 scopus 로고
    • The codon adaptation index - A measure of directional synonymous codon usage bias, and its potential applications
    • Sharp, P. M., and W.-H. Li. 1987. The codon adaptation index - a measure of directional synonymous codon usage bias, and its potential applications. Nucleic Acids Res. 15:1281-1295.
    • (1987) Nucleic Acids Res. , vol.15 , pp. 1281-1295
    • Sharp, P.M.1    Li, W.-H.2
  • 23
    • 0034079112 scopus 로고    scopus 로고
    • Selective constraints, amino acid composition and the rate of protein evolution
    • Tourasse, N., and W.-H. Li. 2000. Selective constraints, amino acid composition and the rate of protein evolution. Mol. Biol. Evol. 17(4):656-664.
    • (2000) Mol. Biol. Evol. , vol.17 , Issue.4 , pp. 656-664
    • Tourasse, N.1    Li, W.-H.2
  • 24
    • 0030683599 scopus 로고    scopus 로고
    • PAML: A program package for phylogenetic analysis by maximum likelihood
    • Yang, Z. 1997. PAML: a program package for phylogenetic analysis by maximum likelihood. Comput. Appl. Biosci. 13:555-556.
    • (1997) Comput. Appl. Biosci. , vol.13 , pp. 555-556
    • Yang, Z.1
  • 25
    • 13744250349 scopus 로고    scopus 로고
    • On the evolution of codon volatility
    • Zhang, J. 2005. On the evolution of codon volatility. Genetics 169:495-501.
    • (2005) Genetics , vol.169 , pp. 495-501
    • Zhang, J.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.