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Volumn 226, Issue 4, 2004, Pages 393-400

Genetic codes as evolutionary filters: Subtle differences in the structure of genetic codes result in significant differences in patterns of nucleotide substitution

Author keywords

Codon degeneracy; Genetic codes; Molecular evolution; Transition bias; Transition to transversion ratio

Indexed keywords

NUCLEOTIDE;

EID: 0842305096     PISSN: 00225193     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jtbi.2003.09.019     Document Type: Article
Times cited : (4)

References (30)
  • 1
    • 0033935358 scopus 로고    scopus 로고
    • From amino acid landscape to protein landscape: Analysis of genetic codes in terms of fitness landscape
    • Aita T., Urata S., Husimi Y. From amino acid landscape to protein landscape. analysis of genetic codes in terms of fitness landscape J. Mol. Evol. 50:2000;313-323.
    • (2000) J. Mol. Evol. , vol.50 , pp. 313-323
    • Aita, T.1    Urata, S.2    Husimi, Y.3
  • 2
    • 0031011715 scopus 로고    scopus 로고
    • An analysis of the metabolic theory of the origin of the genetic code
    • Amirnovin R. An analysis of the metabolic theory of the origin of the genetic code. J. Mol. Evol. 44:1997;473-476.
    • (1997) J. Mol. Evol. , vol.44 , pp. 473-476
    • Amirnovin, R.1
  • 3
    • 0033044839 scopus 로고    scopus 로고
    • The coevolution theory of the origin of the genetic code. Response
    • Amirnovin R., Miller S.L. The coevolution theory of the origin of the genetic code. Response. J. Mol. Evol. 48:1999;253-255.
    • (1999) J. Mol. Evol. , vol.48 , pp. 253-255
    • Amirnovin, R.1    Miller, S.L.2
  • 4
    • 0031777847 scopus 로고    scopus 로고
    • On error minimization in a sequential origin of the standard genetic code
    • Ardell D.H. On error minimization in a sequential origin of the standard genetic code. J. Mol. Evol. 47:1998;1-13.
    • (1998) J. Mol. Evol. , vol.47 , pp. 1-13
    • Ardell, D.H.1
  • 5
    • 0032901102 scopus 로고    scopus 로고
    • Relationships among isoacceptor tRNAs seems to support the coevolution theory of the origin of the genetic code
    • Chaley M.B., Korotkov E.V., Phoenix D.A. Relationships among isoacceptor tRNAs seems to support the coevolution theory of the origin of the genetic code. J. Mol. Evol. 48:1999;168-177.
    • (1999) J. Mol. Evol. , vol.48 , pp. 168-177
    • Chaley, M.B.1    Korotkov, E.V.2    Phoenix, D.A.3
  • 6
    • 0033044839 scopus 로고    scopus 로고
    • The coevolution theory of the origin of the genetic code
    • Di Giulio M. The coevolution theory of the origin of the genetic code. J. Mol. Evol. 48:1999;253-255.
    • (1999) J. Mol. Evol. , vol.48 , pp. 253-255
    • Di Giulio, M.1
  • 7
    • 0033937045 scopus 로고    scopus 로고
    • The robust statistical bases of the coevolution theory of genetic code origin
    • Di Giulio M., Medugno M. The robust statistical bases of the coevolution theory of genetic code origin. J. Mol. Evol. 50:2000;258-263.
    • (2000) J. Mol. Evol. , vol.50 , pp. 258-263
    • Di Giulio, M.1    Medugno, M.2
  • 8
    • 0013893026 scopus 로고
    • The Relation between frequencies of amino acids and ordered trinucleotides
    • Fitch W.M. The Relation between frequencies of amino acids and ordered trinucleotides. J. Mol. Biol. 16:1966;1-8.
    • (1966) J. Mol. Biol. , vol.16 , pp. 1-8
    • Fitch, W.M.1
  • 9
    • 0031662136 scopus 로고    scopus 로고
    • The genetic code is one in a million
    • Freeland S.J., Hurst L.D. The genetic code is one in a million. J. Mol. Evol. 47:1998;238-248.
    • (1998) J. Mol. Evol. , vol.47 , pp. 238-248
    • Freeland, S.J.1    Hurst, L.D.2
  • 10
    • 0026327996 scopus 로고
    • A quantitative measure of error minimization in the genetic code
    • Haig D., Hurst L.D. A quantitative measure of error minimization in the genetic code. J. Mol. Evol. 33:1991;412-417.
    • (1991) J. Mol. Evol. , vol.33 , pp. 412-417
    • Haig, D.1    Hurst, L.D.2
  • 11
    • 0031954283 scopus 로고    scopus 로고
    • Estimation of the transition/transversion ratio
    • Ina Y. Estimation of the transition/transversion ratio. J. Mol. Evol. 46:1998;521-533.
    • (1998) J. Mol. Evol. , vol.46 , pp. 521-533
    • Ina, Y.1
  • 12
    • 0033278748 scopus 로고    scopus 로고
    • The genetic code: What is it good for? An analysis of the effects of selection pressures on genetic codes
    • Judson O.P., Haydon D. The genetic code. what is it good for? An analysis of the effects of selection pressures on genetic codes J. Mol. Evol. 49:1999;539-550.
    • (1999) J. Mol. Evol. , vol.49 , pp. 539-550
    • Judson, O.P.1    Haydon, D.2
  • 13
    • 0032849705 scopus 로고    scopus 로고
    • Intra-strand biases in bacteriophage T4 genome
    • Kano-Sueoka T., Lobry J.R., Sueoka N. Intra-strand biases in bacteriophage T4 genome. Gene. 238:1999;59-64.
    • (1999) Gene , vol.238 , pp. 59-64
    • Kano-Sueoka, T.1    Lobry, J.R.2    Sueoka, N.3
  • 14
    • 0033152412 scopus 로고    scopus 로고
    • Selection, history and chemistry: The three faces of the genetic code
    • Knight R.D., Freeland S.J., Landweber L.F. Selection, history and chemistry. the three faces of the genetic code Trends Ecol. Evol. 24:1999;241-247.
    • (1999) Trends Ecol. Evol. , vol.24 , pp. 241-247
    • Knight, R.D.1    Freeland, S.J.2    Landweber, L.F.3
  • 15
    • 0035220937 scopus 로고    scopus 로고
    • A simple model based on mutation and selection explains trends in codon and amino-acid usage and GC composition within and across genomes
    • Knight R.D., Freeland S.J., Landweber L.F. A simple model based on mutation and selection explains trends in codon and amino-acid usage and GC composition within and across genomes. Gen. Biol. 2:2001;1-13.
    • (2001) Gen. Biol. , vol.2 , pp. 1-13
    • Knight, R.D.1    Freeland, S.J.2    Landweber, L.F.3
  • 16
    • 0027403961 scopus 로고
    • Unbiased estimation of the rates of synonymous and nonsynonymous substitution
    • Li W.-H. Unbiased estimation of the rates of synonymous and nonsynonymous substitution. J. Mol. Evol. 36:1993;96-99.
    • (1993) J. Mol. Evol. , vol.36 , pp. 96-99
    • Li, W.-H.1
  • 17
    • 0029985398 scopus 로고    scopus 로고
    • Asymmetric substitution patterns in the two DNA strands of bacteria
    • Lobry J.R. Asymmetric substitution patterns in the two DNA strands of bacteria. Mol. Biol. Evol. 13:1996;660-665.
    • (1996) Mol. Biol. Evol. , vol.13 , pp. 660-665
    • Lobry, J.R.1
  • 18
    • 0033947771 scopus 로고    scopus 로고
    • The codon-degeneracy model of molecular evolution
    • McClellan D.A. The codon-degeneracy model of molecular evolution. J. Mol. Evol. 50:2000;131-140.
    • (2000) J. Mol. Evol. , vol.50 , pp. 131-140
    • McClellan, D.A.1
  • 19
    • 0033809825 scopus 로고    scopus 로고
    • The phylogenetic utility of the codon-degeneracy model
    • McClellan D.A. The phylogenetic utility of the codon-degeneracy model. J. Mol. Evol. 51:2000;185-193.
    • (2000) J. Mol. Evol. , vol.51 , pp. 185-193
    • McClellan, D.A.1
  • 20
    • 0034982702 scopus 로고    scopus 로고
    • Estimating the influence of selection on the variable amino acid sites of the cytochrome b protein functional domains
    • McClellan D.A., McCracken K.G. Estimating the influence of selection on the variable amino acid sites of the cytochrome b protein functional domains. Mol. Biol. Evol. 18:2001;917-925.
    • (2001) Mol. Biol. Evol. , vol.18 , pp. 917-925
    • McClellan, D.A.1    McCracken, K.G.2
  • 22
    • 0022507362 scopus 로고
    • Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions
    • Nei M., Gojobori T. Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol. Biol. Evol. 3:1986;418-426.
    • (1986) Mol. Biol. Evol. , vol.3 , pp. 418-426
    • Nei, M.1    Gojobori, T.2
  • 23
    • 0002124567 scopus 로고
    • Degeneracy of the genetic code: Extent, nature, and genetic implications
    • V. Bryson. New York: Academic Press
    • Sonneborn T.M. Degeneracy of the genetic code. extent, nature, and genetic implications Bryson V. Evolving genes and proteins. 1965;377-397 Academic Press, New York.
    • (1965) Evolving Genes and Proteins , pp. 377-397
    • Sonneborn, T.M.1
  • 24
    • 0033053160 scopus 로고    scopus 로고
    • Two aspects of DNA base composition: G+C content and translation-coupled deviation from intra-strand rule of A=T and G=C
    • Sueoka N. Two aspects of DNA base composition. G+C content and translation-coupled deviation from intra-strand rule of A=T and G=C J. Mol. Evol. 49:1999;49-62.
    • (1999) J. Mol. Evol. , vol.49 , pp. 49-62
    • Sueoka, N.1
  • 25
    • 0028297534 scopus 로고
    • Substitution-rate variation among sites and the estimation of transition bias
    • Wakeley J. Substitution-rate variation among sites and the estimation of transition bias. Mol. Biol. Evol. 11:1994;436-442.
    • (1994) Mol. Biol. Evol. , vol.11 , pp. 436-442
    • Wakeley, J.1
  • 26
    • 0001062055 scopus 로고    scopus 로고
    • The excess of transitions among nucleotide substitutions: New methods of estimating transition bias underscore its significance
    • Wakeley J. The excess of transitions among nucleotide substitutions. new methods of estimating transition bias underscore its significance Trends Ecol. Evol. 11:1996;158-163.
    • (1996) Trends Ecol. Evol. , vol.11 , pp. 158-163
    • Wakeley, J.1
  • 28
    • 0029819269 scopus 로고    scopus 로고
    • On transition bias in mitochondrial genes of pocket gophers
    • Xia X., Hafner M.S., Sudman P.D. On transition bias in mitochondrial genes of pocket gophers. J. Mol. Evol. 43:1996;32-40.
    • (1996) J. Mol. Evol. , vol.43 , pp. 32-40
    • Xia, X.1    Hafner, M.S.2    Sudman, P.D.3
  • 30
    • 0033004740 scopus 로고    scopus 로고
    • Estimation of the transition/transversion rate bias and species sampling
    • Yang Z., Yoder A.D. Estimation of the transition/transversion rate bias and species sampling. J. Mol. Evol. 48:1999;274-283.
    • (1999) J. Mol. Evol. , vol.48 , pp. 274-283
    • Yang, Z.1    Yoder, A.D.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.