An evolutionary perspective on synonymous codon usage in unicellular organisms

[1]  Wen-Hsiung Li,et al.  The rate of synonymous substitution in enterobacterial genes is inversely related to codon usage bias. , 1987, Molecular biology and evolution.

[2]  P. Sharp,et al.  Codon usage in regulatory genes in Escherichia coli does not reflect selection for 'rare' codons. , 1986, Nucleic acids research.

[3]  Paul M. Sharp,et al.  Codon usage in yeast: cluster analysis clearly differentiates highly and lowly expressed genes , 1986, Nucleic Acids Res..

[4]  M. Bulmer,et al.  Neighboring base effects on substitution rates in pseudogenes. , 1986, Molecular biology and evolution.

[5]  R. Randall,et al.  The A+T-rich genome of Herpesvirus saimiri contains a highly conserved gene for thymidylate synthase. , 1986, Proceedings of the National Academy of Sciences of the United States of America.

[6]  R. Schaaper,et al.  Mechanisms of spontaneous mutagenesis: an analysis of the spectrum of spontaneous mutation in the Escherichia coli lacI gene. , 1986, Journal of molecular biology.

[7]  C. Lazdunski,et al.  Effect of distribution of unfavourable codons on the maximum rate of gene expression by an heterologous organism. , 1986, Journal of theoretical biology.

[8]  B. A. Cantwell,et al.  Genetic Engineering of Extracellular Enzyme Systems of Bacilli , 1986, Annals of the New York Academy of Sciences.

[9]  J. Lopes,et al.  Analysis and comparison of the internal promoter, pE, of the ilvGMEDA operons from Escherichia coli K-12 and Salmonella typhimurium. , 1986, Nucleic acids research.

[10]  M. Kimura,et al.  DNA and the neutral theory. , 1986, Philosophical transactions of the Royal Society of London. Series B, Biological sciences.

[11]  R. Blake,et al.  Delineation of coding areas in DNA sequences through assignment of codon probabilities. , 1985, Journal of biomolecular structure & dynamics.

[12]  K. Jensen,et al.  Codon-defined ribosomal pausing in Escherichia coli detected by using the pyrE attenuator to probe the coupling between transcription and translation. , 1985, Nucleic acids research.

[13]  G Bernardi,et al.  The mosaic genome of warm-blooded vertebrates. , 1985, Science.

[14]  C. Luo,et al.  A new method for estimating synonymous and nonsynonymous rates of nucleotide substitution considering the relative likelihood of nucleotide and codon changes. , 1985, Molecular biology and evolution.

[15]  D. McConnell,et al.  Selection pressures on codon usage in the complete genome of bacteriophage T7 , 1985, Journal of Molecular Evolution.

[16]  Lipman Dj,et al.  Interaction of silent and replacement changes in eukaryotic coding sequences. , 1985 .

[17]  M. Bibb,et al.  The relationship between base composition and codon usage in bacterial genes and its use for the simple and reliable identification of protein-coding sequences. , 1984, Gene.

[18]  G Humphreys,et al.  Codon usage can affect efficiency of translation of genes in Escherichia coli. , 1984, Nucleic acids research.

[19]  R Nussinov,et al.  Doublet frequencies in evolutionary distinct groups. , 1984, Nucleic acids research.

[20]  M. Gribskov,et al.  The codon preference plot: graphic analysis of protein coding sequences and prediction of gene expression , 1984, Nucleic Acids Res..

[21]  W. Konigsberg,et al.  Evidence for use of rare codons in the dnaG gene and other regulatory genes of Escherichia coli. , 1983, Proceedings of the National Academy of Sciences of the United States of America.

[22]  M. Gouy,et al.  Codon usage in bacteria: correlation with gene expressivity. , 1982, Nucleic acids research.

[23]  T. Ikemura.  Correlation between the abundance of yeast transfer RNAs and the occurrence of the respective codons in protein genes. Differences in synonymous codon choice patterns of yeast and Escherichia coli with reference to the abundance of isoaccepting transfer RNAs. , 1982, Journal of molecular biology.

[24]  W. Fiers,et al.  Preferential codon usage in prokaryotic genes: the optimal codon-anticodon interaction energy and the selective codon usage in efficiently expressed genes. , 1982, Gene.

[25]  J. Bennetzen,et al.  Codon selection in yeast. , 1982, The Journal of biological chemistry.

[26]  T. Ikemura.  Correlation between the abundance of Escherichia coli transfer RNAs and the occurrence of the respective codons in its protein genes: a proposal for a synonymous codon choice that is optimal for the E. coli translational system. , 1981, Journal of molecular biology.

[27]  M. Kimura,et al.  Possibility of extensive neutral evolution under stabilizing selection with special reference to nonrandom usage of synonymous codons. , 1981, Proceedings of the National Academy of Sciences of the United States of America.

[28]  T. Ikemura.  Correlation between the abundance of Escherichia coli transfer RNAs and the occurrence of the respective codons in its protein genes. , 1981, Journal of molecular biology.

[29]  Manolo Gouy,et al.  Codon catalog usage is a genome strategy modulated for gene expressivity , 1981, Nucleic Acids Res..

[30]  M. Gouy,et al.  Codon catalog usage and the genome hypothesis. , 1980, Nucleic acids research.

[31]  W. Fitch.  Is there selection against wobble in codon-anticodon pairing? , 1976, Science.

[32]  J. L. King,et al.  Non-Darwinian evolution. , 1969, Science.

[33]  M. Kimura.  Genetic variability maintained in a finite population due to mutational production of neutral and nearly neutral isoalleles. , 1968, Genetical research.

[34]  C. Emerson,et al.  Codon usage in muscle genes and liver genes , 2005, Journal of Molecular Evolution.

[35]  D. Lipman,et al.  Interaction of silent and replacement changes in eukaryotic coding sequences , 2005, Journal of Molecular Evolution.

[36]  Wen-Hsiung Li,et al.  Nonrandomness of point mutation as reflected in nucleotide substitutions in pseudogenes and its evolutionary implications , 2005, Journal of Molecular Evolution.

[37]  G. Bernardi,et al.  Codon usage and genome composition , 2005, Journal of Molecular Evolution.

[38]  Wen-Hsiung Li.  Models of nearly neutral mutations with particular implications for nonrandom usage of synonymous codons , 2005, Journal of Molecular Evolution.

[39]  Manolo Gouy,et al.  Molecular evolution of viruses as seen by nucleic acid sequence study , 1985 .

[40]  N. Ogasawara,et al.  Markedly unbiased codon usage in Bacillus subtilis. , 1985, Gene.

[41]  Wen-Hsiung Li,et al.  Evolution of DNA Sequences , 1985 .

[42]  T. Ikemura.  Codon usage and tRNA content in unicellular and multicellular organisms. , 1985, Molecular biology and evolution.

[43]  M. Kimura,et al.  The neutral theory of molecular evolution. , 1983, Scientific American.

[44]  M. Kimura.  Genetic variability maintained in a finite population due to mutational production of neutral and nearly neutral isoalleles. , 1968, Genetical research.

[45]  Edward Pollak,et al.  The Neutral Theory of Molecular Evolution. , 2022 .