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Journal of Molecular Biology, 2019 Usage of sequential codon-pairs is non-random and unique to each species. Codon-pair bias is related to but clearly distinct from individual codon usage bias.
Jacob Kames, Vahan Simonyan, Haim Bar
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Codon usage divergence of homologous vertebrate genes and codon usage clock
Journal of Molecular Evolution, 1991This paper is concerned with the divergence of synonymous codon usage and its bias in three homologous genes within vertebrate species. Genetic distances among species are described in terms of synonymous codon usage divergence and the correlation is found between the genetic distances and taxonomic distances among species under study.
M, Long, J H, Gillespie
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Journal of Basic Microbiology, 1986
AbstractCodon usage was analysed for 14 streptococcal genes or significant open reading frames and found to be different from that in Escherichia coli and Bacillus subtilis. In particular, the preferred use of WWT codons over WWC was inconsistent with the rule of optimal codon‐anticodon interaction energy.
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AbstractCodon usage was analysed for 14 streptococcal genes or significant open reading frames and found to be different from that in Escherichia coli and Bacillus subtilis. In particular, the preferred use of WWT codons over WWC was inconsistent with the rule of optimal codon‐anticodon interaction energy.
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Codon usage in Aspergillus nidulans
Molecular and General Genetics MGG, 1991Synonymous codon usage in genes from the ascomycete (filamentous) fungus Aspergillus nidulans has been investigated. A total of 45 gene sequences has been analysed. Multivariate statistical analysis has been used to identify a single major trend among genes.
A T, Lloyd, P M, Sharp
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1993
Abstract In most genes in most species, alternative synonymous codons are not used in equal frequencies (Aota et al. 1988)—Drosophila is no exception (Ashburner et al. 1984; O’Connell and Rosbash 1984; Shields et al. 1988). In Table 37.1 we present the total codon usage for 438 D. melanogaster genes.
Paul M Sharp, Andrew T Lloyd
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Abstract In most genes in most species, alternative synonymous codons are not used in equal frequencies (Aota et al. 1988)—Drosophila is no exception (Ashburner et al. 1984; O’Connell and Rosbash 1984; Shields et al. 1988). In Table 37.1 we present the total codon usage for 438 D. melanogaster genes.
Paul M Sharp, Andrew T Lloyd
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Codon usage in Entamoeba histolytica
International Journal for Parasitology, 1992The codon usage of 10 E. histolytica genes comprising 4455 codons was analysed. The codon usage revealed an extremely biased use of synonymous codons with a preference for NNU (44%) and NNA (41.4%) codons. Codons CGG (arg), AGG (arg) and CCG (pro) were absent in the E. histolytica genes examined. The codon usage of E.
S, Char, M J, Farthing
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Estimate Codon Usage Bias Using Codon Usage Analyzer (CUA)
2017One amino acid is added to a growing peptide by a ribosome through reading triple nucleotides, i.e., a codon, each time. Twenty species of amino acids are often coded by 61 codons, so one amino acid can be coded by more than one codon and the codons coding the same amino acid are called synonymous. Intriguingly, synonymous codons' usage is often uneven:
Zhenguo, Zhang, Gaurav, Sablok
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Codon usage and genome evolution
Current Opinion in Genetics & Development, 1994The rates and patterns of evolution at silent sites in codons reveal much about the basic features of molecular evolution. Recent increases in the amount of sequence data available for various species and more precise knowledge of the chromosomal locations of those sequences, coming in particular from genome projects, reveal that some features of ...
P M, Sharp, G, Matassi
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Preferential codon usage in genes
Gene, 1981We present a method which permits comparison of the preferential use of degenerate codons within any gene. The method makes use of the triplet frequencies in the noncoding frames to assess whether a preference is specific to the reading frame. Preference is given a statistical meaning by use of the analysis of variance coupled to Duncan's multiple ...
S, Wain-Hobson +3 more
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Abstract There is a growing appreciation that synonymous codon usage, although historically regarded as phenotypically silent, can instead alter a wide range of mechanisms related to functional protein production, a term we use here to describe the net effect of transcription (mRNA synthesis), mRNA half‐life ...
Gabriel Wright +5 more
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