Site-Specific Codon Bias in Bacteria [PDF]
Genetics, 1996 Abstract Sequences of the gapA and ompA genes from 10 genera of enterobacteria have been analyzed. There is strong bias in codon usage, but different synonymous codons are preferred at different sites in the same gene. Site-specific preference for unfavored codons is not confined to the first 100 codons and is usually manifest between ...
J M, Smith, N H, Smith
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Translation elongation can control translation initiation on eukaryotic mRNAs [PDF]
, 2013 Synonymous codons encode the same amino acid, but differ in other biophysical properties. The evolutionary selection of codons whose properties are optimal for a cell generates the phenomenon of codon bias.
Aitken +55 more
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Compare the differences of synonymous codon usage between the two species within cardiovirus [PDF]
, 2011 Background Cardioviruses are positive-strand RNA viruses in the Picornaviridae family that can cause enteric infection in rodents and also been detected at lower frequencies in other mammals such as pigs and human beings.
Wen-qian Liu +7 more
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Differences in codon bias and GC content contribute to the balanced expression of TLR7 and TLR9. [PDF]
Proc Natl Acad Sci U S A, 2016 Newman ZR +3 more
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Synthetic gene design - The rationale for codon optimization and implications for molecular pharming in plants. [PDF]
, 2017 Degeneracy in the genetic code allows multiple codon sequences to encode the same protein. Codon usage bias in genes is the term given to the preferred use of particular synonymous codons.
Ma, JK-C, Teh, AY-H, Webster, G
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Enhanced effective codon numbers to understand codon usage bias [PDF]
Biosystems, 2019 AbstractCodon usage bias is a well recognized phenomenon but the relative influence of its major causes: G+C content, mutational biases, and selection, are often difficult to disentangle. This paper presents methods to calculate modified effective codon numbers that allow the investigation of the sources of codon bias and how genes or organisms have ...
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Codon adaptation index as a measure of dominating codon bias [PDF]
Bioinformatics, 2003 Abstract We propose a simple algorithm to detect dominating synonymous codon usage bias in genomes. The algorithm is based on a precise mathematical formulation of the problem that lead us to use the Codon Adaptation Index (CAI) as a ‘universal’ measure of codon bias.
Carbone, Alessandra +2 more
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Analysis of synonymous codon usage in Hepatitis A virus
Virology Journal, 2011 Background Hepatitis A virus is the causative agent of type A viral hepatitis, which causes occasional acute hepatitis. Nevertheless, little information about synonymous codon usage pattern of HAV genome in the process of its evolution is available.
Ma Lina +8 more
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The complete mitochondrial genome of the Chinese hook snout carp Opsariichthys bidens (Actinopterygii : Cyprinifonnes) and an altemative pattem of mitogenomic evolution in vertebrate [PDF]
, 2007 The complete mitochondrial genome sequence of the Chinese hook snout carp, Opsariichthys bidens, was newly determined using the long and accurate polymerase chain reaction method.
He, Shunping +4 more
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Evolution of Codon Usage Bias in Diatoms [PDF]
Genes, 2019 Codon usage bias (CUB)—preferential use of one of the synonymous codons, has been described in a wide range of organisms from bacteria to mammals, but it has not yet been studied in marine phytoplankton. CUB is thought to be caused by weak selection for translational accuracy and efficiency.
Krasovec, Marc, Filatov, Dmitry
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