Inferring Adaptive Codon Preference to Understand Sources of Selection Shaping Codon Usage Bias
نویسندگان
چکیده
منابع مشابه
More Codon Usage Bias
χ measure. In statistics, the χ statstic computes how different the distribution of values is from a uniform distribution. Let d = c1 . . . cN be a DNA string in nucleotide alphabet, and let L be the total number of codons in d that are not Methinine or Tryptophan (the number does include the stop codons though). Let a be a k-degenerate amino acid, and let La be the total number of codons codin...
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The regulatory mechanisms of determining which genes specifically expressed in which tissues are still not fully elucidated, especially in plants. Using internal correspondence analysis, I first establish that tissue-specific genes exhibit significantly different synonymous codon usage in rice, although this effect is weak. The variability of synonymous codon usage between tissues accounts for ...
متن کاملSelection on codon bias.
In a wide variety of organisms, synonymous codons are used with different frequencies, a phenomenon known as codon bias. Population genetic studies have shown that synonymous sites are under weak selection and that codon bias is maintained by a balance between selection, mutation, and genetic drift. It appears that the major cause for selection on codon bias is that certain preferred codons are...
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7. Karimpour, I., Cutler, M., Shih, D., Smith, J. and Kleene, K. (1992) DNA Cell Hiol. 11,693-699 8. Hill, K. E., Lloyd, R. S., Yang, J. G., Read, R. and Hurk, R. F. (1991) J. Biol. Chem. 266,10050-10053 9. Burk, R. F., Lawrence, R. A. and Lane, J. M. (1980) J. Clin. Invest. 65, 1024-1031 10. Rurk, R. F., Hill, K. E., Read, R. and Rellew, T. (1991) Am. J. Physiol. 261, E26-E30 11. Yang, J. G., ...
متن کاملA Model of Codon Usage Bias
Submitted for the MAR07 Meeting of The American Physical Society A Model of Codon Usage Bias MORTEN KLOSTER, CHAO TANG, UCSF — The genetic code is degenerate; most amino acids can be encoded by from two to as many as six different codons. While one might expect these codons to be used with equal frequency, this turns out not to be the case—not only are some codons favored over others, but their...
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ژورنال
عنوان ژورنال: Molecular Biology and Evolution
سال: 2021
ISSN: 0737-4038,1537-1719
DOI: 10.1093/molbev/msab099