2001
DOI: 10.1007/s002390010155
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Synonymous Codon Usage, Accuracy of Translation, and Gene Length in Caenorhabditis elegans

Abstract: Abstract. In many unicellular organisms, invertebrates, and plants, synonymous codon usage biases result from a coadaptation between codon usage and tRNAs abundance to optimize the efficiency of protein synthesis. However, it remains unclear whether natural selection acts at the level of the speed or the accuracy of mRNAs translation. Here we show that codon usage can improve the fidelity of protein synthesis in multicellular species. As predicted by the model of selection for translational accuracy, we find t… Show more

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Cited by 125 publications
(85 citation statements)
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References 27 publications
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“…Whereas most variables have little, if any, explanatory power, expression levels account for a significant proportion of the variance in the evolutionary rates of proteins. Expression, measured indirectly using codon usage bias, accounts for $30% of all variance in protein substitution rates in bacteria [36], $36% in yeast [17], $32% in Chlamydomonas [37] and $25% in Drosophila [39] (for review, see [35]). Other proxies of expression levels lead to qualitatively similar results.…”
Section: What the Functional Hypothesis Cannot Explainmentioning
confidence: 99%
“…Whereas most variables have little, if any, explanatory power, expression levels account for a significant proportion of the variance in the evolutionary rates of proteins. Expression, measured indirectly using codon usage bias, accounts for $30% of all variance in protein substitution rates in bacteria [36], $36% in yeast [17], $32% in Chlamydomonas [37] and $25% in Drosophila [39] (for review, see [35]). Other proxies of expression levels lead to qualitatively similar results.…”
Section: What the Functional Hypothesis Cannot Explainmentioning
confidence: 99%
“…For example, the correlation that we observe between diversity levels (p or u) and estimates of the recombination parameter (r) in these data could indicate a reduced efficacy of natural selection in lower recombination regions due to background selection or genetic hitchhiking (Maynard Smith and Haigh 1974;Charlesworth et al 1993;Wiehe and Stephan 1993;Hudson and Kaplan 1995). Alternatively, mutation or biased gene conversion rates correlated with recombination could result in greater diversity in high recombination regions (Marais and Duret 2001;Marais 2003). The additional observation of a GC-content 3 r correlation, without an association between r and codon usage bias, suggests the operation of biased gene conversion, although further data are required to adequately test this.…”
Section: Discussionmentioning
confidence: 99%
“…Gene expression was estimated as the number of hits when comparing a sequence with publicly available ESTs for P. patens (see Duret and Mouchiroud, 1999;Marais and Duret, 2001;Hey and Kliman, 2002;Miyasaka, 2002). All available cDNA libraries in release 101502 of the NCBI dbEST database (Boguski et al, 1993) were used, comprising 50 250 P. patens ESTs.…”
Section: Methodsmentioning
confidence: 99%