Coevolution of Codon Usage and tRNA Genes Leads to Alternative Stable States of Biased Codon Usage
نویسندگان
چکیده
منابع مشابه
Di-codon usage for classification of genes
Genes are often classified into biologically related groups so that inferences on their functions can be made. This paper demonstrates that the di-codon usage is a useful feature for gene classification and gives better classification accuracy than the codon usage. Our experiments with different classifiers show that support vector machines performs better than other classifiers in classifying ...
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The effect of neighbouring bases on the usage of synonymous codons in genes with low codon usage bias in yeast and E. coli is examined. The codon adaptation index is employed to identify a group of genes in each organism with low codon usage bias, which are likely to be weakly expressed. A similar pattern is found in complementary sequences with respect to synonymous usage of A vs G or of U vs ...
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Shaanxi Province, China Hemoglobin is a protein responsible for the transport of oxygen. The preference of hemoglobin coding gene is analyzed by CodonW. The relationship between the A3 / (A3 + T3) and G3 / (G3 + C3) and the relationship between GC12 and GC3 are all investigated. Finally, the preference of hemoglobin coding gene is shown and discussed. The results show that codon use preference ...
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We modeled how the charged levels of different transfer RNAs (tRNAs) that carry the same amino acid (isoacceptors) respond when this amino acid becomes growth-limiting. The charged levels will approach zero for some isoacceptors (such as tRNA2Leu) and remain high for others (such as tRNA4Leu), as determined by the concentrations of isoacceptors and how often their codons occur in protein synthe...
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BACKGROUND SPANX (sperm protein coupled with the nucleus in the X chromosome) genes play a crucial role in human spermatogenesis. Codon usage bias (CUB) is a well-known phenomenon that exists in many genomes and mainly determined by mutation and selection. CUB is species specific and a unique characteristic of a genome. Analysis of compositional features and codon usage pattern of SPANX genes i...
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ژورنال
عنوان ژورنال: Molecular Biology and Evolution
سال: 2008
ISSN: 0737-4038,1537-1719
DOI: 10.1093/molbev/msn173