Results 221 to 230 of about 18,552 (255)
Some of the next articles are maybe not open access.
Codon Usage in Trypanosomatids: The Bias of Expression
Trends in Parasitology, 2018Translation and RNA decay, two processes in which all mRNAs are engaged, are intimately related processes. Two new studies demonstrate that, in trypanosomatids, codon usage largely shapes mRNA abundance in a translation-dependent manner. The findings indicate that mRNA decay control by codon choice is an ancient and conserved mechanism.
Esteban D, Erben, Christine, Clayton
openaire +2 more sources
Relative Codon Adaptation Index, a Sensitive Measure of Codon Usage Bias
Evolutionary Bioinformatics, 2010 We propose a simple, sensitive measure of synonymous codon usage bias, the Relative Codon Adaptation Index (rCAI), as a way to discriminate better between highly biased and unbiased regions, compared with the widely used Codon Adaptation Index (CAI). CAI is a geometric mean of the relative usage of codons in a gene, and is calculated using the codon ...
Changwon Kang, Soohyun Lee
exaly +5 more sources
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
openaire +2 more sources
An Evaluation of Measures of Synonymous Codon Usage Bias
Journal of Molecular Evolution, 1998Synonymous codons are not generally used at equal frequencies, and this trend is observed for most genes and organisms. Several methods have been proposed and used to estimate the degree of the nonrandom use of the different synonymous codons. The estimates obtained by these methods, however, show different levels of both precision and dispersion when ...
J M, Comeron, M, Aguadé
openaire +2 more sources
Codon usage by chloroplast gene is bias in Hemiptelea davidii
Journal of Genetics, 2020The base composition of the chloroplast genes is of great interest because they play a highly significant role in the evolutionary development of the plants. Evaluation of the 48 chloroplast protein-coding genes of Hemiptelea davidii showed that the average GC content was about 37.32%, while at the third codon base position alone the average GC content
Huabo Liu +3 more
openaire +2 more sources
Codon usage bias in metagenomes
2008Codon usage (CU) bias is an effect predominant in prokaryotes whereby synonymous codons are used with different frequencies between different species and even between genes within a single genome. This effect is related to tRNA abundance and can be used to predict expressivity of proteins by comparing their CU with that of a reference set of ...
Vlahoviček, Kristian, Lucić, Vedran
openaire +4 more sources
Reduced Selection for Codon Usage Bias in Drosophila miranda
Journal of Molecular Evolution, 2007Biased codon usage in many species results from a balance among mutation, weak selection, and genetic drift. Here I show that selection to maintain biased codon usage is reduced in Drosophila miranda relative to its ancestor. Analyses of mutation patterns in noncoding DNA suggest that the extent of this reduction cannot be explained by changes in ...
openaire +2 more sources
Selected codon usage bias in members of the class Mollicutes
Gene, 2011Mollicutes are parasitic microorganisms mainly characterized by small cell sizes, reduced genomes and great A and T mutational bias. We analyzed the codon usage patterns of the completely sequenced genomes of bacteria that belong to this class. We found that for many organisms not only mutational bias but also selection has a major effect on codon ...
Andrés, Iriarte +3 more
openaire +2 more sources
Codon usage bias in metagenomes
2009Codon usage (CU) bias is an effect predominant in prokaryotes whereby synonymous codons are used with different frequencies between different species and even between genes within a single genome. This effect is related to tRNA abundance and can be used to predict expressivity of proteins by comparing their CU with that of a reference set of ...
Lucić, Vedran +3 more
openaire +1 more source
An analysis of codon usage in mammals: Selection or mutation bias?
Journal of Molecular Evolution, 1991A new statistical test has been developed to detect selection on silent sites. This test compares the codon usage within a gene and thus does not require knowledge of which genes are under the greatest selection, that there exist common trends in codon usage across genes, or that genes have the same mutation pattern.
openaire +2 more sources