<p>(A) %MinMax was applied to the P22 tailspike gene, using a sliding window size of 18 codons and the <i>E. coli</i> codon bias (essentially identical to the codon bias of <i>S. enterica</i> serovar <i>Typhimurium</i>, the endogenous host of P22). Dark %Max bars correspond to clusters of common codons; lighter %Min (negative) bars correspond to clusters of rare codons. In contrast, the average of 200 random reverse translations of tailspike, biased to <i>E. coli</i> codon usage frequencies, yields a %MinMax profile that is entirely %Max (grey line). The white arrow marks the location of the deepest %Min peak, at codon 406. Silent mutagenesis of P22 tailspike to replace this rare codon cluster with synonymous common codons alters the %MinMa...
This thesis contains some works about the codon bias and its role in bacteria and phages, particular...
Frequencies of synonymous codons are typically non-uniform, despite the fact that such codons corres...
Initially, this thesis investigates patterns of intragenomic codon usage within the genome of the De...
<p>2166 characterized genes from the <i>E. coli</i> ORFeome (dark line) are enriched in common codon...
The geography of codon bias distributions over prokaryotic genomes and its impact upon chromosomal o...
<p>For each codon, three <i>E. coli</i> absolute codon frequencies are tabulated using codon usage d...
Gene codon optimization may be impaired by the misinterpretation of frequency and optimality of codo...
<div><p>Codon-tRNA coevolution to maximize protein production has been, until recently, the dominant...
Synonymous codons, i.e., DNA nucleotide triplets coding for the same amino acid, are used differentl...
The genetic code in mRNA is redundant, with 61 sense codons translated into 20 different amino acids...
<p>Shown are the absolute frequencies of naORF lengths for the genome of <i>E. coli</i> MC4100 (NC_0...
In this study we have focused on the codon usage bias in E. coli, at two different levels, the codon...
<div><p>The genetic code in mRNA is redundant, with 61 sense codons translated into 20 different ami...
Synonymous codons, i.e., DNA nucleotide triplets coding for the same amino acid, are used differentl...
Escherichia coli has long been regarded as a model organism in the study of codon usage bias (CUB). ...
This thesis contains some works about the codon bias and its role in bacteria and phages, particular...
Frequencies of synonymous codons are typically non-uniform, despite the fact that such codons corres...
Initially, this thesis investigates patterns of intragenomic codon usage within the genome of the De...
<p>2166 characterized genes from the <i>E. coli</i> ORFeome (dark line) are enriched in common codon...
The geography of codon bias distributions over prokaryotic genomes and its impact upon chromosomal o...
<p>For each codon, three <i>E. coli</i> absolute codon frequencies are tabulated using codon usage d...
Gene codon optimization may be impaired by the misinterpretation of frequency and optimality of codo...
<div><p>Codon-tRNA coevolution to maximize protein production has been, until recently, the dominant...
Synonymous codons, i.e., DNA nucleotide triplets coding for the same amino acid, are used differentl...
The genetic code in mRNA is redundant, with 61 sense codons translated into 20 different amino acids...
<p>Shown are the absolute frequencies of naORF lengths for the genome of <i>E. coli</i> MC4100 (NC_0...
In this study we have focused on the codon usage bias in E. coli, at two different levels, the codon...
<div><p>The genetic code in mRNA is redundant, with 61 sense codons translated into 20 different ami...
Synonymous codons, i.e., DNA nucleotide triplets coding for the same amino acid, are used differentl...
Escherichia coli has long been regarded as a model organism in the study of codon usage bias (CUB). ...
This thesis contains some works about the codon bias and its role in bacteria and phages, particular...
Frequencies of synonymous codons are typically non-uniform, despite the fact that such codons corres...
Initially, this thesis investigates patterns of intragenomic codon usage within the genome of the De...