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Article summary , codon bias in E . Coli

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Codon Usages in Different Gene Classes of the Escherichia Coli Genome

Samuel Karlin , Jan Mrazek and Allan M . Campbell (1998 ) 29 (6 , 1341-1355 .The nature of the gene codon varies among organisms . Codon preferences have been considered on the perspectives of translational efficiency and fidelity and the selective and non selective biases operating during DNA transcription replication and repair processes . Variations in tRNA on codon bias of highly expressed genes during rapid growth phase of E

coli exist . Codon selectivity is influenced by codon /anticodon interaction strength , site specific codon biases , time of replication codon context , or evolutional age . Codon preferences among gene classes in E . coli are grouped according to the following comparisons correlation of codon biases with level of gene expression , organisation of genome according to genome partitions based on size , codons use for genes characterized by function and cellular localization of gene products , gene size , comparisons that divide all genes by similarity of codon usage or amino acid usage or similarity of a reduced set of amino acid or codons and characterization of alien genes

The Codon Adaptation Index (CIA ) is a qualitative measure for assessing codon bias . Ribosomal protein (RP ) genes and membrane genes are genes that are highly expressed during fast growth and CIA and codon bias (CB values are inversely correlated with respect to RP genes . Most ribosomal proteins are highly expressed during the E . coli exponential growth phase during which most...