Abstract
A codon usage table for 32 nematode species is presented and suggests that total genomic GC content drives codon usage.
Highlights
Codon usage has direct utility in molecular characterization of species and is a marker for molecular evolution
guanine and cytosine (GC) content explains much of the observed variation in the effective number of codons, a measure of codon bias, and even differences in amino acid (AA) frequency
To obtain a better understanding of codon usage and AA composition within the phylum Nematoda, we analyzed a total of 265,494 expressed sequence tags (ESTs) sequences originating from 30 nematode species
Summary
Codon usage has direct utility in molecular characterization of species and is a marker for molecular evolution. Such patterns can readily be characterized by codon usage, namely the observed percentage occurrence with which each codon is used to encode a given AA This measure has direct utility in molecular characterization of a species in that it enables efficient degenerate and nondegenerate primer design for cross-species gene cloning, open reading frame determination, and optimal protein expression [1]. Such tools are important with respect to species for which limited molecular information exists. Codon usage appears not to be optimized to minimize the impact of errors in translation and replication [15]
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