Analysis of Synonymous Codon Bias in Grass Carp (Ctenopharyngodon idella) Via combined Multipara Meters using Double Soft Wares
The data of codon bias facilitate to construct expression vector for improving the efficiency of the expression of foreign genes in host.In order to understand the grass carp codon usage,and further to efficiently express the target protein in the grass carp to prevent the grass carp disease,the Coding DNA Sequences (CDS) of 208 proteins in the genome of grass carp (Ctenopharyngodon idella) were analyzed using the software of Codon W and CAIcal.The synonymous codon bias in Ctenopharyngodon idella was analyzed by calculating the content of G/C at three positions of codons,the Codon Adaptation Index(CAI),the Effective Number of Codon(ENC),the Absolute Frequency of Synonymous Codon Usage(AFSCU),the Relative Synonymous Codon Usage (RSCU),the Codon Bias Indices (CBIs) and the Frequency of Optimal Codons(FOP),respectively.The optimal codons were also determined.The results showed that the content of G or C at the position of second codons was significantly lower than that at the first and third positions,and genes prefer to the codons with C or G at the third position.In addition,23 codons were determined as the optimal codons.Apart from the stop codon,which was terminated in A,there were 18 codons terminated in G or C,four codons terminated in U.The results provide evidences for many fields,such as analyzing the composition of grass carp gene structure,understanding the grass carp molecular evolution condition,guiding the molecular modification of exogenous gene to increase the expression efficiency in grass carp,and so on.
NETL
NSTL
万方数据
维普
