Analysis of Codon Usage Bias in Carassius auratus

doi:10.7668/hbnxb.2017.S1.006

Abstract

Abstract: The study of codon usage bias in species can be in-depth understanding of gene expressions,and provide the basis for molecular breeding.8 143 eligible coding DNA sequences were selecting from transcriptome data of Carassius auratus which were obtained through transcriptome sequencing by Illumina HiSeq 2000.CDS were analyzed by CodonW and CUSP programs in C.auratus genome,calculating frequency of codon usage which encoded amino acids and comparing with variety classes of mode organisms such as:Homo sapiens,yeast, E. coli, Drosophila, D.rerio. The consequences indicated that twenty-eight optimal codons of C.auratus were identified in 64 codons,effective number of codons was 54.9,GC content of genes was 0.509,GC content at the third position of synonymous codon was 0.564 the codons which were ending with G or C were bias using.And codon bias of C.auratus was difference in various degrees with other mode organisms,codon usage frequency of C.auratus was biggest different from yeast,but had a consistency with codon bias of D.rerio.

Key words: Carassius auratus, Codon, Codon usage bias, GC content

CLC Number:

Q78
Q959.4

ZHANG Xin, YOU Hongzheng, LI Rongni, ZHU Lifei, LI Wentong, LIANG Yongjun, SHI Dongjie, SUN Yansheng. Analysis of Codon Usage Bias in Carassius auratus[J]. ACTA AGRICULTURAE BOREALI-SINICA, 2017, 32(S1): 30-36. doi: 10.7668/hbnxb.2017.S1.006.

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