Analysis of Nuclear Genome Codon Preference in Cabbage

ACTA HORTICULTURAE SINICA ›› 2013, Vol. 40 ›› Issue (10): 1927-1934.

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Analysis of Nuclear Genome Codon Preference in Cabbage

YI Deng-xia1,3，YANG Li-mei1,*，FANG Zhi-yuan1，LIU Yu-mei1，ZHUANG Mu1，ZHANG Yang-yong1，LIU Ji-sheng1，LIU Bo1，WU Jian1，GENG Li-li2，ZHANG Jie2，and ZHANG Zhen-xian3,*

（1Institute of Vegetables and Flowers，Chinese Academy of Agricultural Sciences，Beijing 100081，China；2Institute of Plant Protection，Chinese Academy of Agricultural Sciences，Beijing 100193，China；3College of Agriculture and Biotechnology，China Agricultural University，Beijing 100193，China）

Received:2013-05-03 Online:2013-10-25 Published:2013-10-25

Abstract

Abstract: Forty-eight thousand coding DNA sequences of cabbage were used to analyze the relative frequency of synonymous codon（RFSC）. Six high-frequency codons including TCT，CCT，AGA，GTT，GCT，and GAT were revealed by CodonW. When the frequency of codon usage of cabbage was compared to Escherichia coli，Arabidopsis thaliana，and Oryza sativa，we found that the codon preference was considerably different between cabbage and Escherichia coli，Oryza sativa，while the codon preference was identical between cabbage and Arabidopsis thaliana，Gossypium hirsutum. The codons of Bt cry1C gene sequence have been reconstructed according to the results. The foreigngene containing the optimal codons of cabbage is helpful to researches involving cabbage transformation.

Key words: cabbage, codon usage, high-frequency condon, condon preference

CLC Number:

S 635.1

YI Deng-xia1,3，YANG Li-mei1,*，FANG Zhi-yuan1，LIU Yu-mei1，ZHUANG Mu1，ZHANG Yang-yong1，LIU Ji-sheng1，LIU Bo1，WU Jian1，GENG Li-li2，ZHANG Jie2，and ZHANG Zhen-xian3,* . Analysis of Nuclear Genome Codon Preference in Cabbage[J]. ACTA HORTICULTURAE SINICA, 2013, 40(10): 1927-1934.

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Analysis of Nuclear Genome Codon Preference in Cabbage

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