螯虾次目功能基因密码子偏好性研究

浙江农业学报

螯虾次目功能基因密码子偏好性研究

浙江省淡水水产研究所，浙江湖州 313001

出版日期:2014-07-25 发布日期:2014-08-06

Analysis on codon bias of functional gene of Astacidea

Zhejiang Institute of Freshwater Fisheries， Huzhou 313001， China

Online:2014-07-25 Published:2014-08-06

摘要/Abstract

摘要： 以螯虾次目功能基因组中的208个蛋白质编码基因序列为数据来源，应用CodonW　14软件对螯虾次目功能基因中密码子组成、同义密码子使用频率、密码子3个位置的G+C含量、有效密码子数等进行分析。结果显示，螯虾次目密码子第三位的G+C含量明显高于第一/二位，表现出对以G或C碱基结尾的密码子的偏好性使用，并确定了9个螯虾次目最优密码子。上述研究结果为今后螯虾次目新基因的发现、功能基因表达调控研究、蛋白质结构和功能预测、以及与其他虾类的比较基因组学研究、螯虾分子标记育种等提供了理论基础。

关键词: 螯虾次目, 密码子偏好性, 最优密码子

Abstract: Coding DNA sequences (CDS) of 208 proteins in Astacidea were analyzed in the present study. The content of G+C at three positions of codons， ENC (effective number of codon) of genes and frequency of synonym codon usage were calculated by the software CodonW 14， and the “optimal codons” were also determined. The results showed that the content of G+C at the third position of codons was significantly higher than that of the first and second positions， and genes preferred to the codons with C or G at the synonymous position. In addition， 9 codons were determined as the “optimal codons”， which were ended with G or C. The data would offer references in the research on new gene search， gene expression， forecast of protein function and structure， and comparative genome with other shrimps.

Key words: Astacidea, codon bias, optimal codon

李喜莲，杨元杰，李倩，刘金殿，顾志敏*. 螯虾次目功能基因密码子偏好性研究[J]. 浙江农业学报.

LI Xilian， YANG Yuanjie， LI Qian， LIU Jindian，GU Zhimin* . Analysis on codon bias of functional gene of Astacidea[J]. .

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