《植物生理学报》 2012, 48(11): 1057-1062

植物KCO基因密码子使用特性

杨平¹, 周峰^1,2,*, 张边江¹, 华春¹

1南京晓庄学院生物化工与环境工程学院, 南京211171; 2山东省黄河三角洲生态环境重点实验室, 山东滨州256603

通信作者：周峰；E-mail: zfibcas@163.com；Tel: 025-86178262

摘　要：

以植物钾离子外排通道(K+ channel outward-rectifier, KCO)基因为研究对象, 运用CodonW软件分析了75个植物KCO 基因密码子的使用模式, 探讨密码子的使用模式和影响密码子使用的各种可能因素。结果表明: 碱基组成差异(r=0.961, P<0.01)和自然选择(r=0.568, P<0.01)是影响密码子使用的主要因素, 并且高表达的基因强烈偏爱使用以G或C结尾的密码 子。确定了UUC、CUC等26个均以G/C结尾的密码子为植物KCO基因的高表达优越密码子。

关键词：KCO基因; 密码子偏好性; 自然选择

收稿：2012-08-10   修定：2012-10-23

资助：江苏省自然科学基金青年基金项目(BK2012073)、国家高 技术研究发展“863”计划(2012AA021701)、江苏省生态学 重点学科建设项目(2012)和山东省黄河三角洲生态环境重 点实验室开放基金(2011KFJJ02)。

Characterization of Codon Usage of Plant KCO Genes

YANG Ping¹, ZHOU Feng^1,2,*, ZHANG Bian-Jiang¹, HUA Chun¹

¹School of Biochemical and Environmental Engineering, Nanjing Xiaozhuang University, Nanjing 211171, China; ²Shandong Provincial Key Laboratory of Eco-Environmental Science for Yellow River Delta, Binzhou, Shandong 256603, China

Corresponding author: ZHOU Feng; E-mail: zfibcas@163.com; Tel: 025-86178262

Abstract:

Codons of 75 K⁺ channel outward-rectifier (KCO) genes from plant were studied. CodonW software was used to calculate different parameters for the codon usage. The codon usage bias in plant KCO genes was analyzed to find the factors affecting the formation of codon bias. The result indicated that nucleotide composition (r=0.961, P<0.01) and natural selection (r=0.568, P<0.01) were the main factors on the codon usage of plant KCO genes. Moreover, the highly expressed genes had a stronger codon bias of the G or C at the third position of codons. We defined 26 codons end with G/C such as UUC and CUC as the optimal codons in plant KCO genes.

Key words: KCO genes; codon usage bias; natural selection