藻类△6脂肪酸脱饱和酶基因密码子偏好性分析

doi:10.11978/j.issn.1009-5470.2010.03.126

Journal of Tropical Oceanography ›› 2010, Vol. 29 ›› Issue (3): 126-134.doi: 10.11978/j.issn.1009-5470.2010.03.126cstr: 32234.14.j.issn.1009-5470.2010.03.126

• Marine biology • Previous Articles Next Articles

Analysis on codon usage bias of fatty acid delta-6 desaturase genes from different algae

ZHAO Wei, CHEN Bi-lian, WANG Ming-zi, HUANG Jian-zhong

Engineering Research Center of Industrial Microbiology, Ministry of Education, College of Life Sciences, Fujian Normal University, Fuzhou 350108, China

Received:2009-07-31 Revised:2009-11-08 Online:2010-07-01 Published:2010-05-24
Contact: 陈必链 E-mail:chenbil@fjnu.edu.cn
About author:赵薇(1984—), 女, 福建省福州市人, 硕士, 主要从事微生物生物技术的研究, 现工作单位: 福建省微生物研究所
Supported by:
福建省教育厅项目(JA09061); 福建省科技厅重点项目(2007I0039, 2008I0047); 教育部留学回国人员科研启动基金资助项目

Abstract

Abstract:

Delta-6 desaturases are the key enzymes required for the synthesis of unsaturated fatty acids, which introduce double bond at the position of 18C in algae. In this study, the authors investigate codon usage bias and base composition variations in nine available complete desaturase gene sequences from Bacillariophyta, Chlorophyta and Cyanophyta. The results showed that △6 desaturase genes of T. pseudonana and P. tricornutum (Bacillariophyta) as well as Ostreococcus tauri (Chlorophyta) prefer to use the codons ended with G or C, with GC content as high as 61.61%; while △6 desaturase genes of three algae of Cyanophyta prefer to use the codons ended with A or U, with GC content 39.1%. Codon usage bias in alga △6 desaturase gene was very small, which was mainly determined by base compositions on the third codon position and the value of effective number of codons (ENC). It was implied that △6 desaturase genes were phylogenetically conservative. The results of comparing algae △6 desaturase genes to genomic codon usage of E.coli, yeast and Arabidopsis thaliana preference revealed that codon usage pattern among them was significantly different. In order to significantly increase the efficiency of algae △6 desaturase gene expression, partial codon in gene’s open reading frame needs to be reconstituted. The findings presented in this study offer guidance for expressing algae △6 desaturase gene in prokaryotic and eukaryotic expression systems.

Key words: alga, delta-6 desaturase gene, codon bias, cluster analysis

ZHAO Wei,CHEN Bi-lian,WANG Ming-zi,HUANG Jian-zhong. Analysis on codon usage bias of fatty acid delta-6 desaturase genes from different algae[J].Journal of Tropical Oceanography, 2010, 29(3): 126-134.

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Analysis on codon usage bias of fatty acid delta-6 desaturase genes from different algae

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