Codon Usage Bias and Determining Forces in Taenia solium Genome

文献类型： 外文期刊

第一作者： Yang, Xing

作者： Yang, Xing;Luo, Xuenong;Ling, Houjun;Zhang, Xichen;Cai, Xuepeng;Yang, Xing;Ma, Xusheng;Cai, Xuepeng

作者机构：

关键词： Taenia solium;codon usage bias;translation selection;mutation bias;intron number

期刊名称：KOREAN JOURNAL OF PARASITOLOGY （ 影响因子：1.341； 五年影响因子：1.669 ）

ISSN： 0023-4001

年卷期： 2015 年 53 卷 6 期

页码：

收录情况： SCI

摘要： The tapeworm Taenia solium is an important human zoonotic parasite that causes great economic loss and also endangers public health. At present, an effective vaccine that will prevent infection and chemotherapy without any side effect remains to be developed. In this study, codon usage patterns in the T. solium genome were examined through 8,484 protein-coding genes. Neutrality analysis showed that T. solium had a narrow GC distribution, and a significant correlation was observed between GC12 and GC3. Examination of an NC (ENC vs GC3s)-plot showed a few genes on or close to the expected curve, but the majority of points with low-ENC (the effective number of codons) values were detected below the expected curve, suggesting that mutational bias plays a major role in shaping codon usage. The Parity Rule 2 plot (PR2) analysis showed that GC and AT were not used proportionally. We also identified 26 optimal codons in the T. solium genome, all of which ended with either a G or C residue. These optimal codons in the T. solium genome are likely consistent with tRNAs that are highly expressed in the cell, suggesting that mutational and translational selection forces are probably driving factors of codon usage bias in the T. solium genome.

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