| 噬菌体vB-EcoP-Bp4尾部蛋白基因的密码子使用偏性分析 |
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| 引用本文： | 孙蓉蓉,孙虎芝,张灿,任慧英.噬菌体vB-EcoP-Bp4尾部蛋白基因的密码子使用偏性分析[J].动物医学进展,2016(7):21-29. |
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| 作者姓名： | 孙蓉蓉 孙虎芝 张灿 任慧英 |
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| 作者单位： | 青岛农业大学动物科技学院,山东青岛,266109 |
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| 基金项目： | 山东省自然科学基金项目(ZR2015CM020 |
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| 摘 要： | 为了解噬菌体vB-EcoP-Bp4(简称Bp4)尾部蛋白基因的密码子使用特性,利用生物信息学方法对N4类噬菌体Bp4的3个尾部蛋白基因gp10、gp11、gp13与其他5株同源性较高的噬菌体进行密码子偏性分析。结果表明,噬菌体Bp4尾部蛋白基因与其他5株噬菌体尾部蛋白基因密码子使用模式基本一致,偏爱以A或U的密码子结尾;除了AUG(M)和UGG(W)外,针对Bp4的3个尾部蛋白基因gp10、gp11、gp13分别确定了14种、17种及16种高频密码子。通过6株噬菌体尾部蛋白基因密码子偏性比较和聚类分析发现,Bp4可预测蛋白gp10与ECBP1最相近,尾丝蛋白gp11与EC1-UPM、PhAPEC5较相近,而尾刺蛋白gp13与ECBP1、EC1-UPM最相近。本研究发现噬菌体Bp4尾部蛋白基因密码子使用的偏性结果与同源性高低相一致,将为进一步研究噬菌体Bp4提供依据。
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| 关 键 词： | 噬菌体 尾部蛋白 密码子偏性 |
Analysis of Codon Bias on Tail Protein Genes of Phage vB-EcoP-Bp4 |
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| Abstract: | To understand the characteristics of codon usage in tail protein genes of phage vB-EcoP-Bp4 (i.e. Bp4).Genes gp10,gp1 1 and gp13 were analyzed for the codon usages among N4-like phage Bp4 and other five phages by bioinformatics softwares.The results showed that the patterns of codon usage in tail protein genes of phage Bp4 were substantially consistent with other 5 phages,A or U- ended codons were prefered. In the genes gp10,gp1 1 and gp13 of phage Bp4,14,17,and 1 6 kinds of high-frequency codons were identi-fied respectively except AUG(M)and UGG(W).The bias comparison and cluster analysis on tail protein genes among phage Bp4 and other 5 phages demonstrated that putative tail protein gene gp10 of Bp4 was most similar to ECBP1,tail fiber protein gene gp1 1 was most similar to EC1-UPM and PhAPEC5,while tail spike protein gp13 was most similar to ECBP1 and EC1-UPM.The codon usages of tail proteins were substantially consistent with the levels of homology,and the results will provide further guidance for the study of phage Bp4. |
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| Keywords: | phage tail protein codon bias |
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