噬菌体vB_EcoM-Bp7裂解酶基因的密码子使用偏性分析

通过生物信息学软件对噬菌体vB_EcoM-Bp7裂解酶基因的密码子用法及偏性分析。利用Mobyle中的CodonW 1.4.4及cusp程序计算密码子偏性的各种指标,并对7个噬菌体裂解酶基因序列中的总GC含量、密码子第1、2位GC含量平均值和第3位的GC含量进行分析,利用MegAlign软件对7株噬菌体裂解酶进行氨基酸序列分析,构建系统发育树。结果表明,除噬菌体phi68外,Bp7裂解酶基因与其他5株噬菌体的裂解酶基因密码子使用模式基本一致。偏爱使用以A或U为结尾的密码子;除了AUG(Met)和UGG(Trp)外,还确定了Bp7裂解酶使用的12种高频密码子;偏性比较发现,Bp7裂解酶基因密码子偏性与IME08最相近,与JS98次之;进化分析及聚类分析均表明Bp7裂解酶基因与IME08亲缘关系最近。分析结果将为进一步研究噬菌体Bp7的进化奠定基础。

Analysis of Codon Bias on Lysozyme Gene of Phage vB_EcoM-Bp7

Bioinformatics softwares were used to analyze the codon bias of phage vB_EcoM-Bp7.Using Mobyle cusp of CodonW 1.4.4 and the program calculated the codon bias indicators, and calculated codon usage patterns of lysozyme gene of 7 phages in total GC content, the codon in the first and second position GC content and the codon in the third position GC content.Using MegAlign software analysis the amino acid sequence of 7 phage lyase, phylogenetic tree.The results manifested that codon usage patterns of lysozyme gene of Bp7 were basically consistent with those of other five phage lysozyme genes except phi68.Bp7 lysozyme preferred to use the A or U ending codon.Twelve kinds of high-frequency codons were identified besides in addition to AUG (Met) and UGG (Trp).Bias comparison of lysozyme codon among related phages showed that Bp7 was most similar with IME08, JS98 came second.Both phylogenetic relationship and cluster analysis demonstrated that Bp7 lysozyme was the closest with IME08 lysozyme.The results would provide further guidance for the evolution research of phage Bp7.