Horizontal gene transfer in glycosyl hydrolases inferred from codon usage in Escherichia coli and Bacillus subtilis
Horizontal gene transfer in glycosyl hydrolases inferred from codon usage in Escherichia coli and Bacillus subtilis
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DOI：
10.1093/oxfordjournals.molbev.a026203
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发表时间：
1999-09-01
影响因子：
10.7
通讯作者：
Romeu, A
中科院分区：
文献类型：
--
作者：
Garcia-Vallvé, S;Palau, J;Romeu, A
利用大肠杆菌和枯草芽孢杆菌的糖基水解酶（GH）基因寻找水平基因转移的情况。这样的事件推断的G+C含量，密码子使用分析，和系统发育一致性测试。使用的密码子使用分析是基于从成对密码子使用比较确定的Pearson线性相关系数导出的距离的程序。然后使用距离来生成基于距离的树，我们可以使用该树来定义聚类并快速比较密码子使用。三个基因（yagH来自E.大肠杆菌和来自B的xynA和xynB。subtilis）被确定是通过水平基因转移到达的，并位于E. coli CP 4 -6原噬菌体和B.枯草杆菌原噬菌体6和5。在这项研究中，我们证明，与密码子使用分析，建议的水平转移基因可以区分高表达基因。
Glycosyl hydrolase (GH) genes from Escherichia coli and Bacillus subtilis were used to search for cases of horizontal gene transfer. Such an event was inferred by G+C content, codon usage analysis, and a phylogenetic congruency test. The codon usage analysis used is a procedure based on a distance derived from a Pearson linear correlation coefficient determined from a pairwise codon usage comparison. The distances are then used to generate a distance-based tree with which we can define clusters and rapidly compare codon usage. Three genes (yagH from E. coli and xynA and xynB from B. subtilis) were determined to have arrived by horizontal gene transfer and were located in E. coli CP4-6 prophage, and B. subtilis prophages 6 and 5, respectively. In this study, we demonstrate that with codon usage analysis, the proposed horizontally transferred genes can be distinguished from highly expressed genes.