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目的鉴定华支睾吸虫基因组中Rab家族基因并进行分类。方法使用MEGA5中的Muscle模块对秀丽线虫Rab进行多序列比对,以该比对结果作为查询,对华支睾吸虫蛋白数据库进行PSI-Blast搜索,使用Clustal W模块获得华支睾吸虫Rab蛋白家族序列,并根据比对结果定义Rab功能域(Rab F1~Rab F5)。使用MEGA5软件的邻接法建立华支睾吸虫Rab GTPases之间的系统进化树。再使用邻接法构建多物种Rab同源蛋白序列系统进化关系树。结果用PSI-Blast搜索华支睾吸虫基因组数据库,获得54个同源基因。这54个可能的Rab家族蛋白中有21个蛋白与参考序列的同源性超过50%。这些蛋白的编码基因由多个内含子和外显子组成,且序列长短不一,读码方向也不同。不同的Rab蛋白聚类形成多个Rab蛋白亚型,与Rab家族具有多种Rab蛋白种类相一致。结论华支睾吸虫Rab蛋白家族进化具有保守性,蛋白的分化与物种的分化相一致。
Objective To identify and classify Rab family genes in the genome of Clonorchis sinensis. Methods The Muscle module of MEGA5 was used to perform multiple sequence alignment on Rabbit nematode Rab and the results were used as a query to search for the PSI-Blast database of Clonorchis sinensis protein database. The Clustal W module was used to obtain the Rab protein family of Clonorchis sinensis Sequence, and define the Rab domain (Rab F1 ~ Rab F5) according to the alignment results. The phylogenetic tree between the Clostridium sinense Rab GTPases was established using the contig method of MEGA5 software. Then, the phylogenetic relationship tree of multi-species Rab homologous protein sequences was constructed by using the neighbor-joining method. Results The PSI-Blast was used to search the Clonorchis sinensis genome database and 54 homologous genes were obtained. Twenty-one of the 54 possible Rab family proteins share more than 50% homology with the reference sequence. The coding genes of these proteins are composed of multiple introns and exons, and the sequences vary in length and reading direction. Different Rab proteins cluster to form multiple Rab protein subtypes, which is consistent with the Rab family with multiple Rab protein species. Conclusion Clonorchis sinensis Rab protein family evolution is conservative, protein differentiation and species differentiation consistent.