Use of sequence motifs as barcodes and secondary structures of internal transcribed spacer 2 (ITS2, rDNA) for identification of the Indian liver fluke, Fasciola (Trematoda: Fasciolidae).
Use of sequence motifs as barcodes and secondary structures of internal transcribed spacer 2 (ITS2, rDNA) for identification of the Indian liver fluke, Fasciola (Trematoda: Fasciolidae).
复制标题
DOI：
10.6026/97320630003314
复制
发表时间：
2009
期刊：
影响因子：
1.9
通讯作者：
Chatterjee A
中科院分区：
文献类型：
--
作者：
Prasad PK;Tandon V;Biswal DK;Goswami LM;Chatterjee A
大多数使用现有方法的系统发育研究都集中在初级DNA序列信息上。然而，RNA 二级结构在系统学中特别有用，因为它们包含了 在一级序列中没有发现的“形态学”信息。另外，来自于DNA序列基序的 核rRNA重复序列的内转录间隔区（ITS）可用于吸虫的鉴定。肝脏的种类 片形吸虫属（扁形动物门：复殖门：片形吸虫科）的吸虫是专性寄生吸虫， 在食草哺乳动物的大胆管中。虽然肝片吸虫具有世界性分布， 其他主要物种，即，F.据报道，热带和亚热带地区普遍存在疟疾， 非洲和亚洲。为了确定片形吸虫属的阿萨姆邦（印度）起源的基础上rDNA分子数据，核糖体 对ITS2区域进行测序（EF027103）并进行分析。利用NCBI数据库进行同源性分析和系统发育分析。 使用MEGA和组合数据的贝叶斯分析基于ITS2构建树。后一种方法允许 我们包括一级序列和RNA分子形态测定，并揭示了与分离株的密切关系， F.从中国、印度尼西亚和日本分离的分离物中，具有显著自举值的中国分离物为 最近的ITS2序列基序允许在计算机上准确区分肝吸虫。数据表明，ITS2基序 （≤ 50 bp的大小）可以被认为是有前途的工具，吸虫物种鉴定。使用新的方法， 基于ITS2二级结构同源性的分子形态学，各种分离物的系统发育关系 片形吸虫的种类进行了讨论。
Most phylogenetic studies using current methods have focused on primary DNA sequence information. However, RNA secondary structures are particularly useful in systematics because they include characteristics that give “morphological” information which is not found in the primary sequence. Also DNA sequence motifs from the internal transcribed spacer (ITS) of the nuclear rRNA repeat are useful for identification of trematodes. The species of liver flukes of the genus Fasciola (Platyhelminthes: Digenea: Fasciolidae) are obligate parasitic trematodes residing in the large biliary ducts of herbivorous mammals. While Fasciola hepatica has a cosmopolitan distribution, the other major species, i.e., F. gigantica is reportedly prevalent in the tropical and subtropical regions of Africa and Asia. To determine the Fasciola sp. of Assam (India) origin based on rDNA molecular data, ribosomal ITS2 region was sequenced (EF027103) and analysed. NCBI databases were used for sequence homology analysis and the phylogenetic trees were constructed based upon the ITS2 using MEGA and a Bayesian analysis of the combined data. The latter approach allowed us to include both primary sequence and RNA molecular morphometrics and revealed a close relationship with isolates of F. gigantica from China, Indonesia and Japan, the isolate from China with significant bootstrap values being the closest. ITS2 sequence motifs allowed an accurate in silico distinction of liver flukes. The data indicate that ITS2 motifs (≤ 50 bp in size) can be considered promising tool for trematode species identification. Using the novel approach of molecular morphometrics that is based on ITS2 secondary structure homologies, phylogenetic relationships of the various isolates of fasciolid species have been discussed.