Identification of three new isolates of Tomato spotted wilt virus from different hosts in China: molecular diversity, phylogenetic and recombination analyses.
Identification of three new isolates of Tomato spotted wilt virus from different hosts in China: molecular diversity, phylogenetic and recombination analyses.
复制标题
中国不同宿主番茄斑萎病毒三个新分离株的鉴定：分子多样性、系统发育和重组分析。
DOI：
10.1186/s12985-015-0457-3
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发表时间：
2016-01-14
期刊：
影响因子：
4.8
通讯作者：
Yuan X
中科院分区：
文献类型：
--
作者：
Zhang Z;Wang D;Yu C;Wang Z;Dong J;Shi K;Yuan X
番茄斑萎病毒（Tomato spotted wilt virus，TSWV）引起的病害已在世界范围内广泛发生。近年来，TSWV在我国被报道感染不同的宿主。本研究为进一步克隆TSWV不同寄主分离株，研究TSWV在中国及世界各地的多样性和进化规律提供了重要的理论依据。利用RT-PCR技术克隆了侵染不同寄主（烟草、红辣椒和绿色辣椒）的3个TSWV新分离物的全长基因组（L、M和S片段）。用DNAMAN分析了TSWV各分离株的核苷酸和氨基酸序列的同源性。使用MEGA 5.0构建系统发育树。RDP 4用于检测这些分离株进化过程中的重组事件。测定了我国3个TSWV新分离株的全基因组序列。与其他可用的分离物，29 RNA L，62 RNA M和66 RNA S的TSWV分离物的分子多样性，系统发育和重组事件进行了分析。该分析揭示了整个TSWV基因组，特别是M和S RNA，在基因组大小上具有主要变化，主要涉及富含A-U的基因间区（IGR）。TSWV分离株的系统发育分析表明，TSWV的三重负义RNA基因组在进化过程中经常发生重复。TSWV在世界范围内的分离物中发现了大量的重组事件，并具有明显的5′区域偏好性。此外，具有相似重组事件的TSWV分离物通常在系统发育树中具有更近的关系。根据分子多样性和系统发育分析，包括本研究的3个TSWV分离株和已报道的2个TSWV分离株在内的5个中国TSWV分离株可分为两个不同来源的类群。在它们的进化过程中，重配和重组都发挥了作用。这些结果表明，重组可能是一个重要的机制，在进化的多分RNA病毒，甚至负义RNA病毒。本文的在线版本（doi：10.1186/s12985-015-0457-3）包含补充材料，可供授权用户使用。
Destructive diseases caused by Tomato spotted wilt virus (TSWV) have been reported associated with many important plants worldwide. Recently, TSWV was reported to infect different hosts in China. It is of value to clone TSWV isolates from different hosts and examine diversity and evolution among different TSWV isolates in China as well as worldwide. RT-PCR was used to clone the full-length genome (L, M and S segments) of three new isolates of TSWV that infected different hosts (tobacco, red pepper and green pepper) in China. Identity of nucleotide and amino acid sequences among TSWV isolates were analyzed by DNAMAN. MEGA 5.0 was used to construct phylogenetic trees. RDP4 was used to detect recombination events during evolution of these isolates. Whole-genome sequences of three new TSWV isolates in China were determined. Together with other available isolates, 29 RNA L, 62 RNA M and 66 RNA S of TSWV isolates were analyzed for molecular diversity, phylogenetic and recombination events. This analysis revealed that the entire TSWV genome, especially the M and S RNAs, had major variations in genomic size that mainly involve the A-U rich intergenic region (IGR). Phylogenetic analyses on TSWV isolates worldwide revealed evidence for frequent reassortments in the evolution of tripartite negative-sense RNA genome. Significant numbers of recombination events with apparent 5′ regional preference were detected among TSWV isolates worldwide. Moreover, TSWV isolates with similar recombination events usually had closer relationships in phylogenetic trees. All five Chinese TSWV isolates including three TSWV isolates of this study and previously reported two isolates can be divided into two groups with different origins based on molecular diversity and phylogenetic analysis. During their evolution, both reassortment and recombination played roles. These results suggest that recombination could be an important mechanism in the evolution of multipartite RNA viruses, even negative-sense RNA viruses. The online version of this article (doi:10.1186/s12985-015-0457-3) contains supplementary material, which is available to authorized users.