Whole genome deep sequencing revealed host impact on population structure, variation and evolution of Rice stripe virus

文献类型： 外文期刊

第一作者： Lu, Lina

作者： Lu, Lina;Zhou, Xueping;Wu, Jianxiang;Wu, Sanling;Jiang, Jun;Liang, Jingting;Zhou, Xueping

作者机构：

关键词： Rice stripe virus;High-throughput deep sequencing;Population structure;Genetic variation;O. sativa;N. benthamiana

期刊名称：VIROLOGY （ 影响因子：3.616； 五年影响因子：3.967 ）

ISSN： 0042-6822

年卷期： 2018 年 524 卷

页码：

收录情况： SCI

摘要： High-throughput deep sequencing and variant detection showed that variations of Rice stripe virus (RSV) populations obtained from small brown planthopper-transmitted rice plants and sap-inoculated N. benthamiana plants were single nucleotide polymorphisms (SNPs) and insertion-deletions (InDels). The SNPs were more uniform across RSV genome, but InDels occurred mainly in the intergenic regions (IRs) and in the 5' or 3' noncoding regions. There were no clear patterns of InDels, although the inserted sequences were all from virus itself. Six, one, and one non-synonymous substitutions were respectively observed in the RdRP ORF, IR and the movement protein ORF. These non-synonymous substitutions were found to be stable, resulting in new consensus sequences in the NBL11 RSV population. Furthermore, the numbers of SNPs and InDels in RSV genome from N. benthamiana plants were much higher than that from O. sativa plants. These differences are likely caused by selection pressures generated by different host plants.

分类号： Virology

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