Complete Genome Sequence of the RNAs 3 and 4 Segments of Rice stripe virus Isolates in Korea and their Phylogenetic Relationships with Japan and China Isolates
Complete Genome Sequence of the RNAs 3 and 4 Segments of Rice stripe virus Isolates in Korea and their Phylogenetic Relationships with Japan and China Isolates
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DOI：
10.5423/ppj.2009.25.2.142
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发表时间：
2009-06-01
影响因子：
2.3
通讯作者：
Kim, Kook-Hyung
中科院分区：
文献类型：
--
作者：
Jonson, Miranda Gilda;Choi, Hong-Soo;Kim, Kook-Hyung
本研究测定了13个不同水稻条纹病毒（RSV）分离物的RNA 3和RNA 4的全基因组序列，并对其进行了表征，以解决最近影响韩国许多稻田的RSV重新出现的可能原因。每个RNA片段的基因组大小在分离物之间变化，并且在基因间区域观察到显著差异。13个韩国分离物中RNA 4核苷酸序列平均差异高达4%，RNA 3仅为1.4%。不同韩国分离株之间的系统发育关系显示，韩国存在至少2种类型的RNA 3和4种不同类型的RNA 4基因组。然而，具有一种类型的RNA 3的韩国分离株占优势，而具有4种类型的RNA 4基因组的RSV韩国分离株的发生与特定的地理区域无关。结果进一步表明，RNA 4比RNA 3分化更大，并且个体RNA片段中突变积累的这些差异表明遗传重配可能有助于13个韩国分离物的遗传分化。除1株韩国分离株（JY和Z）与中国分离株分组外，所有韩国分离株的RNA 3序列均与中国分离株分组。相反，RNA 4序列与中国（JY和Z）和日本（M和T）分离，但韩国分离物-RNA 3和4片段与中国-Y分离物的遗传关系较低。总之，这些结果表明，在RSV的自然群体中RNA 3和4基因型的混合物的出现可能促成了韩国的突然爆发。
The complete genome sequences of RNA3 and RNA4 of the 13 different Rice stripe virus (RSV) isolates were determined and characterized in this study to address the possible causes of the recent re-emergence of RSV that affected many rice fields in Korea. The genome size of each RNA segment varied among isolates and significant differences were observed in the intergenic region. There was up to 4% average divergence in the RNA4 nucleotide sequence among 13 Korean isolates and only 1.4% in the RNA3. Phylogenetic relationships among different Korean isolates revealed that there were at least 2 types of RNA3 and 4 distinct types of RNA4 genomes present in Korea. However, Korean isolates with one type of RNA3 predominate over the other while the occurrences of the RSV Korean isolates with the 4 types of RNA4 genome were not correlated to specific geographical areas. Results further indicate that RNA4 had diverged more than RNA3 and these differences in accumulation of mutations in the individual RNA segments indicate that genetic reassortment were likely to contribute to the genetic divergence in the 13 Korean isolates. All of the Korean-RNA3 sequences except for one isolate grouped with Chinese isolates (JY and Z). In contrast, the RNA 4 sequences segregated together with either Chinese (JY and Z) and Japanese (M and T) isolates but genetic relationships of Korean isolates- RNAs 3 and 4 segments to Chinese-Y isolate were low. Altogether, these results suggest that the occurrence of mixtures of RNAs 3 and 4 genotypes in the natural population of RSV may have contributed to the sudden outbreak in Korea.