Genetic variability and evolution of rice stripe virus

Rice stripe virus （RSV） is the type member of the genus Tenuivirus. RSV is known to have four segmented, single-stranded RNA molecules and causes rice stripe disease in the rice fields of China, Japan, and Korea. Based on the complete genomic sequences of the determined 6 IRSV isolates （from Yunnan,...

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Published inJournal of Zhejiang University. B. Science Vol. 14; no. 10; pp. 875 - 885
Main Authors Huang, Ling-zhe, Rao, Li-xia, Zhou, Xue-ping, Wu, Jian-xiang
Format Journal Article
LanguageEnglish
Published Berlin/Heidelberg Springer Berlin Heidelberg 01.10.2013
Springer Nature B.V
Zhejiang University Press
Subjects
Algorithms
Biomedical and Life Sciences
Biomedicine
Biotechnology
China
Cloning, Molecular
Gene Flow
Genetic Variation
Genomics
Genotype
Japan
Open Reading Frames
Oryza - virology
Oryza sativa
Phylogeny
Recombination, Genetic
Republic of Korea
Rice stripe virus
RNA, Viral - analysis
Tenuivirus
Tenuivirus - genetics
China
Japan
Republic of Korea
Rice stripe virus
Genetic evolution
Genetic variability
Q933
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Summary:Rice stripe virus （RSV） is the type member of the genus Tenuivirus. RSV is known to have four segmented, single-stranded RNA molecules and causes rice stripe disease in the rice fields of China, Japan, and Korea. Based on the complete genomic sequences of the determined 6 IRSV isolates （from Yunnan, Jiangsu, Zhejiang, and Liaoning Provinces, China） and 27 other RSV isolates （from Yunnan, Jiangsu, Anhui, Henan, and Shandong Provinces of China also Japan and Korea） downloaded from GenBank, we provided a genotyping profile of RSV field isolates and de- scribed the population structure of RSV. All RSV isolates, except isolate CX, could be divided into two subtypes, one including 6 isolates from Yunnan Province, and the other including 26 isolates from different parts of China, Japan, and Korea, which were referred to as subtype II and subtype I, respectively. The amino acid distances between subtypes range from 0.053 to 0.085. RSV isolates in Yunnan Province were genetically differentiated from other parts of China, Japan, and Korea and showed infrequent gene flow. The RSV populations collected from other parts of China, Japan, and Korea were only composed of subtype I and showed very low genetic diversity. We speculated that isolate CX may be the result of recombination of isolates from two subtypes. Two potential recombination events were detected in RNA4 of isolate CX.
Bibliography:Rice stripe virus （RSV） is the type member of the genus Tenuivirus. RSV is known to have four segmented, single-stranded RNA molecules and causes rice stripe disease in the rice fields of China, Japan, and Korea. Based on the complete genomic sequences of the determined 6 IRSV isolates （from Yunnan, Jiangsu, Zhejiang, and Liaoning Provinces, China） and 27 other RSV isolates （from Yunnan, Jiangsu, Anhui, Henan, and Shandong Provinces of China also Japan and Korea） downloaded from GenBank, we provided a genotyping profile of RSV field isolates and de- scribed the population structure of RSV. All RSV isolates, except isolate CX, could be divided into two subtypes, one including 6 isolates from Yunnan Province, and the other including 26 isolates from different parts of China, Japan, and Korea, which were referred to as subtype II and subtype I, respectively. The amino acid distances between subtypes range from 0.053 to 0.085. RSV isolates in Yunnan Province were genetically differentiated from other parts of China, Japan, and Korea and showed infrequent gene flow. The RSV populations collected from other parts of China, Japan, and Korea were only composed of subtype I and showed very low genetic diversity. We speculated that isolate CX may be the result of recombination of isolates from two subtypes. Two potential recombination events were detected in RNA4 of isolate CX.
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Corresponding Author
ISSN:1673-1581
1862-1783
DOI:10.1631/jzus.B1300014