title: Analysis of genetic variation and diversity of Rice stripe virus populations through high-throughput sequencing.
abstract: Plant RNA viruses often generate diverse populations in their host plants through error-prone replication and recombination. Recent studies on the genetic diversity of plant RNA viruses in various host plants have provided valuable information about RNA virus evolution and emergence of new diseases caused by RNA viruses. We analyzed and compared the genetic diversity of Rice stripe virus (RSV) populations in Oryza sativa (a natural host of RSV) and compared it with that of the RSV populations generated in an infection of Nicotiana benthamiana, an experimental host of RSV, using the high-throughput sequencing technology. From infected O. sativa and N. benthamiana plants, a total of 341 and 1675 site substitutions were identified in the RSV genome, respectively, and the average substitution ratio in these sites was 1.47 and 7.05 %, respectively, indicating that the RSV populations from infected N. benthamiana plant are more diverse than those from infected O. sativa plant. Our result gives a direct evidence that virus might allow higher genetic diversity for host adaptation.
authors: State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou People's Republic of China.
authors: Lingzhe
authors: L
authors: Huang
authors: Institute of Crop Science and Institute of Bioinformatics, Zhejiang University, Hangzhou People's Republic of China.
authors: Zefeng
authors: Z
authors: Li
authors: State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou People's Republic of China.
authors: Jianxiang
authors: J
authors: Wu
authors: State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou People's Republic of China.
authors: Yi
authors: Y
authors: Xu
authors: State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou People's Republic of China.
authors: Xiuling
authors: X
authors: Yang
authors: Institute of Crop Science and Institute of Bioinformatics, Zhejiang University, Hangzhou People's Republic of China.
authors: Longjiang
authors: L
authors: Fan
authors: State Key Laboratory of Plant Genomics, Institute of Microbiology, Chinese Academy of Sciences, Beijing People's Republic of China.
authors: Rongxiang
authors: R
authors: Fang
authors: State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou People's Republic of China.
authors: Xueping
authors: X
authors: Zhou
keywords: Rice strip virus; deep sequencing; diversity; population