J Gen Virol
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Published online ahead of print on 4 March 2009 as doi:10.1099/vir.0.006858-0
Journal of General Virology 2009;90:1025.

A more recent version of this article appeared on April 1, 2009 J Gen Virol (2009), DOI 10.1099/vir.0.006858-0
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Genetic Diversity and Population Structure of Rice Stripe Virus in China

Taiyun Wei1, Jinguang Yang1, Fulong Liao1, Fangluan Gao1, Lianming Lu1, Xiaoting Zhang1, Fan Li2, Zujian Wu1, Qiyin Lin1, Lianhui Xie1 and Hanxin Lin1,3

1 Fujian Agricultural and Forestry University;
2 Yunnan Agricultural University

3 E-mail: linhan{at}mcmaster.ca

Rice stripe virus (RSV) is one of the most economically important pathogens of rice and is repeatedly epidemic in China, Japan and Korea. The most recent outbreak of RSV in Eastern China in the year 2000 has caused significant loss and raised serious concerns. In this paper, we provide a genotyping profile of RSV field isolates and describe the population structure of RSV in China based on the nucleotide sequences of isolates collected from different geographic regions during 1997-2004. RSV isolates could be divided into two or three subtypes, depending on which gene was analyzed. The genetic distances between subtypes range from 0.050 to 0.067. The population from Eastern China is only composed of subtype I/IB isolates. On the contrary, the population from Yunnan province (Southwestern China) is mainly composed of subtype II isolates, but also contains a small proportion of subtype I/IB isolates and subtype IA isolates. However, subpopulations collected from different districts in Eastern China or Yunnan province are not genetically differentiated and show frequent gene flow. RSV genes were found to be under strong negative selection. Our data suggests that the most recent outbreak of RSV in Eastern China was not due to the invasion of new RSV subtype(s). The evolutionary processes contributing to the observed genetic diversity and population structure are discussed.

Received 26 August 2008; accepted 29 December 2008.




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