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Molecular variability of sugarcane streak mosaic virus in China based on an analysis of the P1 and CP protein coding regions

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Abstract

Sequences of the protein 1 (P1) and coat protein (CP) coding regions of 22 sugarcane streak mosaic virus (SCSMV) isolates were determined. Phylogenetic analysis showed that SCSMV had at least three major lineages, and the lineages seemed to reflect geographical origin. The sudden expansions of the Chinese and Indian subpopulations were supported by calculations showing deviations from the neutral equilibrium model for the individual lineages with an overall lack of nucleotide diversity. Our study shows that Chinese and Indian SCSMV isolates are part of a distinct population, and the subpopulations probably reflect founder effects.

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Acknowledgments

This work was supported by grants from the National Basic Research and Development Program of China (973 Program) (No. 2009CB119200), the State Scholarship Fund (No. 201203250024), the Earmarked Fund for China Agriculture Research System (CARS-20-2-2), the Earmarked Fund for Yunnan Province Agriculture Research System and the National Natural Science Foundation of China (No. 31171819 and No. 31000842). This work was in part funded by the Saga University and supported by JSPS KAKENHI Grant Number 24405026. TRANSALIGN was kindly supplied by Georg Weiller. We thank Yukio Nagano (Analytical Research Center for Experimental Sciences, Saga University, Japan) for careful technical assistance and Midori Yokoo (Saga University, Japan) for very kindly reading the manuscript.

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Authors and Affiliations

  1. State Key Laboratory of Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Yuanmingyuan West Road No. 2, Haidian District, Beijing, 100193, People’s Republic of China

    Zhen He, Zhixiang Zhang & Shifang Li

  2. Laboratory of Plant Virology, Department of Applied Biological Sciences, Faculty of Agriculture, Saga University, 1-banchi, Honjo-machi, Saga, 840-8502, Japan

    Zhen He, Ryosuke Yasaka & Kazusato Ohshima

  3. Yunnan Key Laboratory of Genetic Improvement of Sugarcane, Sugarcane Research Institute, Yunnan Academy of Agricultural Sciences, Lingquan East Road No. 363, Kaiyuan, 661600, Yunnan, People’s Republic of China

    Wenfeng Li & Yingkun Huang

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  1. Zhen He
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  2. Wenfeng Li
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  3. Ryosuke Yasaka
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  6. Kazusato Ohshima
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  7. Shifang Li
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Correspondence to Shifang Li.

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He, Z., Li, W., Yasaka, R. et al. Molecular variability of sugarcane streak mosaic virus in China based on an analysis of the P1 and CP protein coding regions. Arch Virol 159, 1149–1154 (2014). https://doi.org/10.1007/s00705-013-1854-9

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  • DOI: https://doi.org/10.1007/s00705-013-1854-9

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