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Analysis of the RdRp, intergenic and structural polyprotein regions, and the complete genome sequence of Kashmir bee virus from infected honeybees (Apis mellifera) in Korea

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Abstract

Kashmir bee virus (KBV) is one of the most common viral infections in honeybees. In this study, a phylogenetic analysis was performed using nine partial nucleotide sequences of RdRp and the structural polyprotein regions of South Korean KBV genotypes, as well as nine previously reported KBV genotypes from various countries and two closely related genotypes of Israeli acute paralysis virus (IAPV) and Acute bee paralysis virus (ABPV). The Korean KBV genotypes were highly conserved with 94–99 % shared identity, but they also shared 88–95 % identity with genotypes from various countries, and they formed a separate KBV cluster in the phylogenetic tree. The complete genome sequence of Korean KBV was also determined and aligned with previously reported complete reference genome sequences of KBV, IAPV, and ABPV to compare different genomic regions. The complete Korean KBV genome shared 93, 79, and 71 % similarity with the complete reference genomes of KBV, IAPV, and ABPV, respectively. The Korean KBV was highly conserved relative to the reference KBV genomes in the intergenic and 3′ untranslated region (UTR), but it had a highly variable 5′ UTR, whereas there was little divergence in the helicase and 3C-protease of the nonstructural protein, and the external domains of the structural polyprotein region. Thus, genetic recombination and geographical distance may explain the genomic variations between the Korean and reference KBV genotypes.

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Acknowledgments

This study was supported by the Animal and Plant Quarantine Agency, Korean Ministry of Agriculture, Food and Rural Affairs, Republic of Korea.

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Authors and Affiliations

  1. Center for Honeybee Disease Control, Animal and Plant Quarantine Agency, 480 Anyang 6 dong, Anyang, 420-480, South Korea

    Kondreddy Eswar Reddy, Mi-Sun Yoo, Young-Ha Kim, Nam-Hee Kim, Ha-Na Jung, Le Thi Bich Thao, Mummadireddy Ramya, Suk-Chan Jung & Seung-Won Kang

  2. Plant Molecular Biology Lab, Dept. of Botany, S. K. University, Anantapur, Andhrapradesh, India

    Kondreddy Eswar Reddy & Mummadireddy Ramya

  3. Institute of Biotechnology, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet, Cau Giay, Hanoi, Vietnam

    Le Thi Bich Thao, Huong Thi Thanh Doan & Lien Thi Kim Nguyen

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  1. Kondreddy Eswar Reddy
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Correspondence to Kondreddy Eswar Reddy or Seung-Won Kang.

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Kondreddy Eswar Reddy and Mi-Sun Yoo have contributed equally.

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Reddy, K.E., Yoo, MS., Kim, YH. et al. Analysis of the RdRp, intergenic and structural polyprotein regions, and the complete genome sequence of Kashmir bee virus from infected honeybees (Apis mellifera) in Korea. Virus Genes 49, 137–144 (2014). https://doi.org/10.1007/s11262-014-1074-8

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