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Molecular analysis of the complete genomic sequences of four isolates of Gooseberry vein banding associated virus

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Abstract

The presence of Gooseberry vein banding associated virus (GVBaV), a badnavirus in the family Caulimoviridae, is strongly correlated with gooseberry vein banding disease in Ribes spp. In this study, full-length genomic sequences of four GVBaV isolates from different hosts and geographic regions were determined to be 7649–7663 nucleotides. These isolates share identities of 96.4–97.3% for the complete genomic sequence, indicating low genetic diversity among them. The GVBaV genome contains three open reading frames (ORFs) on the plus strand that potentially encode proteins of 26, 16, and 216 kDa. The size and organization of GVBaV ORFs 1–3 are similar to those of most other badnaviruses. The putative amino acid sequence of GVBaV ORF 3 contained motifs that are conserved among badnavirus proteins including aspartic protease, reverse transcriptase, and ribonuclease H. The highly conserved putative plant tRNAmet-binding site is also present in the 935-bp intergenic region of GVBaV. The identities of the genomic sequences of GVBaV and other badnaviruses range from 49.1% (Sugarcane bacilliform Mor virus) to 51.7% (Pelargonium vein banding virus, PVBV). Phylogenetic analysis using the amino acid sequence of the ORF 3 putative protein shows that GVBaV groups most closely to Dioscorea bacilliform virus, PVBV, and Taro bacilliform virus. These results confirm that GVBaV is a pararetrovirus of the genus Badnavirus in the family Caulimoviridae.

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Acknowledgments

We thank Gregory Anderson, Whitney Hymes, and Sam Grinstead for technical assistance and Drs. Joseph Postman, John Hartung, and Bob Martin for critical review of the manuscript.

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  1. USDA-ARS, National Germplasm Resources Laboratory, Beltsville, MD, 20705, USA

    Donglin Xu, Ray Mock, Gary Kinard & Ruhui Li

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  1. Donglin Xu
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  2. Ray Mock
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  4. Ruhui Li
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Correspondence to Ruhui Li.

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Xu, D., Mock, R., Kinard, G. et al. Molecular analysis of the complete genomic sequences of four isolates of Gooseberry vein banding associated virus . Virus Genes 43, 130–137 (2011). https://doi.org/10.1007/s11262-011-0614-8

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  • DOI: https://doi.org/10.1007/s11262-011-0614-8

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