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Updated: May 27, 2025

Combining Analysis of DNA in a Crude Virion Extraction with the Analysis of RNA from Infected Leaves to Discover New Virus Genomes
Published on: July 27, 2018
Complete genome sequence of a new virga-like virus identified in Viburnum opulus in China
Caixia Yang1, Xue Bai2, Lei Yang2
1Liaoning Key Laboratory of Urban Integrated Pest Management and Ecological Security, College of Life Science and Engineering, Shenyang University, 110044, Dadong, Shenyang, Liaoning, China. xueyang27@126.com.
Abstract:
A virga-like virus, provisionally named "Viburnum opulus virus 1" (VoV1), was identified by RNA-seq in a Viburnum opulus plant. The monopartite genome of VoV1 is 12,538 nucleotides (nt) in length, excluding the poly(A) tail, and contains seven open reading frames (ORF1-7). The genome organization most closely resembles those of two unclassified plant-infecting virga-like viruses (rubber tree latent virus 1 and 2), which also have seven ORFs but show sequence similarity to VoV1 in only three ORFs. ORF1 is the largest ORF and is predicted to encode a large protein containing six conserved structural domains, including one for the viral replicase. Putative proteins of ORF3 and ORF4 both contain CP-like motifs, while putative proteins encoded by the other ORFs were not identified. Sequence comparisons showed that VoV1 shared the highest nucleotide and amino acid (aa) sequence similarity in ORF1 with rose latent virus 1 (45.0/28.7 identity). Phylogenetic analysis based on the amino acid sequence of the protein encoded by ORF1 showed that VoV1 grouped with some other virga-like viruses in a distinct clade. Analysis of the sequence of VoV1 suggested that it should be classified as a member of a new species within the family Virgaviridae, for which we propose the name "Virgavirus viburnii".
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