July 2023
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20 Reads
Archives of Virology
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July 2023
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20 Reads
Archives of Virology
June 2023
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36 Reads
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1 Citation
Archives of Virology
A novel plant virus with a double-stranded (ds) RNA genome was detected in Lilium spp. in China by high-throughput sequencing and tentatively named “lily amalgavirus 2” (LAV2). The genomic RNA of LAV2 is 3432 nucleotides (nt) in length and contains two open reading frames (ORFs) that putatively encode a ‘1 + 2’ fusion protein of 1053 amino acids (aa), generated by a ‘+1’ programmed ribosomal frameshift (PRF). ORF1 encodes a putative 386-aa protein of unknown function, and ORF2 overlaps ORF1 by 350 nt and encodes a putative 783-aa protein with conserved RNA-dependent RNA polymerase (RdRp) motifs. The ‘+1’ ribosomal frameshifting motif, UUU_CGN, which is highly conserved among amalgaviruses, is also found in LAV2. Sequence analysis showed that the complete genome shared 46.04%-51.59% nucleotide sequence identity with those of members of the genus Amalgavirus and had the most similarity (51.59% sequence identity) to lily amalgavirus 1 (accession no. OM782323). Phylogenetic analysis based on RdRp amino acid sequences showed that LAV2 clustered with members of the genus Amalgavirus. Overall, our data suggest that LAV2 is a new member of the genus Amalgavirus.
February 2023
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19 Reads
A novel plant virus with a double-stranded (ds) RNA genome was detected in Lilium spp. in China by high-throughput sequencing, tentatively named “Lily amalgavirus 2” (LAV2). The genomic RNA of LAV2 is 3432 nucleotides (nt) and encodes a large fusion protein with 1053 amino acids (aa). It encodes two open reading frames (ORFs). The two ORFs putatively encode a ‘1 + 2’ fusion protein generated by a ‘+1’ programmed ribosomal frameshift (PRF). ORF1 encodes a 386-aa protein with unknown function, ORF2 overlaps ORF1 by 350 nt and encodes a 783-aa protein consists of a conserved sequence, which is RNA-dependent RNA polymerase (RdRp). The ‘+1’ ribosomal frameshifting motif sequence, UUU_CGN, which was highly conserved among known Amalgaviruses , was also found in LAV2. Sequence analysis suggested that it shared 46.04%-51.59% complete nucleotide sequence identity with those members of the genus Amalgavirus and had the highest identity (51.59%) to Lily amalgavirus 1 (accession no. OM782323). Phylogenetic analysis based on the RdRp amino acid sequences showed that LAV2 clustered with Amalgavirus. Overall, our data suggest that LAV2 is a new member of the genus Amalgavirus .
... The partial ORF1 and ORF2 encode an RdRp fusion protein resulting from a frameshift at the + 1 PRF motif, consisting of 1,057 amino acids with a predicted molecular mass of 118.6 kDa (Fig. 1C). An alignment of the amino acid sequence of the RdRp encoded by SGAV1 with those of 10 related amalgaviruses revealed that the SGAV1 RdRp contains all seven conserved motifs (I to VII) ( Supplementary Fig. S1A) described previously [8,9]. ...
June 2023
Archives of Virology