Characterization of a Novel RNA Virus Discovered in the Autumnal Moth Epirrita autumnata in Sweden

de Miranda, Joachim R.; Hedman, Harald; Onorati, Piero; Stephan, Jörg; Karlberg, Olof; Bylund, Helena; Terenius, Olle

Organization of the putative Abisko virus genome, relative to that of the negeviruses, ciliviruses and tobamoviruses. Shown are the two major viral open reading frames (ORFs), the conserved domains identifying a methyl transferase gene (MTR), a C3 protease (C3-Pro), the helicase (Helicase), and the RNA-dependent RNA polymerase (RdRp) in ORF-1; an intergenic region (IGR); the virus capsid protein (CP), and an unidentified 14 kDa protein in ORF-2; the flanking 5′ and 3′ untranslated regions; the natural poly-A tail. Also shown are the unknown 22 kDa and 29 kDa proteins for the negeviruses and the cilevirus RNA-1, as well as the movement protein (MP) for the tobamoviruses. The graph shows the distribution of the Minor Allele Frequency (MAF) at each nucleotide position with respect to the consensus sequence (black bars), as well as the sequence coverage across the genome (grey line). The major junctions of the assembled sequence were confirmed by Sanger sequencing of specific reverse transcription quantitative polymerase chain reaction (RT-qPCR) fragments (x, y).