Fig. 5
From: Metagenomic identification of novel viruses of maize and teosinte in North America
Organization of putative novel RNA virus genomes. A Putative TaBV genome map. Orange boxes indicate locations of predicted ORFs 1–3. B Putative MaTV genome map. Blue boxes indicate locations of predicted ORFs 1–5. The light blue box with a dashed outline depicts the location of ORF0, a possible but unlikely ORF. Locations of predicted in-frame readthroughs (rt) and the (CCXXXX)n motif are labeled above and below the genome map, respectively. C Putative MaUV genome map. Purple boxes indicate locations of predicted ORFs 1–4. The location of a predicted frameshift element (fs) and ISSLS, which is predicted to enhance cap-independent translation [58], are indicated above the genome. D RNA secondary structure predictions for MaUV. The MaUV genome sequence was used to predict secondary structure of the putative − 1 frameshift pseudoknot and ISSLS using mfold [59] and visual inspection. The structures were drawn using RNA2Drawer [60]. Bases in orange and red represent the shifty site and the ORF1 stop codon, respectively. Bases in green are conserved in other ISSLS [58]. Validated novel virus genomes were evaluated for conserved motifs by BLASTx. Identified motifs are depicted as gray boxes with corresponding pfam identification numbers inside or below. Open reading frames were inferred from long open coding sequences and the presence of identified motifs. Viral genomes are depicted relative to the scale bar equal to 1 kilobase (kb)