'2A-like' and 'shifty heptamer' motifs in penaeid shrimp infectious myonecrosis virus, a monosegmented double-stranded RNA virus.
Penaeid shrimp infectious myonecrosis virus (IMNV) is a monosegmented double-stranded RNA virus that forms icosahedral virions and is tentatively assigned to the family Totiviridae. New examinations of the IMNV genome sequence revealed features not noted in the original report. These features include (i) two encoded '2A-like' motifs, which are likely involved in open reading frame (ORF) 1 polyprotein 'cleavage'; (ii) a 199 nt overlap between the end of ORF1 in frame 1 and the start of ORF2 in frame 3; and (iii) a 'shifty heptamer' motif and predicted RNA pseudoknot in the region of ORF1-ORF2 overlap, which probably allow ORF2 to be translated as a fusion with ORF1 by -1 ribosomal frameshifting. Features (ii) and (iii) bring the predicted ORF2 coding strategy of IMNV more in line with that of its closest phylogenetic relative, Giardia lamblia virus, as well as with that of several other members of the family Totiviridae including Saccharomyces cerevisiae virus L-A.
Nibert
Max L
ML
Department of Microbiology and Molecular Genetics, Harvard Medical School, 200 Longwood Avenue, Boston, MA 02115, USA.
D020816:Amino Acid Motifs; D000595:Amino Acid Sequence; D001483:Base Sequence; D015967:Gene Expression Regulation, Viral; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D016366:Open Reading Frames; D014176:Protein Biosynthesis; D019196:Totiviridae / Q000235:genetics*; D014764:Viral Proteins / Q000737:chemistry / Q000235:genetics*
D014764:Viral Proteins