title: A satellite RNA of barley yellow dwarf virus contains a novel hammerhead structure in the self-cleavage domain.
abstract: An RNA molecule with properties of a satellite RNA was found in an isolate of barley yellow dwarf virus (BYDV), RPV serotype. It is 322 nucleotide long, single-stranded, and does not hybridize to the viral genome. Dimers of the RNA, which presumably represent replicative intermediates, were able to self-cleave into monomers. In vitro transcripts from cDNA clones were capable of self-cleavage in both the plus (encapsidated) and minus orientations. The sequence flanking the minus strand cleavage site contained a consensus "hammerhead" structure, similar to those found in other self-cleaving satellite RNAs. Although related to the hammerhead structure, sequences flanking the plus strand termini showed differences from the consensus and may be folded into a different structure containing a pseudo-knot.
authors.affiliation: Department of Plant Pathology, Iowa State University, Ames 50011.
authors.forename: W A
authors.initials: WA
authors.lastname: Miller
authors.forename: T
authors.initials: T
authors.lastname: Hercus
authors.forename: P M
authors.initials: PM
authors.lastname: Waterhouse
authors.forename: W L
authors.initials: WL
authors.lastname: Gerlach
mesh_terms: D001483:Base Sequence; D003001:Cloning, Molecular; D001467:Hordeum; D008969:Molecular Sequence Data; D008970:Molecular Weight; D009690:Nucleic Acid Conformation; D010942:Plant Viruses / Q000235:genetics*; D012313:RNA / Q000737:chemistry* / Q000378:metabolism; D019244:RNA, Satellite; D012367:RNA, Viral / Q000737:chemistry* / Q000378:metabolism
chemical_list: D019244:RNA, Satellite; D012367:RNA, Viral; D012313:RNA