title: Nucleotide sequence of a Dianthovirus RNA1-like RNA found in grassy stunt-diseased rice plants.
abstract: A Dianthovirus RNA1-like RNA (DR1L RNA, 4486 nucleotides in length) was found in grassy stunt-diseased rice plants together with Rice grassy stunt virus (RGSV). DR1L RNA has characteristics common to Dianthovirus RNA1 such as (1) presence of a GGAUUUUUAG potential shifty-heptanucleotide at the end of the 5'-proximal ORF, which encodes a 35-kDa protein, followed by a 77-nucleotide sequence capable of forming a stem-loop structure for an efficient--1 frameshift to express the downstream region in a 96-kDa putative replicase protein, (2) presence of nearly identical 17-nucleotide sequences in the 5'-terminal region and in a region upstream of an ORF encoding a 28-kDa, putative capsid protein (CP), and (3) near identity of the 3'-terminal 20 nucleotides to those of Dianthovirus RNAs. Western blot analysis using an antiserum against the C-terminal domain of the putative CP and RT-PCR analysis using primers specific to DR1L RNA of fractions after sucrose density gradient centrifugation of RGSV nucleoproteins indicated that DR1L RNA is associated with the 28-kDa putative CP but not with the 36-kDa RGSV CP. Two additional ORFs for 15-kDa and 33-kDa proteins were present in DR1L RNA although their expression in plants and functions are not known.
authors.affiliation: Graduate School of Agricultural Life Sciences, University of Tokyo, Tokyo, Japan.
authors.forename: G J
authors.initials: GJ
authors.lastname: Miranda
authors.forename: R
authors.initials: R
authors.lastname: Aliyari
authors.forename: Y
authors.initials: Y
authors.lastname: Shirako
mesh_terms: D000595:Amino Acid Sequence; D001483:Base Sequence; D002213:Capsid / Q000235:genetics; D016368:Frameshift Mutation; D015723:Gene Library; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D016366:Open Reading Frames; D012275:Oryza / Q000821:virology*; D010935:Plant Diseases / Q000821:virology; D018515:Plant Leaves / Q000821:virology; D012328:RNA Viruses / Q000235:genetics* / Q000302:isolation & purification; D012367:RNA, Viral / Q000737:chemistry / Q000235:genetics*; D020133:Reverse Transcriptase Polymerase Chain Reaction; D019183:Tombusviridae / Q000235:genetics* / Q000302:isolation & purification; D014764:Viral Proteins / Q000235:genetics
chemical_list: D012367:RNA, Viral; D014764:Viral Proteins