title: The complete nucleotide sequence and genome organization of barley mild mosaic virus (Na1 strain).
abstract: The 5'-terminal half of RNA 1 and whole of RNA 2 of barley mild mosaic bymovirus Na1 strain (BaMMV-Na1) were sequenced to give together with the published data its complete genomic sequence. BaMMV-Na1 RNA 1 and RNA 2 consist of 7263 and 3516 nucleotides, excluding the 3' poly A tails, respectively. RNA 1 encodes a single large polyprotein of 2258 amino acids (M(r) 256K), containing eight putative functional proteins, and RNA 2 also encodes one polyprotein of 891 amino acids (M(r) 98K), containing two functional proteins. These functional proteins are arranged in the same manner as in RNA 1 and RNA 2 of barley yellow mosaic bymovirus (BaYMV), and significant amino acid sequence homology (25-58%) exists between the proteins of the two viruses. The BaMMV-Na1 proteins show less amino acid sequence homology (18-32%) with the corresponding proteins of potyviruses or rymoviruses than with those of BaYMV. Comparisons of the BaMMV-Na1 proteins with the corresponding proteins of other partially sequenced BaMMV isolates show 87-98% amino acid sequence identity. There is 91-94% nucleotide sequence identity between the 3' non-coding regions (NCRs) in RNA 1 or RNA 2 of BaMMV-Na1 and other BaMMV isolates, but only 68-72% identity between the 5' NCRs in RNA 2 of BaMMV-Na1 and other BaMMV isolates.
authors.affiliation: National Agriculture Research Center, Ibaraki, Japan.
authors.forename: S
authors.initials: S
authors.lastname: Kashiwazaki
mesh_terms: D000595:Amino Acid Sequence; D001483:Base Sequence; D002874:Chromosome Mapping; D004279:DNA, Viral; D019143:Evolution, Molecular; D016679:Genome, Viral; D001467:Hordeum / Q000821:virology; D008969:Molecular Sequence Data; D016366:Open Reading Frames; D017800:Potyvirus / Q000235:genetics*; D016415:Sequence Alignment; D014764:Viral Proteins / Q000235:genetics
chemical_list: D004279:DNA, Viral; D014764:Viral Proteins