Comparison and Sequence Analysis of the 3 -terminal Regions of RNA 1 of Barley Yellow Mosaic Virus

An isolate of barley yellow mosaic virus(BaYMV-HN) obtained from Haenam, Korea was compared with two BaYMV strains, BaYMV- 1 -1 from Japan and BaYMV-G from Germany. The sequence of the 3 terminal 3817nucleotides(excluding the poly (A) tail] of RNA I of BaYMV-HN was determined to start within a long open reading frame coding for a part of the Nia-VPg polymerase(26 amino acids), Nla-Pro polymerase (343 amino acids), NIb polymerase(528 amino acids) and the entire capsid protein(297 amino acids), which is followed by a noncoding region(NCR) of 235 nucelotides. In the partial ORFs, BaYMV-HN shows higher sequence homology with BaYMV- I -1(99.5%) than BaYMV-G(92.7%). The 3 non-coding regions of BaYMV HN(235nt) shows higher nucleotide sequence homology with BaYMV-G(235nt) (99.6%) than BaYMV- I - 1(231nt) (97.0%). The 3 Nla-Pro protein sequence of BaYMV-HN shows higher amino acid sequence homology with BaYMV- I -1(95.0%) than BaYMV-G 93.6%), but, Nlb protein sequence of BaYMV-HN shows same all amino acid sequence. The capsid protein sequence of BaYMV-HN(297aa) shows same with BaYMV- I - 1, and shows higher nucleotide sequence homology with BaYMV-UK (from United Kingdom) (97,3%) than BaYMV-G(96.9%) and G2(96.9%). Difference of capsid protein amino acid were 0-9 between the Japan, United Kingdom and Germany and were 2-6 between all Korean isolates. Many of the amino acid differences are located in the N-terminal regions of the capsid proteins from 1 to 74 amino acid positions.