Arch Virol (2003) 148: 1827–1834
Characterization of the small subgenomic RNA
of Soybean dwarf virus
N. Yamagishi, H. Terauchi, S. Kanematsu, and S. Hidaka
National Agricultural Research Center for Tohoku Region, Morioka, Iwate, Japan
Received December 12, 2002; accepted April 16, 2003
Published online July 2, 2003
Summary. We have characterized a small subgenomic RNA of Japanese strains
of Soybean dwarf virus (SbDV). Northern blot analyses of SbDV-infected plants
showed that the small RNA contained the 3
terminal sequence of the genome and
was detected in four typical Japanese SbDV strains, YS, YP, DS and DP. In the
case of SbDV-DS, the RNA was 220 nucleotides in length and was transcribed
from the 3
terminal region of the genome. This RNA appeared at a similar time to
genomic RNA and a large sgRNA, and thereafter persisted in the infected plant.
Since no conserved open reading frame (ORF) among the strains was postulated
in the 3
terminal region, the small subgenomic RNA may have some regulatory
roles in SbDV infections.
Soybean dwarf virus (SbDV) is a member of the Luteoviridae family and causes
serious yield losses in soybean production in the northern part of Japan . The
virus has isometric particles containing a single-stranded positive-sense RNA.
Rathjen et al. reported that the genome of an Australian isolate (Tas1) consists of
5861 nucleotides (nt) and encodes ﬁve major ORFs. ORFs 1 and 2 encode the
replication-related proteins, whilst ORFs 3, 4 and 5 encode the coat protein, a
putative movement protein and the readthrough protein of ORF 3, respectively.
The latter three ORFs were supposed to be expressed from the large subgenomic
Previously, we reported the complete nucleotide sequences of four Japanese
SbDV strains, YS, YP, DS and DP, which were classiﬁed according to differences
in symptom type and vector speciﬁcity [7, 13]. All strains had similar genome or-
ganizations to SbDV-Tas1. In Barley yellow dwarf virus (BYDV)-PAV in the genus
Luteovirus, three sgRNAs were detected and mapped to the region representing