The complete nucleotide sequence of turnip mosaic virus RNA Japanese strain

Abstract

The complete nucleotide sequence of the RNA genome of turnip mosaic virus Japanese strain (TuMV-J) has been determined from five overlapping cDNA clones and by direct sequencing of viral RNA. The RNA sequence was 9833 nucleotides in length, excluding a 3' terminal poly(A) tail. An AUG triplet at position 130-132 was assigned as the initiation codon for the translation of the genome size viral polyprotein which would consist of 3164 amino acid residues. Interestingly, a different amino acid sequence (continuous twenty amino acids) within the cytoplasmic inclusion protein between TuMV-J and Canadian strain of TuMV was observed, caused by an insertion and a deletion of nucleotides.

The genetic structure of populations of Turnip mosaic virus in Kyushu and central Honshu, Japan

“…These had been designed from the genomic sequences of TuMV isolates collected around the world in the earlier studies (Tomimura et al 2003;Tomitaka and Ohshima 2006). The Tu59CI9P and Tu59NIB14M primers hybridized with nts 5,608-5,627 and 7,279-7,298 of the 1J sequence (Ohshima et al 1996) respectively, and amplified a 1,691-bp fragment of the genome. The relatedness of each R12 sequence to the others was estimated by three phylogenetic methods described later.…”

“…Recombination maps of Turnip mosaic virus genomes; the estimated nucleotide (nt) positions of the recombination sites (RSs) are shown relative to the 5¢ end of the P1 gene using the numbering of the 1J sequence(Ohshima et al 1996). The approximate RS positions were estimated from data analysed using PhylPro and SiScan Version 2 (original software), and also RDP, GENECONV, Bootscan, MaxChi, Chimaera and SiScan in the RDP2 package.…”

An important determinant of the ability of Turnip mosaic virus to infect Brassica spp. and/or Raphanus sativus is in its P3 protein

“…Raphanus sativus Japan BR Sako (1980), Ohshima et al (1996Ohshima et al ( , 2002 Ohshima et al (2002). BR strains have the ability to infect radish (R. sativus) and Brassica spp.…”

Genetic and molecular variability of aTurnip mosaic virus population from horseradish (Cochlearia armoracia L.)

“…Several partial nt sequences of different TuMV isolates have been reported (Kong et al 1990;Nakashima et al 1991;Sano et al 1992;Choi and Choi 1993;Nakashima et al 1993;Kim et al 1995;Petrzik and Lehmann 1996;Lehmann et al 1997). The first complete nt sequences of Canadian and Japanese isolates were presented by Nicolas and Lalibertë (1992) and Ohshima et al (1996). Transgenic viral-derived resistance to TuMV has also been reported Jan et al 1999;Lehmann et al 2003).…”