Nucleotide Sequence of Beet Necrotic Yellow Vein Virus RNA-1

Abstract

SUMMARYThe complete nucleotide sequence of beet necrotic yellow vein virus RNA-1 is presented. The RNA molecule is 6746 nucleotides long excluding the poly(A) tail and has one long open reading flame encoding a polypeptide of M r 237 389. The 3' terminal 60 residues of BNYVV RNA-1 display extensive sequence homology with the corresponding portions of BNYVV RNA-2, -3 and -4. Additional 3' terminal homology exists between RNA-1 and -2. The sequence of the M r 237389 RNA-l-encoded polypeptide shares domains of amino acid homology with polypeptides thought to be involved in replication of RNA from tobacco mosaic virus and several other viruses. Amino acid sequence homologies between two open reading frames of BNYVV RNA-2 and two frames of RNA-fl from barley stripe mosaic virus have also been detected.

Complete Nucleotide Sequence of Peanut Clump Virus RNA 1 and Relationships With Other Fungus-transmitted Rod-shaped Viruses

“…Another clone (pCl-16.1) was produced by priming first-strand cDNA synthesis with a 20-mer (oligo 2, Fig. 1) complementary to residues 1814 to 1833 of RNA 1, treatment of the RNA-cDNA hybrids with RNAase H, followed by second-strand DNA synthesis (Gubler & Hoffmann, 1983;Bouzoubaa et al, 1987). After filling in the protruding extremities with Klenow fragment, the product was cloned into SmaI-linearized pBKS(-).…”

“…Other recombinant cDNA plasmids were produced by using synthetic oligomers complementary to known portions of the RNA 1 sequence in order to prime first-strand synthesis. Second-strand synthesis was by the method of Gubler & Hoffman (1983) with minor modifications (Bouzoubaa et al, 1987). Alternatively, the cDNA was 3'-polydeoxyadenylated with terminal transferase and second-strand synthesis was primed with the synthetic deoxyoligonucleotide 5' GCCAAGCT18.…”

“…The sequence ofPCV P131 was compared to the sequences of the SBWMV RNA 1 Mr 150000 protein (Shirako & Wilson, 1993), the BSMV RNA ~ M r 130000 protein (Gustafson et al, 1989), the TRV RNA 1 M r 134000 protein (Hamilton et al, 1987), the TMV M r 126000 protein (Goelet et al, 1982) and amino acids 1 to 1507 of the BNYVV RNA 1 237000 M r protein (Bouzoubaa et aL, 1987).…”

Beet soil-borne virus RNA 1: genetic analysis enabled by a starting sequence generated with primers to highly conserved helicase-encoding domains.

“…These sequences resemble those at the 5h termini of the RNAs of other definitive furoviruses which all start with GUA(U) n … which is followed by a C or an A residue (see Koenig et al, 1996Koenig et al, , 1997. The additonal 5h-terminal G residue in one of the clones is probably an artefact arising from the incorporation of a C residue in the cDNA in response to a 5h-cap structure during reverse transcription (see, for example, Bouzoubaa et al, 1987).…”

Shortened forms of beet necrotic yellow vein virus RNA-3 and -4: internal deletions and a subgenomic RNA

“…Beet necrotic yellow vein virus (BNYVV), a possible member of the furovirus group (Shirako & Brakke, 1984), has a quadripartite genome consisting of 5'-capped, 3'-polyadenylated plus-sense RNA (Bouzoubaa et al, 1987). BNYVV is transmitted in the field by the soil-borne fungus Polymyxa betae and is found associated with roots of sugar beet displaying symptoms of rhizomania disease (Tamada & Baba, 1973).…”