The nucleotide sequence and genome organization of the whitefly transmitted sweetpotato mild mottle virus: a close relationship with members of the family Potyviridae
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Abstract
Primers corresponding to conserved regions in the RNA-dependent RNA polymerase and
the RACE procedure led to the cloning of the complete sweetpotato mild mottle virus
(SPMMV) RNA genome. The assembled SPMMV genomic sequence was 10,818 nucleotides in
length with a polyadenylated tract at the 3' terminus. The structure and organization
of the SPMMV genome appear to be similar to those of potyviruses and rymoviruses.
A 5' untranslated region, rich in A and U residues, is present between nucleotides
1 and 139. A putative initiation codon, at nucleotides 140-142, marks the beginning
of a large open reading frame (ORF) which ends in UAA at positions 10,508-10,510.
A 308-nucleotide untranslated region is present between the termination codon of the
ORF and the beginning of the 3' polyadenylated region. Almost all known potyvirus
motifs are present in the polyprotein of SPMMV. However, motifs in the putative helper-component
and coat protein of SPMMV are incomplete or missing, which may account for its vector
relations. Despite similarities with rymoviruses, potyviruses and, to a lesser extent,
bymoviruses, comparative sequence analyses demonstrated that SPMMV belongs to a distinct
genus of the family Potyviridae.