Complete genomic sequence of Dracaena mottle virus, a distinct badnavirus

Abstract

The genome of Dracaena mottle virus (DrMV) was cloned from infected Dracaena sanderiana plants, and its complete nucleotide sequence was determined and analyzed. The circular DNA genome consists of 7531 base pairs (bp) and possesses seven putative open reading frames (ORFs) on the plus-strand that potentially encode proteins of 17.6, 14.9, 215.0, 11.9, 11.3, 16.1, and 11.0 kDa, respectively. ORF 3, the largest ORF, encodes a putative polyprotein that contains sequences for viral aspartyl proteinase, reverse transcriptase (RT) and ribonuclease H (RNase H), characteristic of pararetroviruses. Phylogenetic analysis based on the amino acid sequence of ORF 3 showed that DrMV is related to other badnaviruses. However, the nucleotide sequence coding for the RT and RNase H domain of DrMV shares less than 68% homology with that of any known badnaviruses. The seventh ORF of DrMV is not found in other badnaviruses described before. Our results strongly support that DrMV is a distinct species of the genus Badnavirus, family Caulimoviridae. Evidence that the DrMV sequence is integrated in the D. sanderiana genome is presented and discussed.

Molecular analysis of gooseberry vein banding associated virus

“…These ORFs encode proteins of 224, 147, and 1910 aa (25.9 kDa, 16 kDa, and 215.8 kDa). As mentioned above, there are badnaviruses in whose genomes additional ORFs have been found (Borah et al, 2009;Seal and Muller, 2007;Su et al, 2007). GVBaV contained a fourth putative ORF in all isolates.…”

“…Open reading frames (ORFs) found on the minus strand are not thought to be expressed in these viruses (Rothnie et al, 1994). Three ORFs are believed to be typical for badnaviruses, although additional ORFs have been found in some species: ORF IV, V and VI in citrus yellow mosaic badnavirus (Borah et al, 2009), ORF4 coding for a putative protein of 95 amino acids (aa) inside the ORF3 in dioscorea sansibarensis bacilliform virus (Seal and Muller, 2007), and four ORFs with products longer than 100 aa inside and after ORF3 in dracaena mottle virus (Su et al, 2007). The function of the ORF1 product (about 23 kDa in GVBaV) is unknown.…”

Molecular analysis of the complete genomic sequences of four isolates of Gooseberry vein banding associated virus

“…The predicted aa sequence contains features characteristic of badnaviruses, including movement protein (MP), coat protein (CP), aspartic protease, reverse transcriptase (RTase), and ribonuclease H (RNase H) [20][21][22][23][24][25][26].…”

“…It contains a lysine-rich core (aa 847-881) and a cysteine-rich, zinc finger-like RNA-binding domain (CXCX 2 CX 4 HX 4 C, aa 882-897) found in the CP of all plant pararetroviruses [20,21,24,26,30] as well as several other motifs unique to (Fig. 2).…”

Evolution of Endogenous Sequences of Banana Streak Virus : What Can We Learn from Banana ( Musa sp.) Evolution?

“…To date, EPRVs have been described in nine distantly related mono-and dicotyledonous plant families. Each originated from independent integration events from five of the six genera of the Caulimoviridae family (49,63,64). Although most EPRVs are probably eliminated from the plant genome, they can also be retained through an endogenization process.…”