Genome characterization and complete sequence of a new badnavirus from Pandanus amaryllifolius

Robert A. Alvarez-Quinto, Samuel Grinstead, Philippe Rott, Dimitre Mollov

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A new badnavirus was sequenced from fragrant pandan grass (Pandanus amaryllifolius) displaying mosaic and chlorosis on the leaves. The complete genome sequence was determined by high-throughput sequencing. The new badnavirus was tentatively named "pandanus mosaic associated virus" (PMaV). Similar to those of other members of the genus Badnavirus, the genome of PMaV consists of a circular DNA molecule of 7,481 bp with three open reading frames (ORF) potentially coding for three proteins. ORF3 encodes a polyprotein with conserved protein domains including zinc finger, trimeric dUTPase, aspartic protease, reverse transcriptase (RT), and RNase H domains. Pairwise comparisons of the highly conserved RT + RNase H region revealed the highest nucleotide (nt) sequence identity (70.71%) to taro bacilliform CH virus-Et17 (MG017324). In addition to PMaV, viral sequences corresponding to orchid fleck dichorhavirus (OFV) were detected in the same plant sample. The complete sequence of the OFV coding region shared >98% nt sequence identity with other isolates of OFV available in the GenBank database. Disease symptoms could not be attributed exclusively to PMaV or OFV, as both viruses were present in the pandan grass exhibiting mosaic and chlorosis.

Original languageEnglish (US)
Pages (from-to)1717-1720
Number of pages4
JournalArchives of Virology
Issue number8
StatePublished - Aug 2022
Externally publishedYes

Bibliographical note

Funding Information:
We thank Joel Crippen and Joshua Spall at Mounts Botanical Garden (West Palm Beach, FL) for their help in sampling fragrant pandan grass (Pandanus amaryllifolius). Robert A. Alvarez-Quinto is supported by the Republic of Ecuador through the Ecuadorean Science and Technology Secretariat (SENESCYT).

Publisher Copyright:
© 2022, This is a U.S. government work and not under copyright protection in the U.S.; foreign copyright protection may apply.

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  • Journal Article


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