Complete genome sequence of a novel foveavirus isolated from Allium sativum L. in China

Arch Virol. 2021 Mar;166(3):983-986. doi: 10.1007/s00705-021-04957-8. Epub 2021 Jan 13.

Abstract

The complete genome sequence of a novel foveavirus identified in garlic (Allium sativum L.) in China was determined using RNA-seq, reverse transcription polymerase chain reaction (RT-PCR) and rapid amplification of cDNA ends (RACE) PCR. The entire genomic RNA (GenBank accession MT981417) is 8748 nucleotides long excluding the 3'-terminal poly(A) tail and contains five open reading frames (ORFs). These ORFs encode the viral replicase, a triple gene block, and a coat protein. The virus was tentatively named "garlic yellow stripe associated virus" (GarYSaV). Pairwise comparisons of protein sequences show that GarYSaV encodes proteins that share less than 47% identity with those of other foveaviruses, suggesting that it represents a new species in the genus. Phylogenetic analysis of amino acid sequences of the replicase and CP confirm that GarYSaV is a member of the genus Foveavirus. To our knowledge, this is the first report of a foveavirus in a monocot plant.

MeSH terms

  • Amino Acid Sequence
  • Capsid Proteins / genetics
  • China
  • Flexiviridae / classification
  • Flexiviridae / genetics*
  • Flexiviridae / isolation & purification
  • Garlic / virology*
  • Genome, Viral / genetics*
  • Open Reading Frames / genetics
  • Phylogeny
  • Plant Diseases / virology
  • RNA, Viral / genetics*
  • Whole Genome Sequencing / methods

Substances

  • Capsid Proteins
  • RNA, Viral