Molecular characterization of Lolium latent virus, proposed type member of a new genus in the family Flexiviridae

Arch Virol. 2008;153(7):1263-70. doi: 10.1007/s00705-008-0108-8. Epub 2008 May 29.

Abstract

Lolium latent virus (LoLV) was recently detected in the USA for the first time in ryegrass hybrids (Lolium perenne x Lolium multiflorum). The genome of one USA isolate, LoLV-US1, has now been fully sequenced. The positive strand genomic RNA is 7674 nucleotides (nt) long and is organized in five open reading frames (ORFs) encoding the replication-associated protein, the movement-associated triple gene block proteins and the coat protein (CP). The genome organization is similar to that of viruses in the genera Potexvirus and Foveavirus; however, analysis of the complete LoLV genomic sequence, phylogenetic analyses of the deduced amino acid (aa) sequences of the polymerase and the CP, presence of a putative ORF 6, and the in vivo detection of two CPs in equimolar amounts, highlight features peculiar to LoLV. These characteristics indicate that LoLV forms a monotypic group separate from existing genera and unassigned species within the family Flexiviridae, for which we propose the genus name Lolavirus. One-step RT-PCR was developed for quick and reliable LoLV detection.

MeSH terms

  • Base Sequence
  • Capsid Proteins / genetics
  • Flexiviridae / classification*
  • Flexiviridae / genetics*
  • Flexiviridae / isolation & purification
  • Gene Order
  • Genome, Viral*
  • Lolium / virology
  • Molecular Sequence Data
  • Open Reading Frames
  • Phylogeny
  • RNA, Viral / genetics*
  • RNA-Dependent RNA Polymerase / genetics
  • Sequence Analysis, DNA
  • Sequence Homology, Amino Acid
  • Synteny
  • United States

Substances

  • Capsid Proteins
  • RNA, Viral
  • RNA-Dependent RNA Polymerase

Associated data

  • GENBANK/EU489641