Mixed infection of Sida jamaicensis in Jamaica reveals the presence of three recombinant begomovirus DNA A components

Arch Virol. 2014 Sep;159(9):2509-12. doi: 10.1007/s00705-014-2063-x. Epub 2014 Apr 1.

Abstract

Begomoviruses impose serious constraints on agriculture throughout the temperate, tropical and subtropical regions. Previously, we characterised a sida golden yellow vein virus isolate, SiGYVV-[JM:Lig2:08] (HQ009519-20) from a symptomatic Sida jamaicensis plant. With the aim of establishing whether it was hosting a mixed infection that could facilitate recombination, PCR-RFLP was done on DNA extracted from this plant, and the results suggested the presence of two additional genetically distinct DNA-A molecules. Sequence analysis of these two DNA-A molecules (relying on BLAST searches and the CLUSTAL V algorithm within the DNASTAR MegAlign module) revealed that they belonged to novel species, and we have tentatively named these viruses sida golden mosaic Braco virus-[Jamaica:Liguanea:2008] and sida golden mosaic Liguanea virus-[Jamaica:1:2008]. Using RDP4 (recombination detection program), we determined that all three viruses were recombinant, with bases ~10 to ~440 of both SiGMLigV-[JM:Lig:08] and SiGYVV-[JM:Lig2:08] having been derived from a relative of SiGMBV-[JM:Lig:08] (P<2.070×10(-7) for all seven of the recombination detection methods). SiGMBV-[JM:Lig:08] was itself a product of recombination, deriving bases ~490-1195 from a virus that was ~92% similar to malvastrum yellow mosaic Helshire virus. Phylogenetically, these DNA-A components are most closely related to those of malvaceous weed-infecting begomoviruses from Jamaica, Cuba, Florida and Mexico. The SiGMBV DNA-A was able to elicit symptomatic infection in N. benthamiana.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Begomovirus / classification*
  • Begomovirus / genetics*
  • Begomovirus / isolation & purification
  • Coinfection / virology*
  • DNA, Viral / genetics*
  • Genetic Variation
  • Jamaica
  • Malvaceae / virology*
  • Plant Diseases / virology*
  • Recombination, Genetic
  • Sequence Analysis, DNA
  • Sequence Homology

Substances

  • DNA, Viral