title: Mixed infection of Sida jamaicensis in Jamaica reveals the presence of three recombinant begomovirus DNA A components.
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.
authors.affiliation: The Biotechnology Centre, The University of the West Indies, 2 St. John's Close, Kgn 7, Mona, Jamaica, cherylsstewart@gmail.com.
authors.forename: Cheryl
authors.initials: C
authors.lastname: Stewart
authors.forename: Tatsuya
authors.initials: T
authors.lastname: Kon
authors.forename: Maria
authors.initials: M
authors.lastname: Rojas
authors.forename: André
authors.initials: A
authors.lastname: Graham
authors.forename: Darren
authors.initials: D
authors.lastname: Martin
authors.forename: Robert
authors.initials: R
authors.lastname: Gilbertson
authors.forename: Marcia
authors.initials: M
authors.lastname: Roye
mesh_terms: D053839:Begomovirus / Q000145:classification* / Q000235:genetics* / Q000302:isolation & purification; D060085:Coinfection / Q000821:virology*; D004279:DNA, Viral / Q000235:genetics*; D014644:Genetic Variation; D007563:Jamaica; D019660:Malvaceae / Q000821:virology*; D010935:Plant Diseases / Q000821:virology*; D011995:Recombination, Genetic; D017422:Sequence Analysis, DNA; D017385:Sequence Homology
chemical_list: D004279:DNA, Viral