Analysis of variability in partial sequences of genomes of Tobacco yellow dwarf virus isolates

Australasian Plant Pathology (Impact Factor: 0.95). 01/2004; 33(3):367-370. DOI: 10.1071/AP04023


The movement protein coding region of six isolates of Tobacco yellow dwarf virus (TYDV), collected over a 30 year period from various regions throughout Australia, was analysed using PCR and DNA sequencing.
Four isolates of Bean summer death virus, considered a synonym of TYDV, were also analysed. Phylogenetic analysis showed that
all 10 isolates were greater than 95% homologous to the published TYDV sequence (GenBank accession number M81103). The weed
Raphanus raphanistrum was identified as an alternative host of TYDV for the first time.

Additional keywordsBean summer death virus–detection, geminivirus–mastrevirus–TYDV

4 Reads
  • Source
    • "Similarly, Passiflora virus Y (Parry et al., 2004) is not included as it also occurs on the nearby island of New Guinea. Viruses known to occur only in Australia that belong to groups other than the potyviruses and are likely to be indigenous include: Cardamine chlorotic fleck virus (CCFV; Skotnicki et al., 1992), Cardamine latent virus (CLV; Guy and Gibbs, 1985; Buchen-Osmond et al., 1988), Cassia yellow blotch virus (CYBV; Dale et al., 1984), Chloris striate mosaic virus (CSMV; Francki and Hatta, 1980), Digitaria striate virus (DSV; Greber, 1979), Galinsoga mosaic virus (GalMV; Behncken et al., 1982); Glycine mosaic virus (GMV; Bowyer et al., 1980); Glycine mottle virus (GMoV; Behncken and Dale, 1984), Kennedya yellow mosaic virus (KYMV; Dale and Gibbs, 1976; Gibbs, 1978), Lucerne Australian symptomless virus (LASV; Remah et al., 1986); Maize sterile stunt virus (MSSV; Greber, 1982); Malvastrum mottle virus (MMV; Buchen-Osmond et al., 1988), Paspalum striate mosaic virus (PSMV; Grylls, 1963); Subterranean clover stunt virus (SCSV; Grylls and Butler, 1959); Solanum nodiflorum mottle virus (SNMV; Greber and Randles, 1986), Tobacco yellow dwarf virus (TYDV; Thomas and Bowyer, 1980; Van Rijswijk et al., 2004); Tomato leaf curl virus (Australian ) (TLCV-Aus) (Stonor et al., 2003), Velvet tobacco mottle virus (VTMoV) and Nicotiana velutina mosaic virus (NVMV) (Randles et al., 1976, 1981). Although not reported from outside Australia as yet, Subterranean clover mottle virus is not included above because it probably originated in the Mediterranean area (Jones et al., 2001). "
    [Show abstract] [Hide abstract]
    ABSTRACT: This review focuses on virus-plant pathosystems at the interface between managed and natural vegetation, and describes how rapid expansion in human activity and climate change are likely to impact on plants, vectors and viruses causing increasing instability. It starts by considering virus invasion of cultivated plants from their wild ancestors in the centres of plant domestication in different parts of the world and subsequent long distance movement away from these centres to other continents. It then describes the diverse virus-plant pathosystem scenarios possible at the interface between managed and natural vegetation and gives examples that illustrate situations where indigenous viruses emerge to damage introduced cultivated plants and newly introduced viruses become potential threats to biodiversity. These examples demonstrate how human activities increasingly facilitate damaging new encounters between plants and viruses worldwide. The likely effects of climate change on virus emergence are emphasised, and the major factors driving virus emergence, evolution and greater epidemic severity at the interface are analysed and explained. Finally, the kinds of challenges posed by rapidly changing world conditions to achieving effective control of epidemics of emerging plant viruses, and the approaches needed to address them, are described.
    Virus Research 02/2009; 141(2):113-30. DOI:10.1016/j.virusres.2008.07.028 · 2.32 Impact Factor
  • Source
    [Show abstract] [Hide abstract]
    ABSTRACT: Natural infection by mastreviruses was investigated in chickpea (Cicer arietinum) and other dicotyledonous crops and weeds in grain production areas of Queensland and northern New South Wales, Australia, from 2000 to 2005. Altogether, 33 639 plants comprising 31 species and 10 dicot families were screened for infection by a tissue-blot immunoassay that did not distinguish between mastrevirus strains or species. Nine plant species in three families were identified as natural hosts. Chickpea was infected throughout the region although infection incidence did not exceed 5%. Infection was rare in faba bean (Vicia faba), canola (Brassica napus), and mustard (B. juncea) and not detected in field pea (Pisum sativum). Infection of chickpea and turnip weed (Rapistrum rugosum) was confirmed by immunocapture polymerase chain reaction (IC-PCR) with primers generic for dicot-infecting mastreviruses, and also immunosorbent electron microscopy and graft transmission in the case of chickpea. Individual mastreviruses were identified by comparing their IC-PCR amplicons by a combination of methods. Among 42 isolates from 41 chickpea plants, one was typical Tobacco yellow dwarf virus (TYDV) and the others were three recently distinguished strains including two proposed novel species: 34 Chickpea chlorosis virus strain A, six Chickpea chlorosis virus strain B, and one Chickpea redleaf virus. All of 10 isolates from 10 turnip weed plants were TYDV-B, a strain distinct from typical TYDV. The symptoms associated with mastrevirus infection in chickpea included foliar chlorosis or reddening, stunting, and usually phloem browning. The potential for losses in winter and summer grown field crops is discussed.
    Australasian Plant Pathology 01/2010; 39(6):551-561. DOI:10.1071/AP10032 · 0.95 Impact Factor
  • [Show abstract] [Hide abstract]
    ABSTRACT: The complete genome for a barley isolate of Wheat dwarf virus (WDV) from Tekirdağ, Turkey, WDV-Bar[TR], was isolated and sequenced. The genome was found to be 2739 nucleotides long, which is shorter than wheat-infecting WDV isolates, and with a genome organization typical for mastreviruses. The complete genome of WDV-Bar[TR] showed 83-84% nucleotide identity to wheat isolates of WDV, with the non-coding regions SIR and LIR least conserved (72-74% identity). The deduced amino acid sequences for Rep and RepA were most conserved (92-93%), while CP and MP were less conserved (87% and 79-80%, respectively). The identity to other mastrevirus species was significantly lower. In phylogenetic analyses, the WDV isolates formed a distinct clade, well separated from the other mastreviruses with the wheat isolates grouping closely together. Phylogenetic analyses of WDV-Bar[TR], the partial sequence for another Turkish barley isolate (WDV-Bar[TR2]) and published WDV sequences further supported the division of WDV into two distinct strains. The barley strain could also be divided into three subtypes based on relationships and geographic origin. This study shows the first complete published sequence for a barley isolate of WDV.
    Virus Genes 07/2007; 34(3):359-66. DOI:10.1007/s11262-006-0029-0 · 1.58 Impact Factor
Show more