Abstract
A partial sequence of the putative polymerase (L) protein of Strawberry crinkle virus (SCV), genus Cytorhabdovirus, is described. The virus protein was found to be distantly related to the L protein of the rhabdoviruses Northern cereal mosaic virus, Rice yellow stunt virus and Sonchus yellow net virus. Moreover, a tentative grouping of SCV isolates is described, based on phylogenetic analysis of a region enclosing the GDN-motif within the RNA-dependent RNA polymerase gene. A sequence homology of 98% was found for each tentative group, and heterogeneity of at least 11% was observed between both groups. The tentative grouping did not appear to be related to symptomatology or geographical origin of the isolates. Nevertheless, the use of several reverse-transcription (RT)-PCR primer sets, all directed to different regions within the SCV genome, confirmed the presumptive classification into two groups, namely group I (isolates 1554, KG and Post), and group II (isolates 1553, Hb-A1, 37-1 and 37-2). Additionally, the detection of SCV isolates from herbaceous hosts and strawberry plant material was possible through use of a newly developed gel-based RT-PCR and a gel-free AmpliDet RNA assay. Both methods have the potential to provide rapid, sensitive and specific detection of SCV in in vitro propagation material.
This is a preview of subscription content, log in via an institution to check access.
Similar content being viewed by others
References
Argos P (1988) A conserved motif in many polymerases. Nucleic Acids Research 16: 9909-9916
Choi T, Kuwata S, Koonin EV, Heaton LA and Jackson AO (1992) Structure of the L (Polymerase) protein gene of Sonchus yellow net virus. Virology 189: 31-39
Compton J (1991) Nucleic acid sequence-based amplification. Nature 350: 91-92
Frazier NW, Sylvester ES and Richardson J (1987) Strawberry crinkle. In: Converse RH (ed) Virus Diseases of Small Fruits Vol. 631 (pp 20-25) U.S. Department of Agriculture Handbook, Washington DC
Gonçalves MC, Klerks MM, Verbeek M, Vega J and van den Heuvel JFJM (2002) The use of molecular beacons combined with NASBA for the sensitive detection of Sugarcane yellow leaf virus. European Journal of Plant Pathology 108: 401-407
Hunter BG, Richardson J, Dietzgen RG, Karu A, Sylvester ES, Jackson AO and Morris TJ (1990) Purification and characterization of Strawberry crinkle virus. Phytopathology 80: 282-287
Kamer G and Argos P (1984) Primary structural comparison of RNA-dependent polymerases from plant, animal and bacterial viruses. Nucleic Acids Research 12: 7269-7282
Kievits T, van Gemen B, van Strijp D, Schukkink R, Dircks M, Adriaanse H, Malek L, Sooknanan R and Lens P (1991) NASBA isothermal enzymatic in vitro nucleic acid amplification optimized for HIV-1 diagnosis. Journal of Virological Methods 35: 273-286
Klerks MM, Leone GOM, Verbeek M, van den Heuvel JFJM and Schoen CD (2001a) Development of a multiplex AmpliDet RNA for the simultaneous detection of Potato leafroll virus and Potato virus Y in potato tubers. Journal of Virological Methods 93: 115-125
Klerks MM, Leone GO, Lindner JL, Schoen CD and van den Heuvel JFJM (2001b) Rapid and sensitive detection of Apple stem pitting virus in apple trees through RNA amplification and probing with fluorescent molecular beacons. Phytopathology 91(11): 1085-1091
Koonin EV (1991) The phylogeny of RNA-dependent RNA polymerases of positive-strand viruses. Journal of General Virology 72: 2197-2206
Leone G, van Schijndel H, van Gemen B, Kramer FR and Schoen CD (1998) A molecular beacon probe combined with amplification by NASBA enables homogeneous, real-time detection of RNA. Nucleic Acids Research 26: 2150-2155
Poch O, Sauvageut I, Delarue M and Tordo N (1989) Identification of four conserved motifs among the RNA-dependent polymerase encoding elements. European Molecular Biology Organisation Journal 8: 3867-3878
Posthuma KI, Adams AN, Hong Y and Kirby MJ (2002) Detection of Strawberry crinkle virus in plants and aphids by RT-PCR using conserved L gene sequences. Plant Pathology 51: 266-274
Richardson J, Frazier NW and Sylvester ES (1972) Rhabdovirus particles associated with strawberry crinkle virus. Phytopathology 62: 491-492
Schoen CD and Leone G (1995) Towards molecular detection of aphid-borne strawberry viruses. Acta Horticulturae 385: 55-63
Schoen CD, Limpens W, Möller I, Groeneveld L, Klerks MM and Lindner JL. The complete genomic sequence of Strawberry crinkle rhabdovirus, a member of the Rhaboviridae. Archives of Virology (submitted)
Sleat DE and Banerjee AK (1993) Transcriptional activity and mutational analysis of recombinant vesicular stomatitis virus RNA polymerase. Journal of Virology 67: 1334-1339
Stryer L (1978) Fluorescence energy transfer as a spectroscopic ruler. Annual Review of Biochemistry 47: 81-846
Szemes M, Klerks MM, van den Heuvel JFJM and Schoen CD (2002) Development of an AmpliDet RNA assay for the specific detection of PVYNTN. Journal of Virological Methods 100: 83-96
Tyagi S and Kramer FR (1996) Molecular beacons: Probes that fluoresce upon hybridization. Nature Biotechnology 14: 303-308
Vaughan EK (1933) Transmission of strawberry crinkle disease of strawberry. Phytopathology 23: 738-740
Author information
Authors and Affiliations
Rights and permissions
About this article
Cite this article
Klerks, M., Lindner, J., Vaškova, D. et al. Detection and Tentative Grouping of Strawberry crinkle virus Isolates. European Journal of Plant Pathology 110, 45–52 (2004). https://doi.org/10.1023/B:EJPP.0000010134.06283.38
Issue Date:
DOI: https://doi.org/10.1023/B:EJPP.0000010134.06283.38