Development and validation of a real-time RT-PCR assay for generic detection of pospiviroids

Journal of Virological Methods

Volumn 187, Issue 1, 2013, Pages 43-50

  Botermans, M ^a   van de Vossenberg, B T L H ^a   Verhoeven, J T J ^a   Roenhorst, J W ^a   Hooftman, M ^b   Dekter, R ^b   Meekes, E T M ^b  

^a National Plant Protection Organization   (Netherlands)

^b Naktuinbouw ^*  (Netherlands)

Author keywords

Generic detection; Pospiviroid; Potato spindle tuber viroid; Real time RT PCR assay; Tomato; Validation

Indexed keywords

VIRUS RNA;

ARTICLE; CONTROLLED STUDY; CROSS REACTION; DILUTION; ENZYME LINKED IMMUNOSORBENT ASSAY; INTERMETHOD COMPARISON; LIMIT OF DETECTION; NONHUMAN; NUCLEOTIDE SEQUENCE; PLANT LEAF; POSPIVIROID; POTATO SPINDLE TUBER; PRIORITY JOURNAL; REAL TIME POLYMERASE CHAIN REACTION; REPRODUCIBILITY; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; RNA EXTRACTION; SENSITIVITY AND SPECIFICITY; TOMATO; VALIDATION STUDY; VIROID; VIROIDAL PLANT DISEASE; VIRUS DETECTION;

BASE SEQUENCE; PLANT DISEASES; PLANT VIRUSES; REAL-TIME POLYMERASE CHAIN REACTION; REPRODUCIBILITY OF RESULTS; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RNA, VIRAL; SEQUENCE ALIGNMENT; VIROIDS;

COLUMNEA LATENT VIROID; LYCOPERSICON ESCULENTUM; POSPIVIROID; POSPIVIROIDAE; POTATO SPINDLE TUBER VIROID; SOLANUM TUBEROSUM; VIROIDS;

EID: 84871760843     PISSN: 01660934     EISSN: 18790984     Source Type: Journal    
DOI: 10.1016/j.jviromet.2012.09.004     Document Type: Article

References (18)

1. Anonymous Nationale richtlijn voor de validatie van detectie-en identificatiemethoden voor plantpathogenen en plaagorganismen 2010, National Plant Protection Organization, Wageningen.
2. Boonham N., Gonzalez Perez L., Mendez M.S., Peralta E.L., Blockley A., Walsh K., Barker I., Mumford R.A. Development of a real-time RT-PCR assay for the detection of Potato spindle tuber viroid. Journal of Virological Methods 2004, 116:139-146.
3. Hooftman R., Arts M.J., Shamloul A.M., Zaayen A.V., Hadidi A. Detection of Chrysanthemum stunt viroid by reverse transcription-polymerase chain reaction and by tissue blot hybridization. Acta Horticulturae 1996, 432:120-128.
4. Menzel W., Jelkmann W., Maiss E. Detection of four apple viruses by multiplex RT-PCR assays with coamplification of plant mRNA as internal control. Journal of Virological Methods 2002, 99:81-92.
5. Monger W., Tomlinson J., Booonham N., Marn M.V., Plesko I.M., Molinero-Demilly V., Tassus X., Meekes E., Toonen M., Papayiannis L., Perez-Egusquiza Z., Mehle N., Jansen C., Nielsen S.L. Development and inter-laboratory evaluation of real-time PCR assays for the detection of pospiviroids. Journal of Virological Methods 2010, 169:207-210.
6. Nie X., Singh R.P., Bostan H. Molecular cloning, secondary structure, and phylogeny of three pospiviroids from ornamental plants. Canadian Journal of Plant Pathology 2005, 27:592-602.
7. OEPP/EPPO PM7/98 (1) specific requirements for laboratories preparing accreditation for a plant pest diagnostic activity. Bulletin OEPP 2010, 40:5-22.
8. Onelge N. Direct nucleotide sequencing of Citrus exocortis viroid (CEV). Turkish Journal of Agriculture and Forestry 1997, 21:419-422.
9. Owens R.A., Flores R., Di Serio F., Li S.-F., Pallas V., Randles J.W., Sano T., Vidalakis G. Viroids. Virus Taxonomy, Classification, Nomenclature of Viruses, Ninth Report of the International Committee on Taxonomy of Viruses 2012, 1221-1234. Elsevier Academic Press, Waltham, MA, USA. A.M.Q. King, M.J. Adams, E.B. Carstens, E.J. Lefkowitz (Eds.).
10. Shamloul A.M., Hadidi A., Zhu S.F., Singh R.P., Sagredo B. Sensitive detection of Potato spindle tuber viroid using RT-PCR and identification of a viroid variant naturally infecting pepino plants. Canadian Journal of Plant Pathology 1997, 19:89-96.
11. Singh R.P., Ready K.F.M., Nie X. Biology. Viroids 2003, 30-48. CSIRO Publishing, Collingwood, Australia. A. Hadidi, R. Flores, J.W. Randles, J.S. Semancik (Eds.).
12. Spieker R.L. A viroid from Brunfelsia undulata closely related to the Columnea latent viroid. Archives of Virology 1996, 141:1823-1832.
13. Verhoeven J.Th.J., Botermans M., Meekes E.T.M., Roenhorst J.W. Tomato apical stunt viroid in the Netherlands: most prevalent pospiviroid in ornamentals and first outbreak in tomatoes. European Journal of Plant Pathology 2012, 133:803-810.
14. Verhoeven J.Th.J., Jansen C.C.C., Botermans M., Roenhorst J.W. Epidemiological evidence that vegetatively propagated, solanaceous plant species act as sources of Potato spindle tuber viroid inoculum for tomato. Plant Pathology 2010, 59:3-12.
15. Verhoeven J.Th.J., Jansen C.C.C., Botermans M., Roenhorst J.W. First report of Iresine viroid 1 in Celosia plumosa in the Netherlands. Plant Disease 2010, 94:920.
16. Verhoeven J.Th.J., Jansen C.C.C., Roenhorst J.W., Flores R., De La Peña M. Pepper chat fruit viroid: biological and molecular properties of a proposed new species of the genus Pospiviroid. Virus Research 2009, 144:209-214.
17. Verhoeven J.Th.J., Jansen C.C.C., Willemen T.M., Kox L.F.F., Owens R.A., Roenhorst J.W. Natural infections of tomato by Citrus exocortis viroid, Columnea latent viroid, Potato spindle tuber viroid and Tomato chlorotic dwarf viroid. European Journal of Plant Pathology 2004, 110:823-831.
18. Weller S.A., Elphinstone J.G., Smith N.C., Boonham N., Stead D.E. Detection of Ralstonia solanacearum strains with a quantitative, multiplex, real-time fluorogenic PCR (TaqMan) Assay. Applied and Environment Microbiology 2000, 66:2853-2858.