A DNA based method to detect the grapevine root-rotting fungus Roesleria subterranea in soil and root samples

Phytopathologia Mediterranea

Volumn 48, Issue 1, 2009, Pages 59-72

  Neuhauser, Sigrid ^a   Huber, Lars ^b   Kirchmair, Martin ^a  

^a UNIVERSITY OF INNSBRUCK   (Austria)

^b Forschungsanstalt Geisenheim   (Germany)

Author keywords

DNA extraction; Grapevine dieback; Root rot; Soil borne pathogen; Vitis sp.

Indexed keywords

FUNGI; VITACEAE; VITIS; VITIS SP.;

EID: 67650644862     PISSN: 00319465     EISSN: 15932095     Source Type: Journal    
DOI: None     Document Type: Article

References (44)

1. Alabouvette C., Y. Couteaudier and J. Louvet, 1982. Comparaison de la réceptivité de différents sols et substrats de culture aux fusarioses vasculaires. Agronomie 2, 1-6.
2. Beckwith A.M., 1924. The life history of the grape root rot fungus Roesleria hypogaea Thüm. et Pass. Journal of Agricultural Research 27, 609-616.
3. Berthelet M., L.G. Whyte and C.W. Greer, 1996. Rapid, direct extraction of DNA from soils for PCR analysis using polyvinylpolypyrrolidone spin columns. FEMS Microbiology Letters 138, 17-22.
4. Boyd S.A. and M. Mortland, 1990. Enzyme interactions with clays and clay-organic matter complexes. In: Soil Biochemistry Vol. 6 (J.M. Bollag, G. Strotzky, ed.), Marcel Dekker, Inc., New York, NY, USA, 1-28.
5. Cullen D.W. and P.R. Hirsch, 1998. Simple and rapid method for direct extraction of microbial DNA from soil for PCR. Soil Biology and Biochemistry 30, 983-993.
6. Damm U. and P. Fourie, 2005. A cost-effective protocol for molecular detection of fungal pathogens in soil. South African Journal of Science 101, 135-139.
7. Gerrits Van Den Ende A.H.G. and G.S. De Hoog, 1999. Variability and molecular diagnostics of the neurotropic species Cladophialophora bantiana. Studies in Mycology 43, 151-162.
8. Herrera A. and C.S. Cockell, 2007. Exploring microbial diversity in volcanic environments: a review of methods in DNA extraction. Journal of Microbiological Methods 70, 1-12.
9. Höfer M., 1993. Untersuchungen über Roesleria hypogaea Thym. & Pass. als Erreger des Wurzelschimmels der Weinrebe. Geisenheimer Berichte 13, 135 pp.
10. Huang P.M., 1990. Role of soil minerals in transformations of natural organics and xenobiotics in soil. In: Soil Biochemistry, Vol. 6 (J.M. Bollag, G. Stotzky, ed.), Marcel Dekker, New York, NY, USA, 29-115.
11. Huber L., 2007. Schaderreger im Wurzelraum von Reben (Vitis spp.), Vorkommen, Wirkung, Interaktionen - und Möglichkeiten zu deren Kontrolle durch Maßnahmen des Integrated Pest Management (IPM). PhD thesis, Johannes Gutenberg University, Mainz, Germany. 460 pp.
12. Huber L., G. Eisenbeis, M. Hoffmann, S. Neuhauser, M. Porten and E.H. Rühl, 2006a. Wurzelschimmel - verborgene Gefahr im Untergrund. Die Winzer-Zeitschrift 4, 34-35.
13. Huber L., G. Eisenbeis, M. Hoffmann, S. Neuhauser, M. Porten and E.H. Rühl, 2006b. Die Bekämpfung des Wurzelschimmels. Die Winzer-Zeitschrift 5, 36-37.
14. Huber L., G. Eisenbeis, M. Hoffmann, E.H. Rühl, S. Neuhauser and M. Porten, 2006c. Wurzelschimmelerreger Roesleria subterranea (Weinm.) Redhead: Absterbeerscheinungen und Kümmerwuchs - Gefahr im Verborgenen. Das Deutsche Weinmagazin 6, 25-31.
15. Huber L., G. Eisenbeis, M. Kirchmair, S. Neuhauser, M. Porten, E. Rühl and A. Forneck, 2006d. Rebensterben durch Wurzelschimmel. Der Winzer 62(5), 22-24.
16. Ivarson K.C., M. Schnitzer and J. Cortez, 1982. The biodegradability of nucleic acid bases adsorbed on inorganic and organic soil components. Plant and Soil 64, 343-353.
17. Janvier C., F. Villeneuve, C. Alabouvette, V. Edel-Hermann, T. Mateille and C. Steinberg, 2007. Soil health through soil disease suppression: which strategy from descriptors to indicators? Soil Biology and Biochemistry 39, 1-23.
18. Kirchmair M., S. Neuhauser, W. Buzina and L. Huber, 2008. The taxonomic position of Roesleria subterranea. Mycological Research 112, 1210-1219.
19. Lakay F., A. Botha and B. Prior, 2007. Comparative analysis of environmental DNA extraction and purification methods from different humic acid-rich soils. Journal of Applied Microbiology 102, 265-273.
20. Längle T., B. Pernfuss, C. Seger and H. Strasser, 2005. Field efficacy evaluation of Beauveria brongniartii against Melolontha melolontha in potato cultures. Sydowia 57, 54-93.
21. Levy-Booth D.J., R.G. Campbell, R.H. Gulden, M.M. Hart, J.R. Powell, J.N. Klironomos, K.P. Pauls, C.J. Swanton, J.T. Trevors and K.E. Dunfield, 2007. Cycling of extracellular DNA in the soil environment. Soil Biology and Biochemistry 39, 2977-2991.
22. Lloyd-Jones G. and D.W.F. Hunter, 2001. Comparison of rapid DNA extraction methods applied to contrasting New Zealand soils. Soil Biology and Biochemistry 33, 2053-2059.
23. Martin-Laurent F., L. Philippot, S. Hallet, R. Chaussod, J.C. Germon, G. Soulas and G. Catroux, 2001. DNA extraction from soils: old bias for new microbial diversity analysis methods. Applied and Environmental Microbiology 67, 2354-2359.
24. Miller D.N., J.E. Bryant, E.L. Madsen and W.C. Ghiorse, 1999. Evaluation and optimization of DNA extraction and purification procedures for soil and sediment samples. Applied and Environmental Microbiology 65, 4715-4724.
25. Mumford R., N. Boonham, J. Tomlinson and I. Barker, 2006. Advances in molecular phytodiagnostics: new solutions for old problems. European Journal of Plant Pathology 116, 1-19.
26. Neuhauser S., C. Lass-Flörl, W. Buzina, A. Mayr and M. Kirchmair, 2008. A rapid DNA extraction protocol for a PCR-based detection of Histoplasma capsulatum in bat guano. Sydowia 60, 123-130.
27. Paget E., L.J. Monrozier and P. Simonet, 1992. Adsorption of DNA on clay minerals: protection against DNase I and influence on gene transfer. FEMS Microbiology Letters 97, 31-39.
28. Pérez-Jiménez R.M., 2006. A review of the biology and pathogenicity of Rosellinia necatrix: the cause of white root rot disease of fruit trees and other plants. Journal of Phytopathology 154, 257-266.
29. Porten M. and L. Huber, 2003. An assessment method for the quantification of Daktulosphaira vitifoliae (Fitch; Hemiptera: Phylloxeridae) populations in the field. Journal of Applied Entomology 127, 157-162.
30. Redhead S.A., 1984. Roeslerina gen. nov. (Caliciales, Caliciaceae), an ally of Roesleria and Coniocybe. Canadian Journal of Botany 62, 2514-2519.
31. Robe P., R. Nalin, C. Capellano, T.M. Vogel and P. Simonet, 2003. Extraction of DNA from soil. European Journal of Soil Biology 39, 183-190.
32. Ruano-Rosa D., L. Schena, A. Ippolito and C.J. Lopez-Herrera, 2007. Comparison of conventional and molecular methods for the detection of Rosellinia necatrix in avocado orchards in southern Spain. Plant Pathology 56, 251-256.
33. Schneegurt M.A., S.Y. Dore and C.F. Kulpa, 2003. Direct extraction of DNA from soils for studies in microbial ecology. Current Issues in Molecular Biology 5, 1-8.
34. Takada Hoshino Y. and N. Matsumoto, 2005. Skim milk drastically improves the efficacy of DNA extraction from Andisol, a vulcanic ash soil. Japan Agricultural Research Quaterly 39, 247-252.
35. Tate R.L., 2000. Soil Microbiology, 2nd ed. John Wiley & Sons, Inc., New York, NY, USA. 508 pp.
36. Tsai Y.-L. and B.H. Olson, 1992. Rapid method for separation of bacterial DNA from humic substances in sediments for polymerase chain reaction. Applied and Environmental Microbiology 58, 2292-2295.
37. Véghelyi K., 1987. A Roesleria pallida (Fries) Sacc. szerpepe a gyümölcsfák fiatlalkori puszulásában. (The role of Roesleria pallida (Fries) Sacc. in the early death of fruit trees). Növényvédelem 23(9), 405-412.
38. Véghelyi K., 1989. The isolation and characteristics of Roesleria hypogaea Thüm. et Pass. Acta Phytopathologica et Entomologica Hungarica 24, 293-299.
39. Volossiouk T., E.J. Robb and R.N. Nazar, 1995. Direct DNA extraction for PCR-mediated assays of soil organisms. Applied and Environmental Microbiology 61, 3972-3976.
40. Ward E., S.J. Foster, B.A. Fraaije and H.A. McCartney, 2004. Plant pathogen diagnostics: immunological and nucleic acid-based approaches. Annals of Applied Biology 145, 1-16.
41. White T.J., T. Bruns, S. Lee and J.W. Taylor, 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: PCR Protocols: A Guide to Methods and Applications (M.A. Innis, D.H. Gelfand, J.J. Sninsky, T.J. White, ed.), Academic Press, Inc., New York, NY, USA, 315-322.
42. Wilson I.G., 1997. Inhibition and facilitation of nucleic acid amplification. Applied and Environmental Microbiology 63, 3741-3751.
43. Winkel-Shirley B., 2002. Biosynthesis of flavonoids and effects of stress. Current Opinion in Plant Biology 5, 218-223.
44. Zhou J., M.A. Bruns and J.M. Tiedje., 1996. DNA recovery from soils of diverse composition. Applied and Environmental Microbiology 62, 316-322.