Genetic diversity of Rhizoctonia solani associated with potato tubers in France

Mycologia

Volumn 103, Issue 6, 2011, Pages 1230-1244

  Fiers, Marie ^a   Edel Hermann, Veronique ^a   Héraud, Cécile ^a   Gautheron, Nadine ^a   Chatot, Catherine ^b   Hingrat, Yves Le ^c   Bouchek Mechiche, Karima ^d   Steinberg, Christian ^a  

^a UNIVERSITÉ DE BOURGOGNE   (France)

^b Germicopa R and D   (France)

^c Bretagne Plants Roudouhir   (France)

^d CEMAGREF   (France)

Author keywords

Amplified fragment length polymorphism; Anastomosis group; Elongation factor; Internal transcribed spacer; Polymorphic site; Potato; Rhizoctonia solani

Indexed keywords

RIBOSOMAL SPACER DNA;

CLONAL ORGANISM; CROP YIELD; FUNGAL DISEASE; GENETIC VARIATION; PATHOGENICITY; PHYLOGENETICS; POLYMERIZATION; POTATO; SEED PRODUCTION;

AMPLIFIED FRAGMENT LENGTH POLYMORPHISM; ARTICLE; FRANCE; GENETIC VARIABILITY; GENETICS; HYPHOMYCETES; MICROBIOLOGY; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYLOGENY; POTATO;

AMPLIFIED FRAGMENT LENGTH POLYMORPHISM ANALYSIS; BASE SEQUENCE; DNA, RIBOSOMAL SPACER; FRANCE; GENETIC VARIATION; MOLECULAR SEQUENCE DATA; PHYLOGENY; RHIZOCTONIA; SOLANUM TUBEROSUM;

FRANCE;

EID: 82455175368     PISSN: 00275514     EISSN: 15572536     Source Type: Journal    
DOI: 10.3852/10-231     Document Type: Article

References (41)

1. Almeida AMR, Abdelnoor RV, Calvo ES, Tessnman D, Yorinori JT. 2001. Genotypic diversity among Brazilian isolates of Sclerotium rolfsii. J Phytopathol Z 149:493-502.
2. Andersen B, Sorensen JL, Nielsen KF, van den Ende BG, de Hoog S. 2009. A polyphasic approach to the taxonomy of the Alternaria infectoria species group. Fungal Genet Biol 46:642-656.
3. Anees M, Tronsmo A, Edel-Hermann V, Gordon Hjeljord L, Héraud C, Steinberg C. 2010. Characterization of field isolates of Trichoderma antagonistic against Rhizoctonia solani. Fungal Biol 114:691-701.
4. Campion C, Chatot C, Perraton B, Andrivon D. 2003. Anastomosis groups, pathogenicity and sensitivity to fungicides of Rhizoctonia solani isolates collected on potato crops in France. Eur J Plant Pathol 109:983-992.
5. Carling DE. 1996. Grouping in Rhizoctonia solani by hyphal anastomosis reaction. In: Sneh B, Jabaji-Hare S, Neate S, Dijst G, eds. Rhizoctonia species: taxonomy, molecular biology, ecology, pathology and disease control. Dordrecht, the Netherlands: Kluwer Academic Publishers. p 37-47.
6. Carling DE., Baird RE, Gitaitis RD, Brainard KA, Kuninaga S. 2002. Characterization of AG-13, a newly reported anastomosis group of Rhizoctonia solani. Phytopathology 92:893-899.
7. Ceresini PC, Shew HD, James TY, Vilgalys RJ, Cubeta MA. 2007. Phylogeography of the Solanaceae-infecting Basidiomycota fungus Rhizoctonia solani AG-3 based on sequence analysis of two nuclear DNA loci. Bmc Evol Biol 7:163.
8. El Bakali AM, Martin MP. 2006. Black scurf of potato. Mycologist 20:130-132.
9. Fatehi J, Bridge P. 1998. Detection of multiple rRNA-ITS regions in isolates of Ascochyta. Mycol Res 102:762-766.
10. Fiers M, Chatot C, Edel-Hermann V, Le Hingrat Y, Yanougo AK, Gautheron N, Guillery E, Alabouvette C, Steinberg C. 2010. Diversity of microorganisms associated with atypical superficial blemishes of potato tubers and pathogenicity assessment. Eur J Plant Pathol 128:353-371.
11. Galtier N, Gouy M, Gautier C. 1996. SEAVIEW and PHYLO_WIN: two graphic tools for sequence alignment and molecular phylogeny. Comput Appl Biosci 12:543-548.
12. Gardes M, Bruns TD. 1993. ITS primers with enhanced specificity for Basidiomycetes-application to the identification of mycorrhizae and rusts. Mol Ecol 2:113-118.
13. Geiser DM, Jimenez-Gasco MD, Kang SC, Makalowska I, Veeraraghavan N, Ward TJ, Zhang N, Kuldau GA, O'Donnell K. 2004. FUSARIUM-ID v. 1.0: a DNA sequence database for identifying Fusarium. Eur J Plant Pathol 110:473-479.
14. Guillemaut C, Edel-Hermann V, Camporota P, Alabouvette C, Richard-Molard M, Steinberg C. 2003. Typing of anastomosis groups of Rhizoctonia solani by restriction analysis of ribosomal DNA. Can J Microbiol 49:556-568.
15. Justesen AF, Yohalem D, Bay A, Nicolaisen M. 2003. Genetic diversity in potato field populations of Thanatephorus cucumeris AG-3, revealed by ITS polymorphism and RAPD markers. Mycol Res 107:1323-1331.
16. Kimura M. 1980. A simple model for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16:111-120.
17. Kullnig-Gradinger CM, Szakacs G, Kubicek CP. 2002. Phylogeny and evolution of the genus Trichoderma: a multigene approach. Mycol Res 106:757-767.
18. Kuninaga S, Carling DE, Takeuchi T, Yokosawa R. 2000. Comparison of rDNA-ITS sequences between potato and tobacco strains in Rhizoctonia solani AG-3. J Gen Plant Pathol 66:2-11.
19. Kuninaga S,, Yokosawa R. 1984. DNA base sequence homology in Rhizoctonia solani Kuhn IV. Genet Ann Phytopathol Soc Japan 50:322-330.
20. Lehtonen MJ, Ahvenniemi P, Wilson PS, German-Kinnari M, Valkonen JPT. 2008. Biological diversity of Rhizoctonia solani (AG-3) in a northern potato-cultivation environment in Finland. Plant Pathol 57:141-151.
21. McDonald BA. 1997. The population genetics of fungi: tools and techniques. Phytopathology 87:448-453.
22. Mougel C, Thioulouse J, Perriere G, Nesme X. 2002. A mathematical method for determining genome divergence and species delineation using AFLP. Int J Syst Evol Microbiol 52:573-586.
23. Nei M, Li WH. 1979. Mathematical model for studying genetic variation in terms of restriction endonucleases. Proc Natl Acad Sci USA 76:5269-5273.
24. Nilsson RH, Kristiansson E, Ryberg M, Hallenberg N, Larsson KH. 2008. Intraspecific ITS variability in the kingdom Fungi as expressed in the international sequence databases and its implications for molecular species identification. Evol Bioinform 4:193-201.
25. Nitschke E, Nihlgard M, Varrelmann M. 2009. Differentiation of Eleven Fusarium spp. isolated from sugar beet, using restriction fragment analysis of a polymerase chain reaction-amplified translation elongation factor 1 alpha gene fragment. Phytopathology 99:921-929.
26. O'Donnell K, Gueidan C, Sink S, Johnston PR, Crous PW, Glenn A, Riley R, Zitomer NC, Colyer P, Waalwijk C, van der Lee T, Moretti A, Kang S, Kim HS, Geiser DM, Juba JH, Baayen RP, Cromey MG, Bithell S, Sutton DA, Skovgaard K, Ploetz R, Kistler HC, Elliott M, Davis M, Sarver BAJ. 2009. A two-locus DNA sequence database for typing plant and human pathogens within the Fusarium oxysporum species complex. Fungal Genet Biol 46:936-948.
27. Ogoshi A. 1987. Ecology and pathogenicity of anastomosis and intraspecific groups of Rhizoctonia-Solani Kuhn. Annu Rev Phytopathol 25:125-143.
28. Pannecoucque J, Hofte M. 2009. Detection of rDNA ITS polymorphism in Rhizoctonia solani AG 2-1 isolates. Mycologia 101:26-33.
29. Parmeter JRJ. 1970. Rhizoctonia solani: biology and pathology. Berkeley: Univ California Press. 255 p.
30. Perrière G, Gouy M. 1996. www-Query: an online retrieval system for biological sequence banks. Biochimie 78: 364-369.
31. Saitou N, Nei M. 1987. The neighbor joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406-425.
32. Sharon M, Kuninaga S, Hyakumachi M, Naito S, Sneh B. 2008. Classification of Rhizoctonia spp. using rDNA-ITS sequence analysis supports the genetic basis of the classical anastomosis grouping. Mycoscience 49:93-114.
33. Sneath PHA, Sokal RR. 1973. Numerical taxonomy. The principles and practice of numerical classification (A series of books in biology). San Francisco:W.H. Freeman ' Co. xv + 573 p.
34. Thioulouse J, Chessel D, Doledec S, Olivier JM. 1997. ADE- 4: amultivariate analysis and graphical display software. Stat Comput 7:75-83.
35. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. 1997. The Clustal_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25: 4876-4882.
36. Vandepeer Y, Dewachter R. 1994. Treecon for Windows -a software package for the construction and drawing of evolutionary trees for the Microsoft Windows environment. Comput Appl Biosci 10:569-570.
37. Vos P, Hogers R, Bleeker M, Reijans M, Vandelee T, Hornes M, Frijters A, Pot J, Peleman J, Kuiper M, Zabeau M. 1995. AFLP-a new technique for DNA-fingerprinting. Nucleic Acids Res 23:4407-4414.
38. White TJ, Bruns T, Lee S, Taylor J. 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: Innis MA, Gelfand DH, Sninsky JJ, White TJ, eds. PCR protocols: a guide to methods and applications. San Diego: Academic Press. p 315-322.
39. Woodhall JW. 2008. Infection of potato by Rhizoctonia solani: effect of anastomosis group. Plant Pathol 57: 897-905.
40. Woodhall JW., Lees AK, Edwards SG, Jenkinson P. 2007. Characterization of Rhizoctonia solani from potato in Great Britain. Plant Pathol 56:286-295.
41. Yohalem DS, Nielsen K, Nicolaisen M. 2003. Taxonomic and nomenclatural clarification of the onion neckrotting Botrytis species. Mycotaxon 85:175-182.