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Characterization of aphyllophorales causing brown and white rot in woods: Analysis of its restriction polymorphism (PCR/RFLP)

Zaremski Alba, Ducousso Marc, Prin Yves. 2015. Characterization of aphyllophorales causing brown and white rot in woods: Analysis of its restriction polymorphism (PCR/RFLP). Pro Ligno, 11 (1) : pp. 3-11.

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Abstract : Intraspecific polymorphism exists for many fungus species, making their macroscopic identification difficult. Easily usable molecular m arkers providing access to information about variability have boosted the development of fungus diversity analyses. For this study, on wood - decaying Aphyllophorales, the main problem to be solved consisted in detecting any existence of intraspecific polymo rphism in these fungi, in order to complete and clarify their identification. In order to characterize 98 strains in the CIRAD collection, we developed a rapid discriminant analysis method based on analysing the diversity of partial ribosomal DNA sequences independently of the macro - and microscopic morphological traits of the fruiting bodies required for the identification of genera and species. Adaptation of the Qiagen kit for higher plants made it possible to extract fungal DNA from a few milligrams of m ycelium; with most of the strains studied, these DNA extracts enabled us to obtain an ITS amplificate of a size varying from 550 to 895 base pairs. We also found a large margin of error, of around 12%, for the DNA molecular weight readings on gel, leading us to prefer direct sequencing for precise determination of amplificate lengths. PCR - RFLP showed a good ability to characterize a given strain by providing different profiles obtained using several restriction enzymes. We thus demonstrated that studying IT S diversity using PCR - RFLP is a discriminant method making it possible to distinguish between strains. However, this method calls for the compilation of a database whose use remains partly subjected to interpretation, which cannot be used to work on a mate rial unknown to the database . This simple, rapid technique is efficient and perfectly suitable for monitoring known strains in controlled trials. (Résumé d'auteur)

Mots-clés Agrovoc : Bois, Champignon pathogène, Carie du bois, Identification, Marqueur génétique, ADN, Polymorphisme

Mots-clés complémentaires : Pourriture fibreuse, Pourriture cubique

Mots-clés libres : PCR-RFLP, Wood fungi, Fibrous rot, Cubic rot, Ribosomal DNA, Molecular taxonomy, Internal transcribed spacer

Classification Agris : K50 - Processing of forest products
F70 - Plant taxonomy and geography

Champ stratégique Cirad : Axe 2 (2014-2018) - Valorisation de la biomasse

Auteurs et affiliations

  • Zaremski Alba, CIRAD-BIOS-UMR AGAP (FRA)
  • Ducousso Marc, CIRAD-BIOS-UMR LSTM (FRA)
  • Prin Yves, CIRAD-BIOS-UMR LSTM (FRA) ORCID: 0000-0002-3706-0045

Source : Cirad-Agritrop (https://agritrop.cirad.fr/576527/)

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