Genome-wide analysis of Corynespora cassiicola leaf fall disease putative effectors

Lopez David, Ribeiro Sébastien, Label Philippe, Fumanal Boris, Venisse Jean-Stéphane, Kohler Annegret, de Oliveira Ricardo R., Labutti Kurt, Lipzen Anna, Lail Kathleen, Bauer Diane, Ohm Robin, Barry Kerrie W., Spatafora Joseph W., Grigoriev Igor, Martin Francis, Pujade-Renaud Valérie. 2018. Genome-wide analysis of Corynespora cassiicola leaf fall disease putative effectors. Frontiers in Microbiology, 9:276, 21 p.

Quartile : Q1, Sujet : MICROBIOLOGY

Résumé : Corynespora cassiicola is an Ascomycetes fungus with a broad host range and diverse life styles. Mostly known as a necrotrophic plant pathogen, it has also been associated with rare cases of human infection. In the rubber tree, this fungus causes the Corynespora leaf fall (CLF) disease, which increasingly affects natural rubber production in Asia and Africa. It has also been found as an endophyte in South American rubber plantations where no CLF outbreak has yet occurred. The C. cassiicola species is genetically highly diverse, but no clear relationship has been evidenced between phylogenetic lineage and pathogenicity. Cassiicolin, a small glycosylated secreted protein effector, is thought to be involved in the necrotrophic interaction with the rubber tree but some virulent C. cassiicola isolates do not have a cassiicolin gene. This study set out to identify other putative effectors involved in CLF. The genome of a highly virulent C. cassiicola isolate from the rubber tree (CCP) was sequenced and assembled. In silico prediction revealed 2870 putative effectors, comprising CAZymes, lipases, peptidases, secreted proteins and enzymes associated with secondary metabolism. Comparison with the genomes of 44 other fungal species, focusing on effector content, revealed a striking proximity with phylogenetically unrelated species (Colletotrichum acutatum, Colletotrichum gloesporioides, Fusarium oxysporum, nectria hematococca, and Botrosphaeria dothidea) sharing life style plasticity and broad host range. Candidate effectors involved in the compatible interaction with the rubber tree were identified by transcriptomic analysis. Differentially expressed genes included 92 putative effectors, among which cassiicolin and two other secreted singleton proteins. Finally, the genomes of 35 C. cassiicola isolates representing the genetic diversity of the species were sequenced and assembled, and putative effectors identified. At the intraspecific level, effector-based classification was found to be highly consistent with the phylogenomic trees. Identification of lineage-specific effectors is a key step toward understanding C. cassiicola virulence and host specialization mechanisms.

Mots-clés Agrovoc : Hevea brasiliensis, Corynespora cassiicola, génomique, relation hôte pathogène, expression des gènes, effecteur moléculaire

Mots-clés complémentaires : Cassiicoline

Mots-clés libres : Corynespora cassiicola, Hevea brasiliensis, Plant-pathogen interaction, Effectors, Cassiicolin, Genomics, Gene expression

Classification Agris : H20 - Maladies des plantes

Champ stratégique Cirad : Axe 4 (2014-2018) - Santé des animaux et des plantes

Auteurs et affiliations

• Lopez David, Université de Clermont-Ferrand (FRA)
• Ribeiro Sébastien, Université de Clermont-Ferrand (FRA)
• Label Philippe, Université de Clermont-Ferrand (FRA)
• Fumanal Boris, Université de Clermont-Ferrand (FRA)
• Venisse Jean-Stéphane, INRA (FRA)
• Kohler Annegret, INRA (FRA)
• de Oliveira Ricardo R., UEM (BRA)
• Labutti Kurt, United States Department of Energy Joint Genome Institute (USA)
• Lipzen Anna, United States Department of Energy Joint Genome Institute (USA)
• Lail Kathleen, United States Department of Energy Joint Genome Institute (USA)
• Bauer Diane, United States Department of Energy Joint Genome Institute (USA)
• Ohm Robin, United States Department of Energy Joint Genome Institute (USA)
• Barry Kerrie W., United States Department of Energy Joint Genome Institute (USA)
• Spatafora Joseph W., Oregon State University (USA)
• Grigoriev Igor, United States Department of Energy Joint Genome Institute (USA)
• Martin Francis, INRA (FRA)
• Pujade-Renaud Valérie, CIRAD-BIOS-UMR AGAP (FRA) - auteur correspondant

Source : Cirad-Agritrop (https://agritrop.cirad.fr/588476/)

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