Allele mining of eukaryotic translation initiation factor genes in Prunus for the identification of new sources of resistance to sharka

Tricon D. Faivre d’Arcier J. Eyquard J.-P. Liu S. Decroocq S. Chague A. Liu W. Balakishiyeva G. Mammadov A. Turdiev T. Kostritsyna T. Asma B.M. Akparov Z. Decroocq V.
December 2023 Nature Research

Scientific Reports
2023 #13 Issue 1

Members of the eukaryotic translation initiation complex are co-opted in viral infection, leading to susceptibility in many crop species, including stone fruit trees (Prunus spp.). Therefore, modification of one of those eukaryotic translation initiation factors or changes in their gene expression may result in resistance. We searched the crop and wild Prunus germplasm from the Armeniaca and Amygdalus taxonomic sections for allelic variants in the eIF4E and eIFiso4E genes, to identify alleles potentially linked to resistance to Plum pox virus (PPV). Over one thousand stone fruit accessions (1397) were screened for variation in eIF4E and eIFiso4E transcript sequences which are in single copy within the diploid Prunus genome. We identified new alleles for both genes differing from haplotypes associated with PPV susceptible accessions. Overall, analyses showed that eIFiso4E is genetically more constrained since it displayed less polymorphism than eIF4E. We also demonstrated more variations at both loci in the related wild species than in crop species. As the eIFiso4E translation initiation factor was identified as indispensable for PPV infection, a selection of ten different eIFiso4E haplotypes along 13 accessions were tested by infection with PPV and eight of them displayed a range of reduced susceptibility to resistance, indicating new potential sources of resistance to sharka.

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INRAE, UMR 1332 BFP, Virologie, 71 Avenue Edouard Bourlaux, Villenave d’Ornon, 33882, France
UMR 1332 BFP, CS20032, Université de Bordeaux, Villenave d’Ornon, 33882, France
Liaoning Institute of Pomology, Tiedong Street, Xiongyue Town, Bayuquan District, Liaoning, Yingkou, 115009, China
Institute of Molecular Biology and Biotechnologies, Ministry of Science and Education, 11 Izzat Nabiev Str., Baku, 1073, Azerbaijan
Institute of Plant Biology and Biotechnology, Timiryazev Str. 45, Almaty, 050040, Kazakhstan
International Higher School of Medicine, 1F Intergelpo Street, Bishkek, 720054, Kyrgyzstan
Department of Horticulture, Malatya Turgut Ozal University, Malatya, 44210, Turkey
Genetic Resources Institute of ANAS, Azadlig Ave. 155, Baku, 1106, Azerbaijan
INRAE Unité de Recherches 1052 GAFL, 67 allee des Chênes, Montfavet, 84143, France
INRAE Unité Expérimentale Domaine des Jarres, Toulenne, 33210, France

INRAE
UMR 1332 BFP
Liaoning Institute of Pomology
Institute of Molecular Biology and Biotechnologies
Institute of Plant Biology and Biotechnology
International Higher School of Medicine
Department of Horticulture
Genetic Resources Institute of ANAS
INRAE Unité de Recherches 1052 GAFL
INRAE Unité Expérimentale Domaine des Jarres

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