Development and Evaluation of an AxiomTM 60K SNP Array for Almond (Prunus dulcis)
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Author
Duval, Henri
Coindre, Eva
Ramos-Onsins, Sebastian E.
Rubio-Cabetas, Maria J.
Martínez-García, Pedro J.
Wirthensohn, Michelle
Dhingra, Amit
Samarina, Anna
Arús, Pere
Publication date
2023-01-05ISSN
2223-7747
Abstract
A high-density single nucleotide polymorphism (SNP) array is essential to enable faster progress in plant breeding for new cultivar development. In this regard, we have developed an Axiom 60K almond SNP array by resequencing 81 almond accessions. For the validation of the array, a set of 210 accessions were genotyped and 82.8% of the SNPs were classified in the best recommended SNPs. The rate of missing data was between 0.4% and 2.7% for the almond accessions and less than 15.5% for the few peach and wild accessions, suggesting that this array can be used for peach and interspecific peach × almond genetic studies. The values of the two SNPs linked to the RMja (nematode resistance) and SK (bitterness) genes were consistent. We also genotyped 49 hybrids from an almond F2 progeny and could build a genetic map with a set of 1159 SNPs. Error rates, less than 1%, were evaluated by comparing replicates and by detection of departures from Mendelian inheritance in the F2 progeny. This almond array is commercially available and should be a cost-effective genotyping tool useful in the search for new genes and quantitative traits loci (QTL) involved in the control of agronomic traits.
Document Type
Article
Document version
Published version
Language
English
Subject (CDU)
633 - Field crops and their production
Pages
12
Publisher
MDPI
Is part of
Plants
Citation
Duval, Henri, Eva Coindre, Sebastian E. Ramos-Onsins, Konstantinos G. Alexiou, Maria J. Rubio-Cabetas, Pedro J. Martínez-García, Michelle Wirthensohn, Amit Dhingra, Anna Samarina, and Pere Arús. 2023. "Development And Evaluation Of An Axiomtm 60K SNP Array For Almond (Prunus Dulcis)". Plants 12 (2): 242. doi:10.3390/plants12020242.
Program
Genòmica i Biotecnologia
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- ARTICLES CIENTÍFICS [2555]
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