Development and Evaluation of an Axiom TM 60K SNP Array for Almond (Prunus dulcis)

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 accessi...

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Detalles Bibliográficos
Autores: Duval, Henri|||0000-0001-9980-8664, Coindre, Eva|||0000-0001-5544-3691, Ramos Onsins, Sebastián Ernesto|||0000-0002-1776-140X, Alexiou, Konstantinos G.|||0000-0003-0121-9517, Rubio-Cabetas, Maria J.|||0000-0002-3455-0145, Martínez-García, Pedro J.|||0000-0002-7647-5235, Wirthensohn, Michelle|||0000-0003-1174-6580, Dhingra, Amit|||0000-0002-4464-2502, Samarina, Anna, Arús i Gorina, Pere|||0000-0003-0939-8038
Tipo de recurso: artículo
Fecha de publicación:2023
País:España
Institución:Universitat Autònoma de Barcelona
Repositorio:Dipòsit Digital de Documents de la UAB
Idioma:inglés
OAI Identifier:oai:ddd.uab.cat:270865
Acceso en línea:https://ddd.uab.cat/record/270865
https://dx.doi.org/urn:doi:10.3390/plants12020242
Access Level:acceso abierto
Palabra clave:Prunus dulcis
Prunus persica
SNP
Axiom array
Genotyping
Descripción
Sumario: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.

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