Development and Evaluation of a High Density Genotyping ‘Axiom_Arachis’ Array with 58 K SNPs for Accelerating Genetics and Breeding in Groundnut

• DOI: 10.1038/srep40577
• Publication Date: 2017-01-16T11:08:45Z
• Authors: Manish K. Pandey; Gaurav Agarwal; Sandip M. Kale; Josh Clevenger; Spurthi N. Nayak; Manda Sriswathi; Annapurna Chitiki...; Carolina Chavarro; Xiaoping Chen; Hari D. Upadhyaya; Manish K. Vishwak...; Soraya Leal-Bertioli; Xuanqiang Liang; David J. Bertioli; Baozhu Guo; Scott A. Jackson; Peggy Ozias-Akins; Rajeev K. Varshney
• Keywords: SNP genotyping; SNP array; Arachis; Tag SNP

Abstract Single nucleotide polymorphisms (SNPs) are the most abundant DNA sequence variation in genomes which can be used to associate genotypic phenotype. Therefore, availability of a high-density SNP array with uniform genome coverage advance genetic studies and breeding applications. Here we report development ‘Axiom _Arachis ’ 58 K SNPs its utility groundnut diversity study. In this context, from total 163,782 derived resequencing RNA-sequencing 41 accessions wild diploid ancestors, 58,233 unique informative were selected for developing array. addition cultivated groundnuts ( Arachis hypogaea ), fair representation was kept other diploids A. duranensis, stenosperma, cardenasii, magna batizocoi ). Genotyping ‘Reference Set’ containing 300 genotypes identified 44,424 polymorphic analysis provided in-depth insights into architecture material. The will accelerate process high resolution trait genetics molecular groundnut.