High-density genotyping of pea and faba bean diversity panels using exome capture

Abstract

International audienceGenome-wide association studies (GWAS) represent a powerful tool to decipher the geneticdeterminism of complex traits in crop plants and to identify responsible genes. As GWAS require large diversitypanels segregating for the traits of interest, one faba bean and three pea collections were constituted toaddress different questions in the PeaMUST project. The faba bean panel comprises 248 accessions comingfrom five continents and displaying the phenotypic diversity of the species. The first pea collection includes239 accessions that represent the species diversity for aerial and root architecture and for biotic and abioticstress responses. The second and third pea panels were constituted with 300 accessions of cultivated springtype, 396 accessions of winter type, accessions (376 conventional, hr, 20 Hr) respectively. To generate a largenumber of unbiased genetic markers, exome capture [1] was performed by taking advantage of (i)transcriptome sequence resources available for pea [2,3], and (ii) newly developed transcriptome for fababean. The designed probes allowed capturing over 33,000 transcripts in faba bean and 50,000 transcripts inpea. In total, 1.7 and 2.3 million high-quality SNPs have been identified for faba bean and pea, respectively.These markers have been used to assess the genetic structure of the different panels, to perform GWAS fortraits of agricultural interest and to design genotyping by capture experiments to undertake genomic selection[4]. These SNP resources will serve to design genotyping arrays in both crops for further experiments