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Sclerotinia stem rot (SSR) caused by the necrotrophic fungus  Sclerotinia sclerotiorum  is a major disease in rapeseed ( Brassica napus ) worldwide. Breeding for SSR resistance in  B. napus , as in other crops, relies only on germplasms with quantitative resistance genes. A better understanding of the genetic basis for SSR resistance in  B. napus  thus holds promise for the genetic improvement of disease resistance. In the present study, a genome-wide association study (GWAS) for SSR resistance in  B. napus  were performed using an association panel of 448 accessions genotyped with the  Brassica  60K Infinium ®  single-nucleotide polymorphism (SNP) array. A total of 26 SNPs corresponding to three loci,  DSRC4 ,  DSRC6 , and  DSRC8  were associated with SSR resistance. Haplotype analysis showed that the three favorable alleles for SSR resistance exhibited cumulative effects. After aligning SSR resistance quantitative trait loci (QTL) identified in the present and previous studies to the  B. napus  reference genome, one locus ( DSRC6 ) was found to be located within the confidence interval of a QTL identified in previous QTL mapping studies and another two loci ( DSRC4  and  DSRC8 ) were considered novel loci for SSR resistance. A total of 39 candidate genes were predicted for the three loci based on the GWAS combining with the differentially expressed genes identified in previous transcriptomics analyses.

Genome-wide Association Study Identifies New Loci for Resistance to Sclerotinia Stem Rot in Brassica napus