Blackleg, caused by Leptosphaeria maculans (Desm.) Ces. et de Not., is a major disease of oilseed rape (Brassica napus L.) worldwide. Molecular markers would be useful tools to assist breeding for blackleg resistance. The objective of this study was (i) to map and characterize quantitative trait loci (QTL) for field blackleg resistance in doubled haploid (DH) and F2:3 populations from the cross ‘Darmor’ (resistant) × ‘Samourai’ (susceptible) and (ii) to compare QTL with those previously identified in the cross ‘Darmor‐bzh’ × ‘Yudal’. A total of 134 DH lines and 185 F2:3 families were genotyped with random amplified polymorphic DNA (RAPD) and restriction fragment length polymorphism (RFLP) markers and assessed for a disease index of resistance in 1998 and/or 1999 in one location. Genetic maps derived from the two populations included a total of 257 and 81 markers, respectively. Up to 30% of these markers were common to the Darmor‐bzh × Yudal map previously used. A total of six and four genomic regions were associated with resistance in the DH and F2:3 populations, respectively. They collectively explained 36 to 42% of the variation within each year and population. Three of them were consistent across the two populations derived from Darmor × Samourai cross and expressed dominant or overdominant effects. Four favorable alleles were derived from the susceptible parent. A total of 16 genomic regions were revealed for blackleg resistance in the two crosses Darmor‐bzh × Yudal and Darmor × Samourai studied. Four of them were consistent over the two crosses. The inconsistencies observed between populations and crosses can be explained by different genetic backgrounds and disease infestation levels. For marker‐assisted selection, these results suggest that QTL mapping must be carried out separately for each population.

A repertoire of the genomic regions involved in quantitative resistance to Leptosphaeria maculans in winter oilseed rape was established from combined linkage-based QTL and genome-wide association (GWA) mapping. Linkage-based mapping of quantitative trait loci (QTL) and genome-wide association studies are complementary approaches for deciphering the genomic architecture of complex agronomical traits. In oilseed rape, quantitative resistance to blackleg disease, caused by L. maculans, is highly polygenic and is greatly influenced by the environment. In this study, we took advantage of multi-year data available on three segregating populations derived from the resistant cv Darmor and multi-year data available on oilseed rape panels to obtain a wide overview of the genomic regions involved in quantitative resistance to this pathogen in oilseed rape. Sixteen QTL regions were common to at least two biparental populations, of which nine were the same as previously detected regions in a multi-parental design derived from different resistant parents. Eight regions were significantly associated with quantitative resistance, of which five on A06, A08, A09, C01 and C04 were located within QTL support intervals. Homoeologous Brassica napus genes were found in eight homoeologous QTL regions, which corresponded to 657 pairs of homoeologous genes. Potential candidate genes underlying this quantitative resistance were identified. Genomic predictions and breeding are also discussed, taking into account the highly polygenic nature of this resistance.