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Background   Plasmodiophora brassicae  is a soil-borne plant pathogen that causes clubroot disease, which results in crop yield loss in cultivated  Brassica  species. Here, we investigated whether a quantitative trait locus (QTL) in  B. rapa  might confer resistance to a Korean  P. brassicae  pathotype isolate, Seosan. We crossed resistant and susceptible parental lines and analyzed the segregation pattern in a F 2  population of 348 lines. We identified and mapped a novel clubroot resistance QTL using the same mapping population that included susceptible Chinese cabbage and resistant turnip lines. Forty-five resistant and 45 susceptible F 2  lines along with their parental lines were used for double digest restriction site-associated DNA sequencing (ddRAD-seq). High resolution melting (HRM)-based validation of SNP positions was conducted to confirm the novel locus.    Results  A 3:1 ratio was observed for resistant: susceptible genotypes, which is in accordance with Mendelian segregation. ddRAD-seq identified a new locus,  CRs , on chromosome A08 that was different from the clubroot resistance (CR) locus,  Crr1 . HRM analysis validated SNP positions and constricted  CRs  region. Four out of seventeen single nucleotide polymorphisms (SNPs) positions were within a 0.8-Mb region that included three NBS-LRR candidate genes but not  Crr1 .    Conclusion  The newly identified  CRs  locus is a novel clubroot resistance locus, as the cultivar Akimeki bears the previously known  Crr1  locus but remains susceptible to the Seosan isolate. These results could be exploited to develop molecular markers to detect Seosan - resistant genotypes and develop resistant Chinese cabbage cultivars.    Electronic supplementary material  The online version of this article (10.1186/s12870-018-1615-8) contains supplementary material, which is available to authorized users.

Mapping of a novel clubroot resistance QTL using ddRAD-seq in Chinese cabbage (Brassica rapa L.)