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


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2019-12

AUTHORS

Rawnak Laila, Jong-In Park, Arif Hasan Khan Robin, Sathishkumar Natarajan, Harshavardhanan Vijayakumar, Kenta Shirasawa, Sachiko Isobe, Hoy-Taek Kim, Ill-Sup Nou

ABSTRACT

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 F2 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 F2 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. More... »

PAGES

13

References to SciGraph publications

  • 2009-09. Integrated Control of Clubroot in JOURNAL OF PLANT GROWTH REGULATION
  • 2004-02. A novel locus for clubroot resistance in Brassica rapa and its linkage markers in THEORETICAL AND APPLIED GENETICS
  • 1998-12. Linkage analysis of RFLP markers for clubroot resistance and pigmentation in Chinese cabbage (Brassica rapa ssp. pekinensis) in EUPHYTICA
  • 2017-11. Korean Brassica oleracea germplasm offers a novel source of qualitative resistance to blackleg disease in EUROPEAN JOURNAL OF PLANT PATHOLOGY
  • 2011-10. The genome of the mesopolyploid crop species Brassica rapa in NATURE GENETICS
  • 2009-09. Status and Perspectives of Clubroot Resistance Breeding in Crucifer Crops in JOURNAL OF PLANT GROWTH REGULATION
  • 1964-04. Clubroot-resistance in turnips (Brassica campestris L.) in EUPHYTICA
  • 2009-09. The Occurrence and Economic Impact of Plasmodiophora brassicae and Clubroot Disease in JOURNAL OF PLANT GROWTH REGULATION
  • 2003-10. Identification of two loci for resistance to clubroot (Plasmodiophora brassicae Woronin) in Brassica rapa L. in THEORETICAL AND APPLIED GENETICS
  • 2008-09. Mapping of isolate-specific QTLs for clubroot resistance in Chinese cabbage (Brassica rapa L. ssp. pekinensis) in THEORETICAL AND APPLIED GENETICS
  • 1999-06. Variation in Virulence of Plasmodiophora brassicae in Japan Tested with Clubroot-resistant Cultivars of Chinese Cabbage (Brassica rapa L. ssp. pekinensis) in EUROPEAN JOURNAL OF PLANT PATHOLOGY
  • 2004-05. SCAR and CAPS mapping of CRb, a gene conferring resistance to Plasmodiophora brassicae in Chinese cabbage (Brassica rapa ssp. pekinensis) in THEORETICAL AND APPLIED GENETICS
  • 2017-12. Genotyping-by-sequencing reveals three QTL for clubroot resistance to six pathotypes of Plasmodiophora brassicae in Brassica rapa in SCIENTIFIC REPORTS
  • 2012-04. Fast gapped-read alignment with Bowtie 2 in NATURE METHODS
  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1186/s12870-018-1615-8

    DOI

    http://dx.doi.org/10.1186/s12870-018-1615-8

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1111268259

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/30621588


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