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Construction of a genetic map based on high-throughput SNP genotyping and genetic mapping of a TuMV resistance locus in Brassica rapa

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Abstract

Brassica rapa is a member of the Brassicaceae family and includes vegetables and oil crops that are cultivated worldwide. The introduction of durable resistance against turnip mosaic virus (TuMV) into agronomically important cultivars has been a significant challenge for genetic and horticultural breeding studies of B. rapa. Based on our previous genome-wide analysis of DNA polymorphisms between the TuMV-resistant doubled haploid (DH) line VC40 and the TuMV-susceptible DH line SR5, we constructed a core genetic map of the VCS-13M DH population, which is composed of 83 individuals derived from microspore cultures of a F1 cross between VC40 and SR5, by analyzing the segregation of 314 sequence-characterized genetic markers. The genetic markers correspond to 221 SNPs and 31 InDels of genes as well as 62 SSRs, covering 1,115.9 cM with an average distance of 3.6 cM between the adjacent marker loci. The alignment and orientation of the constructed map showed good agreement with the draft genome sequence of Chiifu, thus providing an efficient strategy to map genic sequences. Using the genetic map, a novel dominant TuMV resistance locus (TuMV-R) in the VCS-13M DH population was identified as a 0.34 Mb region in the short arm of chromosome A6 in which four CC–NBS–LRR resistance genes and two pathogenesis-related-1 genes reside. The genetic map developed in this study can play an important role in the genetic study of TuMV resistance and the molecular breeding of B. rapa.

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Acknowledgments

This work was supported by grants to HJY from The Catholic University of Korea (M-2010-B0002-00157), the Next-Generation Biogreen21 program (PJ008019), and the National Research Foundation of Korea (2011–0013214).

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Authors and Affiliations

  1. Department of Life Science, The Catholic University of Korea, Bucheon, 420-743, Korea

    Hee Chung, Young-Min Jeong & Hee-Ju Yu

  2. Department of Bioscience and Bioinformatics, College of Natural Sciences, Myongji University, Yongin, 449-728, Korea

    Jeong-Hwan Mun

  3. Bio-Breeding Institute, Anseong, 456-831, Korea

    Soo-Seong Lee

  4. Korean Bioinformation Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, 305-806, Korea

    Won-Hyong Chung

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  1. Hee Chung
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  2. Young-Min Jeong
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Correspondence to Hee-Ju Yu.

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Communicated by S. Hohmann.

H. Chung, Y.-M. Jeong, and J.-H. Mun contributed equally to this work.

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Chung, H., Jeong, YM., Mun, JH. et al. Construction of a genetic map based on high-throughput SNP genotyping and genetic mapping of a TuMV resistance locus in Brassica rapa . Mol Genet Genomics 289, 149–160 (2014). https://doi.org/10.1007/s00438-013-0798-9

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