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QTL mapping of resistance to the Cucumber mosaic virus P1 strain in pepper using a genotyping-by-sequencing analysis

  • Research Report
  • Genetics and Breeding
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Abstract

Cucumber mosaic virus (CMV), a member of the Cucumovirus genus in the family Bromoviridae, is a frequently occurring virus in pepper worldwide. A broad host range, which includes many weed species and a large number of insects, means it is difficult to control CMV in the field. CMV resistance has been reported in Capsicum spp. In Korea, the C. annuum ‘Bukang’ cultivar is resistant to the CMVFNY and CMVKorean strains; however, a new strain (CMVP1) is able to infect the resistant cultivars. Therefore, it is necessary to pursue CMVP1 resistance in pepper breeding. In this study, we surveyed the quantitative trait loci (QTL) for resistance to CMVP1 using a single-seed-descent (SSD) F3 segregating population derived from a cross between a resistant line, ‘A1’, and a susceptible line, ‘2602.’ A total of 174 plants were evaluated for resistance to CMVP1 at 30 days after mechanical inoculation, with phenotypes confirmed by reverse transcription PCR. The number of resistant and susceptible plants was 88 and 86, respectively. Of these, 96 individuals including 48 resistant lines and 48 susceptible lines were used for a genotyping-by-sequencing (GBS) analysis. Approximately 19,000 single-nucleotide polymorphism (SNP) genotypes were obtained. Using the SNP data, a pepper genetic linkage map consisting of 906 SNP markers was constructed. The map showed 12 linkage groups with a total linkage distance of 1,272.9 cM. QTL analysis using a composite interval mapping (CIM) method revealed that two QTLs, cmvP1-5.1 and cmvP1-10.1, located on chromosomes 5 and 10, respectively, had R 2 (coefficient of determination) values of 17.81% and 22.78%. This information will be helpful for developing SNP markers linked to CMVP1-resistant QTLs and for developing new CMVP1-resistant pepper cultivars.

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Authors and Affiliations

  1. Research and Development Center, ASIA SEED, Icheon, 17414, Korea

    Min Ho Eun

  2. Gene Engineering Division, Department of Agricultural Biotechnology, National Institute of Agricultural Sciences, Rural Development Administration, Jeonju, 54874, Korea

    Jung-Heon Han

  3. Research and Development Unit, Pepper and Breeding Institute, Business Incubator, College of Agricultural and Life Sciences, Seoul National University, Suwon, 16614, Korea

    Jae Bok Yoon

  4. Department of Horticulture, Chonbuk National University, Jeonju, 54896, Korea

    Jundae Lee

Authors
  1. Min Ho Eun
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  2. Jung-Heon Han
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  3. Jae Bok Yoon
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  4. Jundae Lee
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Correspondence to Jundae Lee.

Electronic supplementary material

13580_2016_128_MOESM1_ESM.xlsx

Appearances of plants resistant (A) and susceptible (B and C) to the CMVP1 strain. A, normal and non-infected leaves; B, mosaic symptoms; C, severe mosaic symptoms.

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Eun, M.H., Han, JH., Yoon, J.B. et al. QTL mapping of resistance to the Cucumber mosaic virus P1 strain in pepper using a genotyping-by-sequencing analysis. Hortic. Environ. Biotechnol. 57, 589–597 (2016). https://doi.org/10.1007/s13580-016-0128-3

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  • DOI: https://doi.org/10.1007/s13580-016-0128-3

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