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Construction of a high-density linkage map and QTL detection of downy mildew resistance in Vitis aestivalis-derived ‘Norton’

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A major QTL for downy mildew resistance was detected on chromosome 18 (Rpv27) in Vitis aestivalis-derived ‘Norton’ based on a high-resolution linkage map with SNP and SSR markers as well as 2 years of field and laboratory phenotyping data.

Abstract

Grapevine downy mildew caused by the oomycete Plasmopara viticola is one of the most widespread and destructive diseases, particularly in humid viticultural areas where it damages green tissues and defoliates vines. Traditional Vitis vinifera wine grape cultivars are susceptible to downy mildew whereas several North American and a few Asian cultivars possess various levels of resistance to this disease. To identify genetic determinants of downy mildew resistance in V. aestivalis-derived ‘Norton,’ a mapping population with 182 genotypes was developed from a cross between ‘Norton’ and V. vinifera ‘Cabernet Sauvignon’ from which a consensus map was constructed via 411 simple sequence repeat (SSR) markers. Using genotyping-by-sequencing, 3825 single nucleotide polymorphism (SNP) markers were also generated. Of these, 1665 SNP and 407 SSR markers were clustered into 19 linkage groups in 159 genotypes, spanning a genetic distance of 2203.5 cM. Disease progression in response to P. viticola was studied in this population for 2 years under both laboratory and field conditions, and strong correlations were observed among data sets (Spearman correlation coefficient = 0.57–0.79). A quantitative trait loci (QTL) analysis indicated a resistance locus on chromosome 18, here named Rpv27, explaining 33.8% of the total phenotypic variation. Flanking markers closely linked with the trait can be further used for marker-assisted selection in the development of new cultivars with resistance to downy mildew.

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Acknowledgements

The authors thank S. Jacob Schneider, Marilyn Odneal and Kevin Fort for valuable discussions and constructive comments on the manuscript. This project was supported by Agriculture and Food Research Initiative Competitive Grant, Award No. 2013-67014-21360, and Specialty Crop Research Initiative Competitive Grant, Award No. 2011-51181-30635, of the USDA National Institute of Food and Agriculture.

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  1. Surya Sapkota

    Present address: Plant Pathology and Plant Microbe Biology Section, School of Integrative Plant Science, NYS Agricultural Experiment Station, Cornell University, Geneva, NY, 14456, USA

Authors and Affiliations

  1. State Fruit Experiment Station at Mountain Grove Campus, Darr College of Agriculture, Missouri State University, Springfield, MO, 65897, USA

    Surya Sapkota, Li-Ling Chen & Chin-Feng Hwang

  2. Division of Plant Sciences, University of Missouri, Columbia, MO, 65211, USA

    Surya Sapkota

  3. Bioinformatics Core Facility, The Biodesign Institute, Arizona State University, Tempe, AZ, 85287-5001, USA

    Shanshan Yang

  4. Bioinformatics Facility, Institute of Biotechnology, Cornell University, Ithaca, NY, 14853, USA

    Katie E. Hyma

  5. USDA-ARS Grape Genetics Research Unit, Geneva, NY, 14456, USA

    Lance Cadle-Davidson

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  1. Surya Sapkota
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Correspondence to Chin-Feng Hwang.

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Sapkota, S., Chen, LL., Yang, S. et al. Construction of a high-density linkage map and QTL detection of downy mildew resistance in Vitis aestivalis-derived ‘Norton’. Theor Appl Genet 132, 137–147 (2019). https://doi.org/10.1007/s00122-018-3203-6

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