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Genome-Wide Association Study of Resistance to Potato Common Scab

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Abstract

Potato common scab caused by bacterial pathogen Streptomyces scabies (Thaxt.) Waksman & Henrici is one of the most important diseases of potato (Solanum tuberosum L.) worldwide. Currently, the most effective and desirable method to control common scab is through the use of resistant cultivars. In order to decipher the genetic control of resistance to common scab disease in Canadian potato germplasm, an association panel of 143 clones including advanced breeding clones and commercial cultivars was genotyped with 12K SolCAP SNPs and phenotyped for potato common scab resistances in multiple years. By conducting a genome-wide association analysis (GWAS) using GWASpoly R package, three resistance QTLs were identified on potato chromosomes 2, 4, and 12, respectively. The phenotypic variation explained by these QTLs was 21%, 19%, and 26%, respectively. The QTL on chromosome 2 was simplex-dominant whereas duplex-dominant QTLs were identified on chromosomes 4 and 12. These findings will be useful to design marker-assisted selection and breeding strategies to improve resistance to common scab in new potato cultivars.

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Acknowledgements

The authors would like to thank the potato breeding technical staff at the Fredericton Research and Development Centre of AAFC as well as staff at the Benton Ridge Breeding Substation for their assistance in field plot establishment and data collection. The contribution of long-time breeding team members, A. Murphy and D. Wilson (both retired), is also gratefully acknowledged.

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Authors and Affiliations

  1. Fredericton Research and Development Centre, Agriculture and Agri-Food Canada, Fredericton, New Brunswick, E3B 4Z7, Canada

    Jiazheng Yuan, Benoît Bizimungu, David De Koeyer & Martin Lagüe

  2. Department of Biological Sciences, Fayetteville State University, 1200 Murchison Rd, Fayetteville, NC, 28301, USA

    Jiazheng Yuan

  3. CIMMYT international, Texcoco, Mexico

    Umesh Rosyara

  4. Department of Plant, Soil, and Microbial Sciences, Michigan State University, East Lansing, MI, 48824, USA

    Zixiang Wen

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  1. Jiazheng Yuan
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  2. Benoît Bizimungu
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Correspondence to Benoît Bizimungu.

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Table S1

List of potato clones used in the association panel, scab score and population structure grouping (determined using 10,392 SNP markers). (XLSX 15 kb)

Table S2

Genotypes scores for SNP polymorphism markers in the association panel. (XLSX 6766 kb)

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Yuan, J., Bizimungu, B., De Koeyer, D. et al. Genome-Wide Association Study of Resistance to Potato Common Scab. Potato Res. 63, 253–266 (2020). https://doi.org/10.1007/s11540-019-09437-w

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