Abstract
Although Sequence-Characterized Amplified Region (SCAR) markers linked to the potato H1 locus, which confers resistance to pathotypes Ro1 and Ro4 of the potato cyst nematode (PCN) Globodera rostochiensis, have been reported, robust markers that enable estimation of allele dosage would improve the quality of information obtained from genotyping parental accessions (cultivars/breeding lines) and progeny populations within breeding programmes. With this in mind, we have developed single nucleotide polymorphism (SNP)-based molecular markers flanking the H1 resistance gene, using genomic re-sequence data from five elite tetraploid accessions. The published TG689 and 57R primer sequences were used in a Basic Local Alignment Search Tool (BLAST) examination of the reference potato genome, and SNPs within the vicinity of these primer regions were identified and targeted for designing probe-based High Resolution Melting (HRM) SNP assays. Evaluation of the subsequently developed HRM markers, TG689_1P and 57R_1P, against the publicly available SCAR markers, TG689 and 57R, indicated that the HRM markers enabled more reliable marker-trait association than the SCARs. Additionally, allelic dosage estimates for the H1 locus were also derived using the TG689_1P marker, providing a tool to optimise parental and progeny selections in PCN resistance breeding.
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Acknowledgements
We thank Katrina Monaghan for technical assistance with DNA isolation, Jeanne Jacobs for providing re-sequence data and Susan Gardiner, Paul Johnston and Gail Timmerman-Vaughan for helpful comments on earlier drafts of the manuscript. This work was supported through the Strategic Science Investment Fund (SSIF) Potato Molecular Breeding programme, managed by The New Zealand Institute for Plant & Food Research Limited.
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Meiyalaghan, S., Paget, M., Thompson, S. et al. High resolution DNA melting markers for identification of H1-linked resistance to potato cyst nematode. Mol Breeding 38, 79 (2018). https://doi.org/10.1007/s11032-018-0832-z
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DOI: https://doi.org/10.1007/s11032-018-0832-z