Genome Enhanced Marker Improvement for Potato Virus Y Disease Resistance in Potato

Brittney M Caruana,Brendan C Rodoni,Fiona Constable,Noel O I Cogan,Anthony T Slater

doi:10.3390/agronomy11050832

Brittney M Caruana, Brendan C Rodoni + Show 3 more

Open Access

https://doi.org/10.3390/agronomy11050832

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Abstract

Potato is an important food crop worldwide and is grown in a large number of countries. As such, the crop is under disease pressures and the need for selecting disease resistance genes during breeding programs is essential. Of particular importance within Australia and other parts of the world is the potyvirus, Potato virus Y (PVY). In this paper, three commonly used PVY resistance markers, M45, RYSC3 and M6, were evaluated using existing genomic resources and phenotypic data from the Australian potato breeding program to identify a region where the PVY resistance gene, Ryadg may reside. A region of Chromosome XI was investigated, and a cluster of disease resistance genes was identified that the resistance gene Ryadg is suspected to reside within. Protein characterization was also performed on the putative resistant gene. A specific variant that had complete association with the resistance gene was identified and a single nucleotide polymorphism (SNP) assay was designed to avoid dissociation of marker and gene in future breeding programs. This SNP marker (SNP37279) was validated as a Kompetitive Allele-specific PCR (KASP) genotyping assay and was found to perform more accurately than all previously used markers for detecting Ryadg.

Highlights

The underlying DNA sequence of markers M45, M6 and RYSC3 were compared to the potato reference genome sequence using BLASTn and all identified a specific region on Chromosome XI (Table 2)
Advancements in genotyping technologies have removed the need for anonymous marker systems and molecular marker assays have coalesced to single nucleotide polymorphism (SNP) variants and markers
The aim of this study was to incorporate the genomic resources that have been developed for Solanum species with large genotypic and variant datasets with historic phenotypic records, to identify genes directly associated with Potato virus Y (PVY) resistance

Summary

Introduction

Publisher’s Note: MDPI stays neutral with regard to jurisdictional claims in published maps and institutional affiliations. Potato (Solanum tuberosum) is the fourth most important food crop globally with production exceeding 350 million tonnes per annum [1]. This is mainly due to its climate adaptability, large yield and high nutritional value [2]. The risk of disease to potato production in such an extensively grown crop is significant and has wide-reaching implications

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