Ppe.XapF: High throughput KASP assays to identify fruit response to Xanthomonas arboricola pv. pruni (Xap) in peach

PLoS One. 2022 Feb 25;17(2):e0264543. doi: 10.1371/journal.pone.0264543. eCollection 2022.

Abstract

Bacterial spot, caused by Xanthomonas arboricola pv. pruni (Xap), is a serious peach disease with symptoms that traverse severe defoliation and black surface pitting, cracking or blemishes on peach fruit with global economic impacts. A management option for control and meeting consumer demand for chemical-free, environmentally friendly fruit production is the development of resistant or tolerant cultivars. We developed simple, accurate, and efficient DNA assays (Ppe.XapF) based on SNP genotyping with KASP technology to quickly test for bacterial spot resistance alleles in peach fruit that allows breeders to cull seedlings at the greenhouse stage. The objective of this research was to validate newly developed DNA tests that target the two major QTLs for fruit resistance in peach with diagnostic utility in predicting fruit response to bacterial spot infection. Our study confirms that with only two Ppe.XapF DNA tests, Ppe.XapF1-1 and Ppe.XapF6-2, individuals carrying susceptible alleles can be identified. Use of these efficient and accurate Ppe.XapF KASP tests resulted in 44% reduction in seedling planting rate in the Clemson University peach breeding program.

Publication types

  • Research Support, U.S. Gov't, P.H.S.

MeSH terms

  • Alleles
  • DNA, Bacterial / analysis
  • DNA, Bacterial / genetics
  • Disease Resistance / genetics
  • Fruit / genetics
  • Fruit / metabolism
  • Fruit / microbiology
  • Genotyping Techniques / methods*
  • High-Throughput Screening Assays
  • Plant Diseases / genetics
  • Plant Diseases / microbiology*
  • Polymorphism, Single Nucleotide
  • Prunus persica / genetics*
  • Prunus persica / growth & development
  • Prunus persica / metabolism
  • Prunus persica / microbiology
  • Quantitative Trait Loci
  • Xanthomonas / genetics*
  • Xanthomonas / isolation & purification

Substances

  • DNA, Bacterial

Supplementary concepts

  • Xanthomonas arboricola

Grants and funding

This work was supported by USDA’s National Institute of Food and Agriculture for the Specialty Crop Research Initiative through the competitive project "RosBREED: Combining disease resistance with horticultural quality in new rosaceous cultivars" (2014-51181-22378) (KG and CS) and by NIFA/USDA, under project number SC-1700530 (KG), and SC-1700568 (KG). Technical Contribution No. 6976 of the Clemson University Experiment Station. Any opinions, findings, conclusions or recommendations expressed in this publication are those of the author(s) and do not necessarily reflect the view of the USDA. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.