High-Resolution Melting-Based Marker Development for Wheat Leaf Rust Resistance Gene Lr34

Shivreet Kaur, Taylor Pennington, Emily J. Conley, Andrew Green, James Kolmer, James A Anderson, Rajeev Gupta, Upinder Gill

Research output: Contribution to journalArticlepeer-review

1 Scopus citations


Deploying adult plant resistance (APR) against rust diseases is an important breeding objective of most wheat-breeding programs. The gene Lr34 is an effective and widely deployed broad-spectrum APR gene in wheat against leaf rust fungus Puccinia triticina. Various molecular markers have been developed for Lr34, but they either require post-PCR handling processes or are not economical. Herein, we developed a high-resolution melting (HRM)-based diagnostic assay for Lr34 based on a 3-bp ‘TTC’ deletion in exon 11 of the resistant allele. The susceptible cultivar Thatcher (Tc) and the near-isogenic Thatcher line (RL6058) with Lr34 yielded distinct melting profiles and were differentiated with high reproducibility. For further validation, all three copies of Lr34 were cloned in plasmid vectors, and HRM analysis using individual and combination (equimolar mixture of three copies) homoeologs yielded distinct melting profiles. An additional layer of genotyping was provided by a LunaProbe assay. The allele-specific probes successfully distinguished the homoeologs but not Tc and RL6058. Furthermore, the practical deployment of the HRM assay was tested by running the marker on a set of breeding lines. When compared with a kompetitive allele-specific PCR (KASP) Lr34 assay, the HRM assay had similar genotyping results and was able to accurately differentiate the resistant and susceptible breeding lines. However, our HRM assay was unable to detect the heterozygote. To our knowledge, this is the first report of an HRM assay for genotyping a wheat rust resistance gene.

Original languageEnglish (US)
Pages (from-to)508-515
Number of pages8
Issue number3
StatePublished - Mar 2023

Bibliographical note

Funding Information:
Funding: This work was supported by the North Dakota Wheat Commission, North Dakota State Board of Agricultural Research and Education, and the U.S. Department of Agriculture–National Institute of Food and Agriculture (Hatch Project ND02243).

Publisher Copyright:
© 2023 The American Phytopathological Society.


  • adult plant resistance
  • high-resolution melting
  • leaf rust
  • Lr34
  • molecular marker
  • wheat

PubMed: MeSH publication types

  • Journal Article


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