Abstract
Key message
The widely deployed, oat stem rust resistance gene Pg13 was mapped by linkage analysis and association mapping, and KASP markers were developed for marker-assisted selection in breeding programs.
Abstract
Pg13 is one of the most extensively deployed stem rust resistance genes in North American oat cultivars. Identification of markers tightly linked to this gene will be useful for routine marker-assisted selection, identification of gene pyramids, and retention of the gene in backcrosses and three-way crosses. To this end, high-density linkage maps were constructed in four bi-parental mapping populations using SNP markers identified from 6K oat Infinium iSelect and genotyping-by-sequencing platforms. Additionally, genome-wide associations were identified using two sets of association panels consisting of diverse elite oat lines in one set and landrace accessions in the other. The results showed that Pg13 was located at approximately 67.7 cM on linkage group Mrg18 of the consensus genetic map. The gene co-segregated with the 7C-17A translocation breakpoint and with crown rust resistance gene Pc91. Co-segregating markers with the best prediction accuracy were identified at 67.7–68.5 cM on Mrg18. KASP assays were developed for linked SNP loci for use in oat breeding.
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Data availability
Data supporting the current study can be obtained by contacting the corresponding author (curt.mccartney@canada.ca).
Abbreviations
- CORE:
-
Collaborative Oat Research Enterprise
- GBS:
-
Genotyping-by-sequencing
- IR:
-
Infection response
- KASP:
-
Kompetitive allele specific PCR
- MAF:
-
Minor allele frequency
- Pga :
-
Puccinia graminis f. sp. avenae
- RAPD:
-
Random amplified polymorphic DNA
- RFLP:
-
Restriction fragment length polymorphism
- RIL:
-
Recombinant inbred line
- SNP:
-
Single-nucleotide polymorphism
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Acknowledgments
We thank Taye Zegeye, Leslie Bezte, Suzanne Enns, and Sharon Deceuninck for technical support in conducting the experiments at Morden, MB, Canada. Special thanks go to Marty Carson and Steve Harrison for coordinating the field phenotyping experiments on the CORE population at St. Paul, MN, and Baton Rouge, LA, USA, respectively. The study was funded by the Prairie Oat Growers Association—Prairie Oat Breeding Consortium Agricultural Innovation Project with matching funding from Agriculture and Agri-Food Canada (AAFC) Growing Forward II.
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AZK phenotyped, genotyped, and analyzed bi-parental mapping population data from stem rust race TDD inoculations, crown rust race LRBG, and wrote the first draft of the manuscript. BAY and TG phenotyped the CORE population. WAB, CW, and NAT conducted the GBS bioinformatics analyses. TG, JMB, and EB performed the linkage analysis of the bi-parental mapping population from race TQL inoculations. YJ and SG performed the inoculations with race TQL. ADB and JMF developed bi-parental mapping. JGM and TGF contributed to crown and stem rust inoculations. KEK performed the GWAS on CORE population. CAM conceived, implemented, and supervised the TDD race inoculated experiments. All authors read, edited, and approved the final manuscript.
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Communicated by Xiaoquan Qi.
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Kebede, A.Z., Admassu-Yimer, B., Bekele, W.A. et al. Mapping of the stem rust resistance gene Pg13 in cultivated oat. Theor Appl Genet 133, 259–270 (2020). https://doi.org/10.1007/s00122-019-03455-5
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DOI: https://doi.org/10.1007/s00122-019-03455-5