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Genome-wide association studies provide insights on genetic architecture of resistance to leaf rust in a worldwide barley collection

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Abstract

We assembled an international barley panel comprising 282 entries from 26 countries with various levels of field resistance to leaf rust caused by Puccinia hordei. The panel was screened for leaf rust response with an array of pathotypes at the seedling stage, and at the adult plant stage in multiple environments (2013–2015) in Australia and Uruguay, and genotyped using > 13 K polymorphic DArT-Seq markers. Multipathotype testing in the greenhouse postulated the presence of seedling resistance genes Rph1, Rph2, Rph3, Rph4, Rph7, Rph9.am, Rph12, Rph14, Rph15, Rph19, and Rph25. Genome-wide association studies (GWAS) based on field data identified 13 QTLs significantly associated with DArT-Seq markers on chromosomes 2H (Rph_G_Q1, Rph_G_Q2, Rph_G_Q3, and Rph_G_Q4), 4H (Rph_G_Q5), 5H (Rph_G_Q6, Rph_G_Q7, Rph_G_Q8), 6H (Rph_G_Q9 and Rph_G_Q10), and 7H (Rph_G_Q11, Rph_G_Q12, and Rph_G_Q13). Three QTLs (Rph_G_Q3, Rph_G_Q5, and Rph_G_Q6) were detected under all environments, whereas the other ten were variable, being detected in 1–4 environments; Rph_G_Q1 and Rph_G_Q13 being detected only in Uruguay. Among the three QTLs detected under all environments, Rph_G_Q6 on chromosome 5H had the largest effect and corresponded to a region where the cataloged APR gene Rph20 is located. Rph_G_Q3 and Rph_G_Q5 detected on chromosome 2H and 4H aligned with QTLs reported in at least three previous studies. The studies provide useful information towards better understanding of the genetic architecture of seedling and adult plant resistance to leaf rust in diverse global barley germplasm.

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Acknowledgements

Matthew Williams, Gary Standen, and Richard Garcia provided valuable technical support.

Funding

The Australian Grains and Research Development Corporation (GRDC) financially supported this study.

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Authors and Affiliations

  1. Sydney Institute of Agriculture, University of Sydney, PBI Cobbitty, PMB 4011, Sydney, NSW, 2567, Australia

    D. Singh, P. M. Dracatos, M. Pourkheirandish & R. F. Park

  2. Queensland Alliance for Agriculture and Food Innovation, University of Queensland, St Lucia, QLD, 4072, Australia

    L. A. Ziems & S. Tshewang

  3. Plant Breeding and Acclimatization Institute – National Research Institute, Radzików, 05-870, Błonie, Poland

    P. Czembor

  4. Instituto Nacional de Investigacion Agropecuaria, La Estanzuela, 70000, Colonia, Uruguay

    S. German

  5. Department of Agriculture and Fisheries Queensland, Hermitage Research Facility, Warwick, QLD, 4370, Australia

    R. A. Fowler, L. Snyman & G. J. Platz

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  1. D. Singh
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  2. L. A. Ziems
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  4. M. Pourkheirandish
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  5. S. Tshewang
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  6. P. Czembor
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  7. S. German
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  8. R. A. Fowler
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  9. L. Snyman
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  10. G. J. Platz
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  11. R. F. Park
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Contributions

D. Singh and R.F. Park designed and executed the research; P. Dracatos, L. Ziems, and M. Pourkheirandish conducted genotyping and mapping; S. Tshewang and D. Singh conducted greenhouse tests; D. Singh planned and conducted field research and analyzed data; S. German conducted field screening and generated data at Uruguay site; R.A Fowler, L. Snyman, and G.J. Platz conducted field screening and generated data at Queensland site. P. Czembor and R.F Park contributed to germplasm for international panel; D. Singh wrote the manuscript with contribution from all authors.

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Correspondence to D. Singh.

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Singh, D., Ziems, L.A., Dracatos, P.M. et al. Genome-wide association studies provide insights on genetic architecture of resistance to leaf rust in a worldwide barley collection. Mol Breeding 38, 43 (2018). https://doi.org/10.1007/s11032-018-0803-4

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