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Association mapping utilizing diverse barley lines reveals net form net blotch seedling resistance/susceptibility loci

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A diverse collection of barley lines was phenotyped with three North American Pyrenophora teres f. teres isolates and association analyses detected 78 significant marker-trait associations at 16 genomic loci.

Abstract

Pyrenophora teres f. teres is a necrotrophic fungal pathogen and the causal agent of the economically important foliar disease net form net blotch (NFNB) of barley. The deployment of effective and durable resistance against P. teres f. teres has been hindered by the complexity of quantitative resistance and susceptibility. Several bi-parental mapping populations have been used to identify QTL associated with NFNB disease on all seven barley chromosomes. Here, we report the first genome-wide association study (GWAS) to detect marker-trait associations for resistance or susceptibility to P. teres f. teres. Geographically diverse barley genotypes from a world barley core collection (957) were genotyped with the Illumina barley iSelect chip and phenotyped with three P. teres f. teres isolates collected in two geographical regions of the USA (15A, 6A and LDNH04Ptt19). The best of nine regression models tested were identified for each isolate and used for association analysis resulting in the identification of 78 significant marker-trait associations (MTA; −log10p value >3.0). The MTA identified corresponded to 16 unique genomic loci as determined by analysis of local linkage disequilibrium between markers that did not meet a correlation threshold of R 2 ≥ 0.1, indicating that the markers represented distinct loci. Five loci identified represent novel QTL and were designated QRptts-3HL, QRptts-4HS, QRptts-5HL.1, QRptts-5HL.2, and QRptts-7HL.1. In addition, 55 of the barley lines examined exhibited a high level of resistance to all three isolates and the SNP markers identified will provide useful genetic resources for barley breeding programs.

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Acknowledgements

The authors would like to thank Danielle Holmes for technical assistance at the USDA-ARS, Cereal Crops Research Unit, Fargo ND. This research was funded by NSF ND EPSCoR Track 1 Grant 11A-1355466 and USDA-NIFA-AFRI Grant #2011-68002-30029 (T-CAP).

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  1. Department of Plant Pathology, North Dakota State University, Fargo, ND, 58108-6050, USA

    Jonathan K. Richards, Timothy L. Friesen & Robert S. Brueggeman

  2. Cereal Crops Research Unit, Red River Valley Agricultural Research Center, USDA-ARS, Fargo, ND, 58102-2765, USA

    Timothy L. Friesen

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  1. Jonathan K. Richards
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Correspondence to Robert S. Brueggeman.

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All experiments performed complied with the ethical standards of the USDA-ARS and North Dakota State University.

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Communicated by Kevin Smith.

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Richards, J.K., Friesen, T.L. & Brueggeman, R.S. Association mapping utilizing diverse barley lines reveals net form net blotch seedling resistance/susceptibility loci. Theor Appl Genet 130, 915–927 (2017). https://doi.org/10.1007/s00122-017-2860-1

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