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Genetic architecture of wheat stripe rust resistance revealed by combining QTL mapping using SNP-based genetic maps and bulked segregant analysis

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A major stripe rust resistance QTL was mapped to a 0.4 centimorgan (cM) genetic region on the long arm of chromosome 7B, using combined genome-wide linkage mapping and bulk segregant analysis.

Abstract

The German winter wheat cv. Centrum has displayed high levels of adult plant stripe rust resistance (APR) in field environments for many years. Here, we used the combined genome-wide linkage mapping and pool-extreme genotyping to characterize the APR resistance. One hundred and fifty-one F2:7 recombinant inbred lines derived from a cross between susceptible landrace Mingxian 169 and Centrum were evaluated for stripe rust resistance in multiple environments and genotyped by the wheat 35K single nucleotide polymorphism (SNP) array. Three stable quantitative trait loci (QTL) were identified using QTL analysis across five field environments. To saturate the major QTL, the wheat 660K SNP array was also used to genotype bulked extremes. A major QTL named QYrcen.nwafu-7BL from Centrum was mapped in a 0.4 cM genetic interval flanking by AX-94556751 and AX-110366788 across a 2 Mb physical genomic region, explaining 19.39-42.81% of the total phenotypic variation. It is likely a previously uncharacterized QTL based on pedigree analysis, reaction response, genotyping data and map comparison. The SNP markers closely linked with QYrcen.nwafu-7BL were converted to KASP markers and validated in a subset of 120 wheat lines. A 211 F2 breeding population from a cross of an elite cultivar Xinong 979 with Centrum were developed for marker-based selection. Three selected lines with desirable agronomic traits and the positive alleles of both KASP markers showed acceptable resistance which should be used as resistance donors in wheat breeding programs. The other QTL QYrcen.nwafu-1AL and QYrcen.nwafu-4AL with additive effects could enhance the level of resistance conferred by QYrcen.nwafu-7BL.

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Acknowledgements

The authors are grateful to Prof. X. M. Chen, US Department of Agriculture, for critical review of this manuscript. This study was financially supported by the National Science Foundation for Young Scientists in China (Grant 31701421), the National Key Research and Development Program of China (Grant No. 2016YFE0108600), and the earmarked fund for Modern Agro-industry Technology Research System (No. CARS-3-1-11).

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  1. Jingmei Mu and Shuo Huang have contributed equally to this work.

Authors and Affiliations

  1. College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, People’s Republic of China

    Jingmei Mu, Shuo Huang, Shengjie Liu, Miaofei Dai, Shizhou Yu & Dejun Han

  2. State Key Laboratory of Crop Stress Biology for Arid Areas, Northwest A&F University, Yangling, 712100, Shaanxi, People’s Republic of China

    Jingmei Mu, Shuo Huang, Shengjie Liu, Qingdong Zeng, Miaofei Dai, Qilin Wang, Jianhui Wu, Shizhou Yu, Zhensheng Kang & Dejun Han

  3. College of Plant Protection, Northwest A&F University, Yangling, 712100, Shaanxi, People’s Republic of China

    Qingdong Zeng, Qilin Wang, Jianhui Wu & Zhensheng Kang

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  1. Jingmei Mu
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  2. Shuo Huang
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  3. Shengjie Liu
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  4. Qingdong Zeng
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Contributions

JMM conducted the experiments, analyzed the data and wrote the manuscript. SH, QLW and JHW assisted in analyzing the data. QLW, QDZ and DJH identified the resistant parental line, made the cross and participated in field experiments. SH, MFD, SJL and SZY participated in field experiments and contributed to genotyping. DJ Han and ZS Kang conceived and directed the project and revised the manuscript.

Corresponding authors

Correspondence to Zhensheng Kang or Dejun Han.

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The authors declare no competing interests.

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I declare on behalf of my co-authors that the work described is original, previously unpublished research and not under consideration for publication elsewhere. The experiments in this study comply with the current laws of China.

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Communicated by Evans Lagudah.

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Mu, J., Huang, S., Liu, S. et al. Genetic architecture of wheat stripe rust resistance revealed by combining QTL mapping using SNP-based genetic maps and bulked segregant analysis. Theor Appl Genet 132, 443–455 (2019). https://doi.org/10.1007/s00122-018-3231-2

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