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Combining Single Nucleotide Polymorphism Genotyping Array with Bulked Segregant Analysis to Map a Gene Controlling Adult Plant Resistance to Stripe Rust in Wheat Line 03031-1-5 H62.
Phytopathology. 2018 Jan; 108(1):103-113.P

Abstract

Stripe rust, caused by Puccinia striiformis f. sp. tritici, is one of the most devastating diseases of wheat worldwide. Growing resistant cultivars is considered the best approach to manage this disease. In order to identify the resistance gene(s) in wheat line 03031-1-5 H62, which displayed high resistance to stripe rust at adult plant stage, a cross was made between 03031-1-5 H62 and susceptible cultivar Avocet S. The mapping population was tested with Chinese P. striiformis f. sp. tritici race CYR32 through artificial inoculation in a field in Yangling, Shaanxi Province and under natural infection in Tianshui, Gansu Province. The segregation ratios indicated that the resistance was conferred by a single dominant gene, temporarily designated as YrH62. A combination of bulked segregant analysis (BSA) with wheat 90K single nucleotide polymorphism (SNP) array was used to identify molecular markers linked to YrH62. A total of 376 polymorphic SNP loci identified from the BSA analysis were located on chromosome 1B, from which 35 kompetitive allele-specific PCR (KASP) markers selected together with 84 simple sequence repeat (SSR) markers on 1B were used to screen polymorphism and a chromosome region associated with rust resistance was identified. To saturate the chromosomal region covering the YrH62 locus, a 660K SNP array was used to identify more SNP markers. To develop tightly linked markers for marker-assisted selection of YrH62 in wheat breeding, 18 SNPs were converted into KASP markers. A final linkage map consisting of 15 KASP and 3 SSR markers was constructed with KASP markers AX-109352427 and AX-109862469 flanking the YrH62 locus in a 1.0 cM interval. YrH62 explained 63.8 and 69.3% of the phenotypic variation for disease severity and infection type, respectively. YrH62 was located near the centromeric region of chromosome 1BS based on the positions of the SSR markers in 1B deletion bins. Based on the origin, responses to P. striiformis f. sp. tritici races, and marker distances, YrH62 is likely different from the other reported stripe rust resistance genes/quantitative trait loci on 1B. The gene and tightly linked KASP markers will be useful for breeding wheat cultivars with resistance to stripe rust.

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Authors+Show Affiliations

Wu J
First, second, third, seventh, eighth, and tenth authors: State Key Laboratory of Crop Stress Biology for Arid Areas, College of Plant Protection, Northwest A&F University, Yangling, Shaanxi 712100, P. R. China; fifth, sixth, and ninth authors: State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, Shaanxi 712100, P. R. China; and fourth author: U.S. Department of Agriculture, Agricultural Research Service, Wheat Health, Genetics, and Quality Research Unit and the Department of Plant Pathology, Washington State University, Pullman.
Wang Q
First, second, third, seventh, eighth, and tenth authors: State Key Laboratory of Crop Stress Biology for Arid Areas, College of Plant Protection, Northwest A&F University, Yangling, Shaanxi 712100, P. R. China; fifth, sixth, and ninth authors: State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, Shaanxi 712100, P. R. China; and fourth author: U.S. Department of Agriculture, Agricultural Research Service, Wheat Health, Genetics, and Quality Research Unit and the Department of Plant Pathology, Washington State University, Pullman.
Xu L
First, second, third, seventh, eighth, and tenth authors: State Key Laboratory of Crop Stress Biology for Arid Areas, College of Plant Protection, Northwest A&F University, Yangling, Shaanxi 712100, P. R. China; fifth, sixth, and ninth authors: State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, Shaanxi 712100, P. R. China; and fourth author: U.S. Department of Agriculture, Agricultural Research Service, Wheat Health, Genetics, and Quality Research Unit and the Department of Plant Pathology, Washington State University, Pullman.
Chen X
First, second, third, seventh, eighth, and tenth authors: State Key Laboratory of Crop Stress Biology for Arid Areas, College of Plant Protection, Northwest A&F University, Yangling, Shaanxi 712100, P. R. China; fifth, sixth, and ninth authors: State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, Shaanxi 712100, P. R. China; and fourth author: U.S. Department of Agriculture, Agricultural Research Service, Wheat Health, Genetics, and Quality Research Unit and the Department of Plant Pathology, Washington State University, Pullman.
Li B
First, second, third, seventh, eighth, and tenth authors: State Key Laboratory of Crop Stress Biology for Arid Areas, College of Plant Protection, Northwest A&F University, Yangling, Shaanxi 712100, P. R. China; fifth, sixth, and ninth authors: State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, Shaanxi 712100, P. R. China; and fourth author: U.S. Department of Agriculture, Agricultural Research Service, Wheat Health, Genetics, and Quality Research Unit and the Department of Plant Pathology, Washington State University, Pullman.
Mu J
First, second, third, seventh, eighth, and tenth authors: State Key Laboratory of Crop Stress Biology for Arid Areas, College of Plant Protection, Northwest A&F University, Yangling, Shaanxi 712100, P. R. China; fifth, sixth, and ninth authors: State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, Shaanxi 712100, P. R. China; and fourth author: U.S. Department of Agriculture, Agricultural Research Service, Wheat Health, Genetics, and Quality Research Unit and the Department of Plant Pathology, Washington State University, Pullman.
Zeng Q
First, second, third, seventh, eighth, and tenth authors: State Key Laboratory of Crop Stress Biology for Arid Areas, College of Plant Protection, Northwest A&F University, Yangling, Shaanxi 712100, P. R. China; fifth, sixth, and ninth authors: State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, Shaanxi 712100, P. R. China; and fourth author: U.S. Department of Agriculture, Agricultural Research Service, Wheat Health, Genetics, and Quality Research Unit and the Department of Plant Pathology, Washington State University, Pullman.
Huang L
First, second, third, seventh, eighth, and tenth authors: State Key Laboratory of Crop Stress Biology for Arid Areas, College of Plant Protection, Northwest A&F University, Yangling, Shaanxi 712100, P. R. China; fifth, sixth, and ninth authors: State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, Shaanxi 712100, P. R. China; and fourth author: U.S. Department of Agriculture, Agricultural Research Service, Wheat Health, Genetics, and Quality Research Unit and the Department of Plant Pathology, Washington State University, Pullman.
Han D
First, second, third, seventh, eighth, and tenth authors: State Key Laboratory of Crop Stress Biology for Arid Areas, College of Plant Protection, Northwest A&F University, Yangling, Shaanxi 712100, P. R. China; fifth, sixth, and ninth authors: State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, Shaanxi 712100, P. R. China; and fourth author: U.S. Department of Agriculture, Agricultural Research Service, Wheat Health, Genetics, and Quality Research Unit and the Department of Plant Pathology, Washington State University, Pullman.
Kang Z
First, second, third, seventh, eighth, and tenth authors: State Key Laboratory of Crop Stress Biology for Arid Areas, College of Plant Protection, Northwest A&F University, Yangling, Shaanxi 712100, P. R. China; fifth, sixth, and ninth authors: State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, Shaanxi 712100, P. R. China; and fourth author: U.S. Department of Agriculture, Agricultural Research Service, Wheat Health, Genetics, and Quality Research Unit and the Department of Plant Pathology, Washington State University, Pullman.

MeSH

AllelesBasidiomycotaChromosome MappingChromosomes, PlantDisease ResistanceGenotypeGenotyping TechniquesMicrosatellite RepeatsPhenotypePlant DiseasesPolymorphism, Single NucleotideTriticum

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

28832276

Citation

Wu, Jianhui, et al. "Combining Single Nucleotide Polymorphism Genotyping Array With Bulked Segregant Analysis to Map a Gene Controlling Adult Plant Resistance to Stripe Rust in Wheat Line 03031-1-5 H62." Phytopathology, vol. 108, no. 1, 2018, pp. 103-113.
Wu J, Wang Q, Xu L, et al. Combining Single Nucleotide Polymorphism Genotyping Array with Bulked Segregant Analysis to Map a Gene Controlling Adult Plant Resistance to Stripe Rust in Wheat Line 03031-1-5 H62. Phytopathology. 2018;108(1):103-113.
Wu, J., Wang, Q., Xu, L., Chen, X., Li, B., Mu, J., Zeng, Q., Huang, L., Han, D., & Kang, Z. (2018). Combining Single Nucleotide Polymorphism Genotyping Array with Bulked Segregant Analysis to Map a Gene Controlling Adult Plant Resistance to Stripe Rust in Wheat Line 03031-1-5 H62. Phytopathology, 108(1), 103-113. https://doi.org/10.1094/PHYTO-04-17-0153-R
Wu J, et al. Combining Single Nucleotide Polymorphism Genotyping Array With Bulked Segregant Analysis to Map a Gene Controlling Adult Plant Resistance to Stripe Rust in Wheat Line 03031-1-5 H62. Phytopathology. 2018;108(1):103-113. PubMed PMID: 28832276.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Combining Single Nucleotide Polymorphism Genotyping Array with Bulked Segregant Analysis to Map a Gene Controlling Adult Plant Resistance to Stripe Rust in Wheat Line 03031-1-5 H62. AU - Wu,Jianhui, AU - Wang,Qilin, AU - Xu,Liangsheng, AU - Chen,Xianming, AU - Li,Bei, AU - Mu,Jingmei, AU - Zeng,Qingdong, AU - Huang,Lili, AU - Han,Dejun, AU - Kang,Zhensheng, Y1 - 2017/11/09/ PY - 2017/8/24/pubmed PY - 2018/4/20/medline PY - 2017/8/24/entrez SP - 103 EP - 113 JF - Phytopathology JO - Phytopathology VL - 108 IS - 1 N2 - Stripe rust, caused by Puccinia striiformis f. sp. tritici, is one of the most devastating diseases of wheat worldwide. Growing resistant cultivars is considered the best approach to manage this disease. In order to identify the resistance gene(s) in wheat line 03031-1-5 H62, which displayed high resistance to stripe rust at adult plant stage, a cross was made between 03031-1-5 H62 and susceptible cultivar Avocet S. The mapping population was tested with Chinese P. striiformis f. sp. tritici race CYR32 through artificial inoculation in a field in Yangling, Shaanxi Province and under natural infection in Tianshui, Gansu Province. The segregation ratios indicated that the resistance was conferred by a single dominant gene, temporarily designated as YrH62. A combination of bulked segregant analysis (BSA) with wheat 90K single nucleotide polymorphism (SNP) array was used to identify molecular markers linked to YrH62. A total of 376 polymorphic SNP loci identified from the BSA analysis were located on chromosome 1B, from which 35 kompetitive allele-specific PCR (KASP) markers selected together with 84 simple sequence repeat (SSR) markers on 1B were used to screen polymorphism and a chromosome region associated with rust resistance was identified. To saturate the chromosomal region covering the YrH62 locus, a 660K SNP array was used to identify more SNP markers. To develop tightly linked markers for marker-assisted selection of YrH62 in wheat breeding, 18 SNPs were converted into KASP markers. A final linkage map consisting of 15 KASP and 3 SSR markers was constructed with KASP markers AX-109352427 and AX-109862469 flanking the YrH62 locus in a 1.0 cM interval. YrH62 explained 63.8 and 69.3% of the phenotypic variation for disease severity and infection type, respectively. YrH62 was located near the centromeric region of chromosome 1BS based on the positions of the SSR markers in 1B deletion bins. Based on the origin, responses to P. striiformis f. sp. tritici races, and marker distances, YrH62 is likely different from the other reported stripe rust resistance genes/quantitative trait loci on 1B. The gene and tightly linked KASP markers will be useful for breeding wheat cultivars with resistance to stripe rust. SN - 0031-949X UR - https://www.unboundmedicine.com/medline/citation/28832276/Combining_Single_Nucleotide_Polymorphism_Genotyping_Array_with_Bulked_Segregant_Analysis_to_Map_a_Gene_Controlling_Adult_Plant_Resistance_to_Stripe_Rust_in_Wheat_Line_03031_1_5_H62_ DB - PRIME DP - Unbound Medicine ER -