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Genome-wide DArT and SNP scan for QTL associated with resistance to stripe rust (Puccinia striiformis f. sp. tritici) in elite ICARDA wheat (Triticum aestivum L.) germplasm.
Theor Appl Genet. 2015 Jul; 128(7):1277-95.TA

Abstract

KEY MESSAGE

Identified DArT and SNP markers including a first reported QTL on 3AS, validated large effect APR on 3BS. The different genes can be used to incorporate stripe resistance in cultivated varieties. Stripe rust [yellow rust, caused by Puccinia striiformis f. sp. tritici (Pst)] is a serious disease in wheat (Triticum aestivum). This study employed genome-wide association mapping (GWAM) to identify markers linked to stripe rust resistance genes using Diversity Arrays Technology (DArT(®)) and single-nucleotide polymorphism (SNP) Infinium 9K assays in 200 ICARDA wheat genotypes, phenotyped for seedling and adult plant resistance in two sites over two growing seasons in Syria. Only 25.8 % of the genotypes showed resistance at seedling stage while about 33 and 44 % showed moderate resistance and resistance response, respectively. Mixed-linear model adjusted for false discovery rate at p < 0.05 identified 12 DArT and 29 SNP markers on chromosome arms 3AS, 3AL, 1AL, 2AL, 2BS, 2BL, 3BS, 3BL, 5BL, 6AL, and 7DS significantly linked to Pst resistance genes. Of these, the locus on 3AS has not been previously reported to confer resistance to stripe rust in wheat. The QTL on 3AS, 3AL, 1AL, 2AL, and 2BS were effective at seedling and adult plant growth stages while those on 3BS, 3BL, 5BL, 6AL and 7DS were effective at adult plant stage. The 3BS QTL was validated in Cham-6 × Cham-8 recombinant inbred line population; composite interval analysis identified a stripe resistance QTL flanked by the DArT marker, wPt-798970, contributed by Cham-6 parent which accounted for 31.2 % of the phenotypic variation. The DArT marker "wPt-798970" lies 1.6 cM away from the 3BS QTL detected within GWAM. Epistatic interactions were also investigated; only the QTL on 1AL, 3AS and 6AL exhibited interactions with other loci. These results suggest that GWAM can be an effective approach for identifying and improving resistance to stripe rust in wheat.

Authors+Show Affiliations

International Center for Agricultural Research in the Dry Areas (ICARDA), P.O. Box 5466, Aleppo, Syria.No affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info available

Pub Type(s)

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

Language

eng

PubMed ID

25851000

Citation

Jighly, Abdulqader, et al. "Genome-wide DArT and SNP Scan for QTL Associated With Resistance to Stripe Rust (Puccinia Striiformis F. Sp. Tritici) in Elite ICARDA Wheat (Triticum Aestivum L.) Germplasm." TAG. Theoretical and Applied Genetics. Theoretische Und Angewandte Genetik, vol. 128, no. 7, 2015, pp. 1277-95.
Jighly A, Oyiga BC, Makdis F, et al. Genome-wide DArT and SNP scan for QTL associated with resistance to stripe rust (Puccinia striiformis f. sp. tritici) in elite ICARDA wheat (Triticum aestivum L.) germplasm. Theor Appl Genet. 2015;128(7):1277-95.
Jighly, A., Oyiga, B. C., Makdis, F., Nazari, K., Youssef, O., Tadesse, W., Abdalla, O., & Ogbonnaya, F. C. (2015). Genome-wide DArT and SNP scan for QTL associated with resistance to stripe rust (Puccinia striiformis f. sp. tritici) in elite ICARDA wheat (Triticum aestivum L.) germplasm. TAG. Theoretical and Applied Genetics. Theoretische Und Angewandte Genetik, 128(7), 1277-95. https://doi.org/10.1007/s00122-015-2504-2
Jighly A, et al. Genome-wide DArT and SNP Scan for QTL Associated With Resistance to Stripe Rust (Puccinia Striiformis F. Sp. Tritici) in Elite ICARDA Wheat (Triticum Aestivum L.) Germplasm. Theor Appl Genet. 2015;128(7):1277-95. PubMed PMID: 25851000.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Genome-wide DArT and SNP scan for QTL associated with resistance to stripe rust (Puccinia striiformis f. sp. tritici) in elite ICARDA wheat (Triticum aestivum L.) germplasm. AU - Jighly,Abdulqader, AU - Oyiga,Benedict C, AU - Makdis,Farid, AU - Nazari,Kumarse, AU - Youssef,Omran, AU - Tadesse,Wuletaw, AU - Abdalla,Osman, AU - Ogbonnaya,Francis C, Y1 - 2015/04/08/ PY - 2014/10/16/received PY - 2015/03/20/accepted PY - 2015/4/9/entrez PY - 2015/4/9/pubmed PY - 2015/9/22/medline SP - 1277 EP - 95 JF - TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik JO - Theor Appl Genet VL - 128 IS - 7 N2 - KEY MESSAGE: Identified DArT and SNP markers including a first reported QTL on 3AS, validated large effect APR on 3BS. The different genes can be used to incorporate stripe resistance in cultivated varieties. Stripe rust [yellow rust, caused by Puccinia striiformis f. sp. tritici (Pst)] is a serious disease in wheat (Triticum aestivum). This study employed genome-wide association mapping (GWAM) to identify markers linked to stripe rust resistance genes using Diversity Arrays Technology (DArT(®)) and single-nucleotide polymorphism (SNP) Infinium 9K assays in 200 ICARDA wheat genotypes, phenotyped for seedling and adult plant resistance in two sites over two growing seasons in Syria. Only 25.8 % of the genotypes showed resistance at seedling stage while about 33 and 44 % showed moderate resistance and resistance response, respectively. Mixed-linear model adjusted for false discovery rate at p < 0.05 identified 12 DArT and 29 SNP markers on chromosome arms 3AS, 3AL, 1AL, 2AL, 2BS, 2BL, 3BS, 3BL, 5BL, 6AL, and 7DS significantly linked to Pst resistance genes. Of these, the locus on 3AS has not been previously reported to confer resistance to stripe rust in wheat. The QTL on 3AS, 3AL, 1AL, 2AL, and 2BS were effective at seedling and adult plant growth stages while those on 3BS, 3BL, 5BL, 6AL and 7DS were effective at adult plant stage. The 3BS QTL was validated in Cham-6 × Cham-8 recombinant inbred line population; composite interval analysis identified a stripe resistance QTL flanked by the DArT marker, wPt-798970, contributed by Cham-6 parent which accounted for 31.2 % of the phenotypic variation. The DArT marker "wPt-798970" lies 1.6 cM away from the 3BS QTL detected within GWAM. Epistatic interactions were also investigated; only the QTL on 1AL, 3AS and 6AL exhibited interactions with other loci. These results suggest that GWAM can be an effective approach for identifying and improving resistance to stripe rust in wheat. SN - 1432-2242 UR - https://www.unboundmedicine.com/medline/citation/25851000/Genome_wide_DArT_and_SNP_scan_for_QTL_associated_with_resistance_to_stripe_rust__Puccinia_striiformis_f__sp__tritici__in_elite_ICARDA_wheat__Triticum_aestivum_L___germplasm_ DB - PRIME DP - Unbound Medicine ER -