Genetic mapping of SrCad and SNP marker development for marker-assisted selection of Ug99 stem rust resistance in wheat
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New SNP markers that can be used for marker-assisted selection and map-based cloning saturate the chromosome region carrying SrCad , a wheat gene that confers resistance to Ug99 stem rust.
Wheat stem rust, caused by Puccinia graminis f. sp. tritici, is a devastating disease of wheat worldwide. Development of cultivars with effective resistance has been the primary means to control this disease, but the appearance of new virulent strains such as Ug99 has rendered most wheat varieties vulnerable. The stem rust resistance gene SrCad located on chromosome arm 6DS has provided excellent resistance to various strains of Ug99 in field nurseries conducted in Njoro, Kenya since 2005. Three genetic populations were used to identify SNP markers closely linked to the SrCad locus. Of 220 SNP markers evaluated, 27 were found to be located within a 2 cM region surrounding SrCad. The diagnostic potential of these SNPs was evaluated in a diverse set of 50 wheat lines that were primarily of Canadian origin with known presence or absence of SrCad. Three SNP markers tightly linked proximally to SrCad and one SNP that co-segregated with SrCad were completely predictive of the presence or absence of SrCad. These markers also differentiated SrCad from Sr42 and SrTmp which are also located in the same region of chromosome arm 6DS. These markers should be useful in marker-assisted breeding to develop new wheat varieties containing SrCad-based resistance to Ug99 stem rust.
KeywordsStem Rust Recombinant Inbred Line Population Stem Rust Resistance Stem Rust Resistance Gene Wheat Stem Rust
The authors thank Leslie Bezte, Monika Eng, Mira Popovic, Ghassan Mardli, and Taye Zegeye for excellent technical assistance. We are grateful for financial support from Agriculture and Agri-Food Canada Growing Forward, AAFC Agriflex project 2521, the Canadian Wheat Alliance, and as part of CTAG and CTAG2, Genome Prairie projects funded by Genome Canada, Saskatchewan Ministry of Agriculture, and Western Grain Research Foundation. National Research Council contribution NRCC # 56190.
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Conflict of interest
The authors declare that they have no conflict of interest.
The authors have adhered to the ethical responsibilities outlined by Theoretical and Applied Genetics.
- Allen AM, Barker GLA, Berry ST, Coghill JA, Gwilliam R, Kirby S, Robinson P, Brenchley RC, D’Amore R, McKenzie N, Waite D, Hall A, Bevan M, Hall N, Edwards KJ (2011) Transcript-specific, single-nucleotide polymorphism discovery and linkage analysis in hexaploid bread wheat (Triticum aestivum L.). Plant Biotechnol J 9:1086–1099CrossRefPubMedGoogle Scholar
- Fetch T (2007) Virulence of stem rust race TTKS on Canadian wheat cultivars. Can J Plant Pathol 29:441Google Scholar
- Fetch T, Zegeye T, Singh D, Wanyera R, Penner M, Rashid K (2012) Virulence of Ug99 (race TTKSK) and race TRTTF on Canadian wheat cultivars. Can J Plant Sci 92:602Google Scholar
- Jia J, Zhao S, Kong X, Li Y, Zhao G, He W, Appels R, Pfeifer M, Tao Y, Zhang X, Jing R, Zhang C, Ma Y, Gao L, Gao C, Spannagl M, Mayer KF, Li D, Pan S, Zheng F, Hu Q, Xia X, Li J, Liang Q, Chen J, Wicker T, Gou C, Kuang H, He G, Luo Y, Keller B, Xia Q, Lu P, Wang J, Zou H, Zhang R, Xu J, Gao J, Middleton C, Quan Z, Liu G, Wang J, International Wheat Genome Sequencing C, Yang H, Liu X, He Z, Mao L, Wang J (2013) Aegilops tauschii draft genome sequence reveals a gene repertoire for wheat adaptation. Nature 496:91–95CrossRefPubMedGoogle Scholar
- Jordan KW, Wang S, Lun Y, Gardiner LJ, MacLachlan R, Hucl P, Wiebe K, Wong D, Forrest KL, Consortium I, Sharpe AG, Sidebottom CH, Hall N, Toomajian C, Close T, Dubcovsky J, Akhunova A, Talbert L, Bansal UK, Bariana HS, Hayden MJ, Pozniak C, Jeddeloh JA, Hall A, Akhunov E (2015) A haplotype map of allohexaploid wheat reveals distinct patterns of selection on homoeologous genomes. Genome Biol 16:48CrossRefPubMedPubMedCentralGoogle Scholar
- Luo MC, Gu YQ, You FM, Deal KR, Ma Y, Hu Y, Huo N, Wang Y, Wang J, Chen S, Jorgensen CM, Zhang Y, McGuire PE, Pasternak S, Stein JC, Ware D, Kramer M, McCombie WR, Kianian SF, Martis MM, Mayer KFX, Sehgal SK, Li W, Gill BS, Bevan MW, Šimková H, Doležel J, Weining S, Lazo GR, Anderson OD, Dvorak J (2013) A 4-gigabase physical map unlocks the structure and evolution of the complex genome of Aegilops tauschii, the wheat D-genome progenitor. Proc Natl Acad Sci 110:7940–7945CrossRefPubMedPubMedCentralGoogle Scholar
- Mago R, Cesari S, Zhang P, Bansal U, Vautrin S, Simkova H, Luo M-C, Periyannan S, Karaoglu H, Jin Y, Ayliffe M, Bariana HS, McIntosh R, Park R, Dolezel J, Berges H, Lagudah E, Ellis J, Dodds P (2015) The cereal Mla locus is a rich source of effective resistance genes: cloning the Sr50 gene from rye. Borlaug Global Rust Initiative Technical Workshop, September 17–20, 2015, Sydney, AustraliaGoogle Scholar
- McIntosh RA, Dubcovsky J, Rogers WJ, Morris CF, Appels R, Xia XC (2011) Catalogue of gene symbols for wheat: 2011 supplement. Annu Wheat Newsl 57:303–321Google Scholar
- Pallotta MA, Warner P, Fox RL, Kuchel H, Jefferies SJ, Langridge P (2003) Marker assisted wheat breeding in the southern region of Australia. In: Pogna NE, Romano M, Pogna EA, Galerio G (eds) Proceedings of the 10th International Wheat Genetics Symposium, Instituto Sperimentale per la Cerealcoltura, Rome, pp 789–791Google Scholar
- Park RF (2015) Long term surveys of pathogen populations underpin sustained control of the rust diseases of wheat in Australia. J Proc R Soc N S W 148:15–27Google Scholar
- Patpour M, Hovmoller M, Justesen AF, Newcomb M, Olivera Firpo PD, Jin Y, Szabo LJ, Hodson D, Shahin A, Wanyera R, Habarurema I, Wobibi S (2015) Emergence of virulence to SrTmp in the Ug99 race group of wheat stem rust, Puccinia graminis f. sp. tritici, in Africa. Plant Dis 99 (in press). http://dx.doi.org/10.1094/PDIS-06-15-0668-PDN
- Pozniak C, MacLachlan R, McCartney C, Sharpe A, Akhunov E, Hucl P (2013) Combining exome capture and bulked segregant analysis for marker discovery in durum wheat. Poster Presented at the XXI Plant and Animal Genome Conference, San Diego, CA, 12–16 January 2013Google Scholar
- Stakman EC, Stewart DM, Loegering WQ (1962) Identification of physiologic races of Puccinia graminis var. tritici. USDA Agricultural Research Service E617Google Scholar
- Wang S, Wong D, Forrest K, Allen A, Chao S, Huang BE, Maccaferri M, Salvi S, Milner SG, Cattivelli L, Mastrangelo AM, Whan A, Stephen S, Barker G, Wieseke R, Plieske J, Lillemo M, Mather D, Appels R, Dolferus R, Brown-Guedira G, Korol A, Akhunova AR, Feuillet C, Salse J, Morgante M, Pozniak C, Luo MC, Dvorak J, Morell M, Dubcovsky J, Ganal M, Tuberosa R, Lawley C, Mikoulitch I, Cavanagh C, Edwards KJ, Hayden M, Akhunov E (2014) Characterization of polyploid wheat genomic diversity using a high-density 90,000 single nucleotide polymorphism array. Plant Biotechnol J 12:787–796CrossRefPubMedPubMedCentralGoogle Scholar