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Genetic analysis and mapping of adult plant resistance loci to leaf rust in durum wheat cultivar Bairds

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New leaf rust adult plant resistance (APR) QTL QLr.cim - 6BL was mapped and confirmed the known pleotropic APR gene Lr46 effect on leaf rust in durum wheat line Bairds.

Abstract

CIMMYT-derived durum wheat line Bairds displays an adequate level of adult plant resistance (APR) to leaf rust in Mexican field environments. A recombinant inbred line (RIL) population developed from a cross of Bairds with susceptible parent Atred#1 was phenotyped for leaf rust response at Ciudad Obregon, Mexico, during 2013, 2014, 2015 and 2016 under artificially created epidemics of Puccinia triticina (Pt) race BBG/BP. The RIL population and its parents were genotyped with the 50 K diversity arrays technology (DArT) sequence system and simple sequence repeat (SSR) markers. A genetic map comprising 1150 markers was used to map the resistance loci. Four significant quantitative trait loci (QTLs) were detected on chromosomes 1BL, 2BC (centromere region), 5BL and 6BL. These QTLs, named Lr46, QLr.cim-2BC, QLr.cim-5BL and QLr.cim-6BL, respectively, explained 13.5–60.8%, 9.0–14.3%, 2.8–13.9%, and 11.6–29.4%, respectively, of leaf rust severity variation by the inclusive composite interval mapping method. All of these resistance loci were contributed by the resistant parent Bairds, except for QLr.cim-2BC, which came from susceptible parent Atred#1. Among these, the QTL on chromosome 1BL was the known pleiotropic APR gene Lr46, whereas QLr.cim-6BL, a consistently detected locus, should be a new leaf rust resistance locus in durum wheat. The mean leaf rust severity of RILs carrying all four QTLs ranged from 8.0 to 17.5%, whereas it ranged from 10.9 to 38.5% for three QTLs (Lr46 + 5BL + 6BL) derived from the resistant parent Bairds. Two RILs with four QTLs combinations can be used as sources of complex APR in durum wheat breeding.

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References

  • Aguilar-Rincon V, Singh R, Castillo-Gonzalez F, Huerta-Espino J (2001) Genes of leaf rust resistance in a synthetic hexaploid wheat. Rev Fitotec Mex 24:161–169

    Google Scholar 

  • Anikster Y, Bushnell WR, Eilam T, Manisterski J, Roelfs AP (1997) Puccinia recondita causing leaf rust on cultivated wheats, wild wheats and rye. Can J Bot 75:2082–2096

    Article  Google Scholar 

  • Avni R, Nave M, Eilam T, Sela H, Alekperov C, Peleg Z, Dvorak J, Korol A, Distelfeld A (2014) Ultra-dense genetic map of durum wheat × wild emmer wheat developed using the 90 K iSelect SNP genotyping assay. Mol Breed 34:1549–1562

    Article  CAS  Google Scholar 

  • Bansal UK, Kazi AG, Singh B, Hare RA, Bariana HS (2014) Mapping of durable stripe rust resistance in a durum wheat cultivar Wollaroi. Mol Breed 33:51–59

    Article  CAS  Google Scholar 

  • Basnet BR, Singh RP, Herrera-Foessel SA, Ibrahim AMH, Huerta-Espino J, Calvo-Salazar V, Rudd J (2013) Genetic analysis of adult plant resistance to yellow rust and leaf rust in common spring wheat Quaiu#3. Plant Dis 97:728–736

    Article  CAS  Google Scholar 

  • Basnet BR, Singh RP, Ibrahim AMH, Herrera-Foessel SA, Huerta-Espino J, Lan CX, Rudd JC (2014) Characterization of Yr54 and other genes associated with adult plant resistance to yellow rust and leaf rust in common wheat Quaiu 3. Mol Breed 33:385–399

    Article  CAS  Google Scholar 

  • Bjarko ME, Line RF (1988) Heritability and number of genes controlling leaf rust resistance in four cultivars of wheat. Phytopathology 78:457–461

    Article  Google Scholar 

  • Bolton MD, Kolmer JA, Garvin DF (2008) Wheat leaf rust caused by Puccinia triticina. Mol Plant Pathol 9:563–575

    Article  PubMed  Google Scholar 

  • Chu CG, Friesen TL, Xu SS, Faris JD, Kolmer JA (2009) Identification of novel QTLs for seedling and adult plant leaf rust resistance in a wheat doubled haploid population. Theor Appl Genet 119:263–269

    Article  PubMed  Google Scholar 

  • Colasuonno P, Gadaleta A, Giancaspro A, Nigro D, Giove S, Incerti O, Mangini G, Signorile A, Simeone R, Blanco A (2014) Development of a high-density SNP-based linkage map and detection of yellow pigment content QTLs in durum wheat. Mol Breed 34:1563–1578

    Article  CAS  Google Scholar 

  • Diéguez MJ, Altieri E, Ingala LR, Perera E, Sacco F, Naranjo T (2006) Physical and genetic mapping of amplified fragment length polymorphisms and the leaf rust resistance Lr3 gene on chromosome 6BL of wheat. Theor Appl Genet 112:251–257

    Article  PubMed  Google Scholar 

  • Dreisigacker S, Sehgal D, Luna B, Reyes AE, Mollins J (eds) (2012) CIMMYT wheat molecular genetics laboratory protocols and applications to wheat breeding. CIMMYT, Mexico

    Google Scholar 

  • Francki MG, Walker E, Crawford AC, Broughton S, Ohm HW, Barclay I, Wilson RE, McLean R (2009) Comparison of genetic and cytogenetic maps of hexaploid wheat (Triticum aestivum L.) using SSR and DArT markers. Mol Genet Genom 281:181–191

    Article  CAS  Google Scholar 

  • Germán S, Barcellos A, Chaves M, Kohli M, De Campos P, Viedma L (2007) The situation of common wheat rusts in the Southern Cone of America and perspectives for control. Aust J Agric Res 58:620–630

    Article  Google Scholar 

  • Herrera-Foessel SA, Singh RP, Huerta-Espino J, Crossa J, Jin Y, Djurle A (2006) Effect of leaf rust on grain yield and yield traits of durum wheats with race-specific and slow rusting resistance to leaf rust. Plant Dis 90:1065–1072

    Article  Google Scholar 

  • Herrera-Foessel S, Singh RP, Huerta-Espino J, William H, Rosewarne G, Djurle A, Jin Y (2007) Identification and mapping of Lr3a and a linked leaf rust resistance gene in durum wheat. Crop Sci 47:1459–1466

    Article  CAS  Google Scholar 

  • Herrera-Foessel SA, Singh RP, Huerta-Espino J, Crossa J, Djurle A, Jin Y (2008a) Genetic analysis of slow-rusting resistance to leaf rust in durum wheat. Crop Sci 48:2132–2140

    Article  Google Scholar 

  • Herrera-Foessel SA, Singh RP, Huerta-Espino J, William HM, Garcia V, Djurle A, Jin Y (2008b) Identification and molecular characterization of leaf rust resistance gene Lr14a in durum wheat. Plant Dis 92:469–473

    Article  CAS  Google Scholar 

  • Herrera-Foessel SA, Singh RP, Huerta-Espino J, William HM, Djurle A, Jin Y (2008c) Molecular mapping of a leaf rust resistance gene on the short arm of chromosome 6B of durum wheat. Plant Dis 92:1650–1654

    Article  CAS  Google Scholar 

  • Herrera-Foessel SA, Singh RP, Huerta-Espino J, Salazar VC, Lagudah ES (2011) First report of slow rusting gene Lr46 in durum wheat. In: Technical workshop in Borlaug global rust initiative, June 13–16, 2011, St. Paul, MN, USA, p 191

  • Herrera-Foessel SA, Huerta-Espino J, Calvo-Salazar V, Lan CX, Singh RP (2014) Lr72 confers resistance to leaf rust in durum wheat cultivar Atil C2000. Plant Dis 98:631–635

    Article  Google Scholar 

  • Huang BE, George AW, Forrest KL, Kilian A, Hayden MJ, Morell MK, Cavanagh CR (2012) A multiparent advanced generation inter-cross population for genetic analysis in wheat. Plant Bio J 10:826–839

    Article  CAS  Google Scholar 

  • Huerta-Espino J, Singh R, Herrera-Foessel S, Perez-Lopez J, Figueroa-Lopez P (2009) First detection of virulence in Puccinia triticina to resistance genes Lr27 + Lr31 present in durum wheat in Mexico. Plant Dis 93:110

    Article  Google Scholar 

  • Huerta-Espino J, Singh R, Germán S, McCallum B, Park R, Chen W, Bhardwaj S, Goyeau H (2011) Global status of wheat leaf rust caused by Puccinia triticina. Euphytica 179:143–160

    Article  Google Scholar 

  • Johnson R (1981) Durable resistance: definition, genetic control, and attainment in plant breeding. Phytopathology 71:567–568

    Article  Google Scholar 

  • Knott DR, Padidam M (1988) Inheritance of resistance to stem rust in six wheat lines having adult plant resistance. Genome 30:283–288

    Article  Google Scholar 

  • Kolmer JA (2005) Tracking wheat rust on a continental scale. Curr Opin Plant Biol 8:441–449

    Article  PubMed  Google Scholar 

  • Lan CX, Rosewarne GM, Singh RP, Herrera-Foessel SA, Huerta-Espino J, Basnet BR, Zhang YL, Yang EN (2014a) QTL characterization of resistance to leaf rust and stripe rust in the spring wheat line Francolin#1. Mol Breed 34:789–803

    Article  CAS  Google Scholar 

  • Lan CX, Singh RP, Huerta-Espino J, Calvo-Salazar V, Herrera-Foessel SA (2014b) Genetic analysis of resistance to leaf rust and stripe rust in wheat cultivar Francolin#1. Plant Dis 98:1227–1234

    Article  Google Scholar 

  • Lillemo M, Asalf B, Singh RP, Huerta-Espino J, Chen XM, He ZH, Bjørnstad A (2008) The adult plant rust resistance loci Lr34/Yr18 and Lr46/Yr29 are important determinants of partial resistance to powdery mildew in bread wheat line Saar. Theor Appl Genet 116:1155–1166

    Article  CAS  PubMed  Google Scholar 

  • Marais GF, Pretorius ZA, Wellings CR, McCallum B, Marais AS (2005) Leaf rust and stripe rust resistance genes transferred to common wheat from Triticum dicoccoides. Euphytica 143:115–123

    Article  CAS  Google Scholar 

  • Marone D, Laidò G, Gadaleta A, Colasuonno P, Ficco DBM, Giancaspro A, Giove S, Panio G, Russo MA, Vita PD, Cattivelli L, Papa R, Blanco A, Mastrangelo AM (2012) A high-density consensus map of A and B wheat genomes. Theor Appl Genet 125:1619–1638

    Article  PubMed  PubMed Central  Google Scholar 

  • Martínez F, Sillero JC, Rubiales D (2007) Resistance to leaf rust in cultivars of bread wheat and durum wheat grown in Spain. Plant Breed 126:13–18

    Article  Google Scholar 

  • McCartney CA, Somers DJ, McCallum BD, Thomas J, Humphreys DG, Menzies JG, Brown PD (2005) Microsatellite tagging of the leaf rust resistance gene Lr16 on wheat chromosome 2BSc. Mol Breed 15:329–337

    Article  CAS  Google Scholar 

  • McDonald DB, McIntosh RA, Wellings CR, Singh RP, Nelson JC (2004) Cytogenetical studies in wheat XIX. Location and linkage studies on gene Yr27 for resistance to stripe (yellow) rust. Euphytica 136:239–248

    Article  CAS  Google Scholar 

  • McIntosh RA, Dyck PL (1975) Cytogenetical studies in wheat VII. Gene Lr23 for reaction to Puccinia recondita in Gabo and related cultivars. Aus J Bio Sci 28:201–211

    Article  Google Scholar 

  • McIntosh RA, Dubcovsky J, Rogers WJ, Morris C, Appels R, Xia XC (2014) Catalogue of gene symbols for wheat: 2013–2014 supplement

  • Meng L, Li HH, Zhang LY, Wang JK (2015) QTL IciMapping: integrated software for genetic linkage map construction and quantitative trait locus mapping in biparental populations. Crop J 3:269–283

    Article  Google Scholar 

  • Messmer MM, Seyfarth R, Keller M, Schachermayr G, Winzeler M, Zanetti S, Feuillet C, Keller B (2000) Genetic analysis of durable leaf rust resistance in winter wheat. Theor Appl Genet 100:419–431

    Article  CAS  Google Scholar 

  • Mishra AN, Kaushal K, Dubey VG, Sal Prasad SV (2015) Genetic diversity for leaf rust resistance in durum wheat (Triticum durum). Indian Phytopathol 68:145–148

    Google Scholar 

  • Peleg Z, Saranga Y, Suprunova T, Ronin Y, Roder MS, Kilian A, Korol AB, Fahima T (2008) High density genetic map of durum wheat 9 wild emmer wheat based on SSR and DArT markers. Theor Appl Genet 117:103–115

    Article  CAS  PubMed  Google Scholar 

  • Peterson RF, Campbell AB, Hannah AE (1948) A diagrammatic scale for estimating rust intensity on leaves and stems of cereals. Can J Res 26:496–500

    Article  Google Scholar 

  • Rosewarne GM, Singh RP, Huerta-Espino J, Rebetzke GJ (2008) Quantitative trait loci for slow-rusting resistance in wheat to leaf rust and stripe rust identified with multi-environment analysis. Theor Appl Genet 116:1027–1034

    Article  CAS  PubMed  Google Scholar 

  • Rosewarne GM, Singh RP, Huerta-Espino J, Herrera-Foessel SA, Forrest KL, Hayden MJ, Rebetzke GJ (2012) Analysis of leaf and stripe rust severities reveals pathotype changes and multiple minor QTLs associated with resistance in an Avocet × Pastor wheat population. Theor Appl Genet 124:1283–1294

    Article  CAS  PubMed  Google Scholar 

  • Russo MA, Ficco DBM, Laidò G, Marone D, Papa R, Blanco A, Gadaleta A, Vita PD, Mastrangelo AM (2014) A dense durum wheat × T. dicoccum linkage map based on SNP markers for the study of seed morphology. Mol Breed 34:1579–1597

    Article  Google Scholar 

  • Sacco F, Suárez EY, Naranjo T (1998) Mapping of the leaf rust resistance gene Lr3 on chromosome 6B of Sinvalocho MA wheat. Genome 41:686–690

    Article  CAS  Google Scholar 

  • Seyfarth R, Feuillet C, Schachermayr G, Messmer M, Winzeler M, Keller B (2000) Molecular mapping of the adult-plant leaf rust resistance gene Lr13 in wheat (Triticum aestivum L.). J Genet Breed 54:193–198

    CAS  Google Scholar 

  • Singh RP, Rajaram S (1992) Genetics of adult-plant resistance to leaf rust in ‘Frontana’ and three CIMMYT wheats. Genome 35:24–31

    Article  Google Scholar 

  • Singh H, Dhaliwal HS, Gill KS (1992) Diversity for leaf rust resistance in Triticum durum germplasm. Cereal Rusts Powdery Mildews Bull 20:62–67

    Google Scholar 

  • Singh RP, Mujeeb-Kazi A, Huerta-Espino J (1998) Lr46: a gene conferring slow rusting resistance to leaf rust in wheat. Phytopathology 88:890–894

    Article  CAS  PubMed  Google Scholar 

  • Singh RP, Huerta-Espino J, Rajaram S (2000) Achieving near immunity to leaf and stripe rusts in wheat by combining slow rusting resistance genes. Acta Phytopathol Entomol Hung 35:133–139

    CAS  Google Scholar 

  • Singh RP, William HMJ, Huerta-Espino J, Rosewarne G (2004) Wheat rust in Asia: Meeting the challenges with old and new technology. In New directions of a diverse planet. In: Proceedings of the 4th Crop Science Congress, Brisbane, Australia, 26 Sept–1 Oct 2004. Regional Inst., Gosford, NSW, Australia. http://www.cropscience.org.au/icsc2004/symposia/3/7/141_singhrp.htm (verified 2 Sept. 2008)

  • Singh A, Pandey MP, Singh AK, Knox RE, Ammar K, Clarke JM, Clarke FR, Singh RP, Pozniak CJ, Depauw RM, McCallum BD, Cuthbert RD, Randhawa HS, Fetch TG Jr (2013a) Identification and mapping of leaf, stem and stripe rust resistance quantitative trait loci and their interactions in durum wheat. Mol Breed 31:405–418

    Article  CAS  PubMed  Google Scholar 

  • Singh RP, Herrera-Foessel SA, Huerta-Espino J, Lan CX, Basnet BR, Bhavani S, Lagudah ES (2013b) Pleiotropic gene Lr46/Yr29/Pm39/Ltn2 confers slow rusting, adult plant resistance to wheat stem rust fungus.In: Proceedings Borlaug Global Rust Initiative, 2013 Technical Workshop, 19–22 August, New Dehli, India, p 17.1

  • Somers DJ, Isaac P, Edwards K (2004) A high-density microsatellite consensus map for bread wheat (Triticum aestivum L.). Theor Appl Genet 109:1105–1114

    Article  CAS  PubMed  Google Scholar 

  • Szabo LJ, Markova J, Eilam T, Manisterski J, Ben Yehuda P (2004) In search of the correct name for leaf rust of cultivated wheat. 11th International Cereal Rusts and Powdery Mildews Conference, Norwich, A1.51

  • Trebbi D, Maccaferri M, Heer PD, Sørensen A, Giuliani S, Salvi S, Sanguineti MC, Massi A, van der Vossen EAG, Tuberosa R (2011) High-throughput SNP discovery and genotyping in durum wheat (Triticum durum Desf.). Theor Appl Genet 123:555–569

    Article  PubMed  Google Scholar 

  • Van Ooijen JW (2006) Join Map 4, software for the calculation of genetic linkage maps in experimental population. Plant Research International, Wageningen

    Google Scholar 

  • Voorrips RE (2002) MapChart: software for the graphical presentation of linkage maps and QTLs. Heredity 93:77–78

    Article  CAS  Google Scholar 

  • Wang SC, Basten J, Zeng ZB (2012) Windows QTL Cartographer 2.5. Department of Statistics, North Carolina State University, Raleigh, NC (http://statgen.ncsu.edu/qtlcart/WQTLCart.htm)

  • Wilkinson PA, Winfield MO, Barker GLA, Allen AM, Burridge A, Coghill JA, Burridge A, Edwards KJ (2012) CerealsDB 2.0: an integrated resource for plant breeders and scientists. BMC Bio 13:219

    Article  Google Scholar 

  • William HM, Singh RP, Huerta-Espino J, Palacios G, Suenaga K (2006) Characterization of genetic loci conferring adult plant resistance to leaf rust and stripe rust in spring wheat. Genome 49:977–990

    Article  CAS  PubMed  Google Scholar 

  • Wright S (1968) Evolution and the genetics of populations. Vol. 1. Genetic and biometric foundations. University of Chicago Press, Chicago

    Google Scholar 

  • Xu XY, Bai GH, Carver BF, Shaner GE, Hunger RM (2005) Mapping of QTLs prolonging the latent period of Puccinia triticina infection in wheat. Theor Appl Genet 110:244–251

    Article  PubMed  Google Scholar 

  • Yamamori M (1994) An N-band marker for gene Lr18 for resistance to leaf rust in wheat. Theor Appl Genet 89:643–646

    Article  CAS  PubMed  Google Scholar 

  • Yang EN, Rosewarne GM, Herrera-Foessel SA, Huerta-Espino J, Tang ZX, Sun CF, Ren ZL, Singh RP (2013) QTL analysis of the spring wheat ‘Chapio’ identifies stable stripe rust resistance despite inter-continental genotype × environment interactions. Theor Appl Genet 126:1721–1732

    Article  CAS  PubMed  Google Scholar 

  • Zhang H, Knott DR (1990) Inheritance of leaf rust resistance in durum wheat. Crop Sci 30:1218–1222

    Article  Google Scholar 

  • Zhang L, Li Z, Lillemo M, Xia X, Liu D, Yang W, Luo J, Wang H (2009) QTL mapping for adult-plant resistance to leaf rust in CIMMYT wheat cultivar Saar. Sci Agric Sin 42:388–397

    CAS  Google Scholar 

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Acknowledgements

This work was supported by the Australian Grains Research and Development Corporation (GRDC), the Australian Cereal Rust Control Program (ACRCP) and the National Natural Science Foundation of China (31301309). We appreciate the technical editing by Genevieve Renard.

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Authors and Affiliations

  1. International Maize and Wheat Improvement Center (CIMMYT), Apdo. Postal 6-641, 06600, Texcoco, México D.F., Mexico

    Caixia Lan, Bhoja R. Basnet, Ravi P. Singh, Sybil A. Herrera-Foessel & Mandeep S. Randhawa

  2. Campo Experimental Valle de México INIFAP, Apdo. Postal 10, 56230, Chapingo, Texcoco, Edo. de México, Mexico

    Julio Huerta-Espino

  3. Mianyang Institute of Agricultural Science/Mianyang Branch of National Wheat Improvement Center, 8 Songjiang Road, Mianyang, 621023, Sichuan, People’s Republic of China

    Yong Ren

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  1. Caixia Lan
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  2. Bhoja R. Basnet
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  4. Julio Huerta-Espino
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  5. Sybil A. Herrera-Foessel
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Correspondence to Caixia Lan.

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Lan, C., Basnet, B.R., Singh, R.P. et al. Genetic analysis and mapping of adult plant resistance loci to leaf rust in durum wheat cultivar Bairds. Theor Appl Genet 130, 609–619 (2017). https://doi.org/10.1007/s00122-016-2839-3

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