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Theoretical and Applied Genetics

, Volume 132, Issue 1, pp 125–135 | Cite as

A strategy for identifying markers linked with stem rust resistance in wheat harbouring an alien chromosome introgression from a non-sequenced genome

  • Jianping Zhang
  • Peng Zhang
  • Timothy Hewitt
  • Jianbo Li
  • Ian Dundas
  • Wendelin Schnippenkoetter
  • Sami Hoxha
  • Chunhong Chen
  • Robert Park
  • Evans Lagudah
Original Article

Abstract

Key message

A set of molecular markers was developed for Sr26 from comparative genomic analysis. The comparative genomic approach also enabled the identification of a previously uncharacterised wheat chromosome that carried Sr26.

Abstract

Stem rust of wheat, a biotic stress caused by a fungal pathogen, continues to pose significant threats to wheat production. Considerable effort has been directed at surveillance and breeding approaches to minimize the impact of the widely virulent race of the stem rust pathogen (Puccinia graminis f. sp. tritici, Pgt) commonly known as Ug99 (TTKSK) and other races in its lineage. The stem rust resistance gene Sr26, derived from Thinopyrum ponticum, is an excellent example of the successful utilization of a gene from a wild relative of a crop plant and remains one of the few durable sources of resistance currently effective against all known field isolates of Pgt. We explored comparative genomic analysis of the nucleotide binding leucine rich repeat (NLR) genes of the diploid D genome and bread wheat genomes to target the Sr26 region from the non-sequenced Th. ponticum genome. A chromosomal interval harboring NLR genes in the distal end of homoeologous group 6 chromosomes was used to demarcate the Sr26 locus. A set of closely linked PCR-based molecular markers was developed for Sr26. Furthermore, the comparative analysis approach enabled the unambiguous identification of a previously uncharacterised wheat chromosome that carried Sr26 in an introgressed Th. ponticum segment and was validated by fluorescent and genomic in situ hybridisation (FISH/GISH) experiments. The genetic information generated from the target interval based on this study will benefit future related studies on group 6 chromosomes of wheat, including 6Dt from Aegilops tauschii, and chromosome 6Ae#1 from Th. ponticum.

Notes

Acknowledgements

This work was financially supported by the Grains Research and Development Corporation (GRDC), Australia. The first author was supported by the National Science Foundation (NSF), the Monsanto Beachell–Borlaug International Scholars Programs (MBBISP), USA, and the Research Training Program (RTP) of the Australian Department of Education and Training. We thank Dr. Xiuying Kong from CAAS for kindly providing the 6Dt NLR annotation information and Prof. Robert A. McIntosh from the University of Sydney for comment on the manuscript.

Compliance with ethical standards

Conflict of interest

The authors declare that they have no conflict of interest.

Supplementary material

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References

  1. Bhalla N, Dernburg AF (2008) Prelude to a division. Annu Rev Cell Dev Biol 24:397–424.  https://doi.org/10.1146/annurev.cellbio.23.090506.123245 CrossRefPubMedPubMedCentralGoogle Scholar
  2. Dundas I, Zhang P, Verlin D, Graner A, Shepherd K (2015) Chromosome engineering and physical mapping of the Thinopyrum ponticum translocation in wheat carrying the rust resistance gene Sr26. Crop Sci 55:648–657.  https://doi.org/10.2135/cropsci2014.08.0590 CrossRefGoogle Scholar
  3. Knott DR (1961) The inheritance of rust resistance. VI the transfer of stem rust resistance from Agropyron elongatum to common wheat. Can J Plant Sci 41:109–123.  https://doi.org/10.4141/cjps61-014 CrossRefGoogle Scholar
  4. Lang T, La S, Li B, Yu Z, Chen Q, Li J, Yang E, Li G, Yang Z (2018) Precise identification of wheat—Thinopyrum intermedium translocation chromosomes carrying resistance to wheat stripe rust in line Z4 and its derived progenies. Genome 61:177–185.  https://doi.org/10.3835/plantgenome2015.09.0084 CrossRefPubMedGoogle Scholar
  5. Lewis CM, Persoons A, Bebber DP, Kigathi RN, Maintz J, Findlay K, Bueno-Sancho V, Corredor-Moreno P, Harrington SA, Kangara N, Berlin A, García R, Germán SE, Hanzalová A, Hodson DP, Hovmøller MS, Huerta-Espino J, Imtiaz M, Mirza JI, Justesen AF, Niks RE, Omrani A, Patpour M, Pretorius ZA, Roohparvar R, Sela H, Singh RP, Steffenson B, Visser B, Fenwick PM, Thomas J, Wulff BBH, Saunders DGO (2018) Potential for re-emergence of wheat stem rust in the United Kingdom. Commun Biol 1:1–13.  https://doi.org/10.1038/s42003-018-0013-y CrossRefGoogle Scholar
  6. Liang JC, Fu BS, Tang WB, Khan NU, Li N, Ma ZQ (2016) Fine mapping of two wheat powdery mildew resistance genes located at the Pm1 cluster. Plant Genome 9:1–9.  https://doi.org/10.3835/plantgenome2015.09.0084 CrossRefGoogle Scholar
  7. Liu S, Yu LX, Singh RP, Jin Y, Sorrells ME, Anderson JA (2010) Diagnostic and co-dominant PCR markers for wheat stem rust resistance genes Sr25 and Sr26. Theor Appl Genet 120:691–697.  https://doi.org/10.1007/s00122-009-1186-z CrossRefPubMedGoogle Scholar
  8. Loutre C, Wicker T, Travella S, Galli P, Scofield S, Fahima T, Feuillet C, Keller B (2009) Two different CC-NBS-LRR genes are required for Lr10-mediated leaf rust resistance in tetraploid and hexaploid wheat. Plant J 60:1043–1054.  https://doi.org/10.1111/j.1365-313X.2009.04024.x CrossRefPubMedGoogle Scholar
  9. Mago R, Bariana HS, Dundas IS, Spielmeyer W, Lawrence GJ, Pryor AJ, Ellis JG (2005) Development of PCR markers for the selection of wheat stem rust resistance genes Sr24 and Sr26 in diverse wheat germplasm. Theor Appl Genet 111:496–504.  https://doi.org/10.1007/s00122-005-2039-z CrossRefPubMedGoogle Scholar
  10. McIntosh RA, Wellings CR, Park RF (1995) Wheat rusts: an atlas of resistance genes. CSIRO, East MelbourneCrossRefGoogle Scholar
  11. Park RF (2007) Stem rust of wheat in Australia. Aust J Agric Res 58:558–566.  https://doi.org/10.1071/Ar07117 CrossRefGoogle Scholar
  12. Pawlowski WP, Golubovskaya IN, Timofejeva L, Meeley RB, Sheridan WF, Cande WZ (2004) Coordination of meiotic recombination, pairing, and synapsis by PHS1. Science 303:89–92.  https://doi.org/10.1126/science.1091110 CrossRefPubMedGoogle Scholar
  13. Qureshi N, Kandiah P, Gessese MK, Nsabiyera V, Wells V, Babu P, Wong D, Hayden M, Bariana H, Bansal U (2018) Development of co-dominant KASP markers co-segregating with Ug99 effective stem rust resistance gene Sr26 in wheat. Mol Breed 38:97.  https://doi.org/10.1007/s11032-018-0854-6 CrossRefGoogle Scholar
  14. Singh RP, McIntosh RA (1987) Genetics of resistance to Puccinia graminis tritici in chris and W3746 wheats. Theor Appl Genet 73:846–855.  https://doi.org/10.1007/BF00289389 CrossRefPubMedGoogle Scholar
  15. Singh RP, Hodson DP, Jin Y, Lagudah ES, Ayliffe MA, Bhavani S, Rouse MN, Pretorius ZA, Szabo LJ, Huerta-Espino J, Basnet BR, Lan C, Hovmoller MS (2015) Emergence and spread of new races of wheat stem rust fungus: continued threat to food security and prospects of genetic control. Phytopathology 105:872–884.  https://doi.org/10.1094/PHYTO-01-15-0030-FI CrossRefPubMedGoogle Scholar
  16. Stakman EC, Stewart DM, Loegering WQ (1962) Identification of physiological races of Pucinia graminis var. tritici. Agri Res Serv E617. United States Department of Agriculture, Washington DCGoogle Scholar
  17. Steuernagel B, Periyannan SK, Hernandez-Pinzon I, Witek K, Rouse MN, Yu G, Hatta A, Ayliffe M, Bariana H, Jones JD, Lagudah ES, Wulff BB (2016) Rapid cloning of disease-resistance genes in plants using mutagenesis and sequence capture. Nat Biotechnol 34:652–655.  https://doi.org/10.1038/nbt.3543 CrossRefPubMedGoogle Scholar
  18. Tang Z, Yang Z, Fu S (2014) Oligonucleotides replacing the roles of repetitive sequences pAs1, pSc119.2, pTa-535, pTa71, CCS1, and pAWRC.1 for FISH analysis. J Appl Genet 55:313–318.  https://doi.org/10.1007/s13353-014-0215-z CrossRefPubMedGoogle Scholar
  19. The TT, Latter BDH, McIntosh RA, Ellison FW, Brennan PS, Fisher J, Hollamby GJ, Rathjen AJ, Wilson RE (1988) Grain yields of near isogenic lines with added genes for stem rust resistance. In: Miller TE, Koebner RMD (eds) 7th international wheat genetics symposium, Cambridge, UK, pp 901–906Google Scholar
  20. Yu G, Hatta A, Periyannan S, Lagudah E, Wulff BBH (2017) Isolation of wheat genomic DNA for gene mapping and cloning. Methods Mol Biol 1659:207–213.  https://doi.org/10.1007/978-1-4939-7249-4_18 CrossRefPubMedGoogle Scholar
  21. Zhang P, Friebe B, Lukaszewski AJ, Gill BS (2001) The centromere structure in Robertsonian wheat-rye translocation chromosomes indicates that centric breakage-fusion can occur at different positions within the primary constriction. Chromosoma 110:335–344.  https://doi.org/10.1007/s004120100159 CrossRefPubMedGoogle Scholar
  22. Zhang W, Chen S, Abate Z, Nirmala J, Rouse MN, Dubcovsky J (2017) Identification and characterization of Sr13, a tetraploid wheat gene that confers resistance to the Ug99 stem rust race group. Proc Natl Acad Sci USA 114:E9483–E9492.  https://doi.org/10.1073/pnas.1706277114 CrossRefPubMedGoogle Scholar
  23. Zou S, Wang H, Li Y, Kong Z, Tang D (2018) The NB-LRR gene Pm60 confers powdery mildew resistance in wheat. New Phytol 218:298–309.  https://doi.org/10.1111/nph.14964 CrossRefPubMedGoogle Scholar

Copyright information

© Springer-Verlag GmbH Germany, part of Springer Nature 2018

Authors and Affiliations

  1. 1.University of Sydney, Plant Breeding Institute CobbittyCobbittyAustralia
  2. 2.CSIRO Agriculture & FoodCanberraAustralia
  3. 3.Henan Tianmin Seed Company Ltd.South Industrial District, LankaoPeople’s Republic of China
  4. 4.School of Life Science and TechnologyUniversity of Electronic Science and Technology of ChinaChengduPeople’s Republic of China
  5. 5.School of Agriculture, Food and WineThe University of AdelaideUrrbraeAustralia

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