Theoretical and Applied Genetics

, Volume 128, Issue 7, pp 1373–1383 | Cite as

Chromosomal genomics facilitates fine mapping of a Russian wheat aphid resistance gene

  • Helena Staňková
  • Miroslav Valárik
  • Nora L. V. Lapitan
  • Paul J. Berkman
  • Jacqueline Batley
  • David Edwards
  • Ming-Cheng Luo
  • Zuzana Tulpová
  • Marie Kubaláková
  • Nils Stein
  • Jaroslav Doležel
  • Hana Šimková
Original Paper

Abstract

Key message

Making use of wheat chromosomal resources, we developed 11 gene-associated markers for the region of interest, which allowed reducing gene interval and spanning it by four BAC clones.

Abstract

Positional gene cloning and targeted marker development in bread wheat are hampered by high complexity and polyploidy of its nuclear genome. Aiming to clone a Russian wheat aphid resistance gene Dn2401 located on wheat chromosome arm 7DS, we have developed a strategy overcoming problems due to polyploidy and enabling efficient development of gene-associated markers from the region of interest. We employed information gathered by GenomeZipper, a synteny-based tool combining sequence data of rice, Brachypodium, sorghum and barley, and took advantage of a high-density linkage map of Aegilops tauschii. To ensure genome- and locus-specificity of markers, we made use of survey sequence assemblies of isolated wheat chromosomes 7A, 7B and 7D. Despite the low level of polymorphism of the wheat D subgenome, our approach allowed us to add in an efficient and cost-effective manner 11 new gene-associated markers in the Dn2401 region and narrow down the target interval to 0.83 cM. Screening 7DS-specific BAC library with the flanking markers revealed a contig of four BAC clones that span the Dn2401 region in wheat cultivar ‘Chinese Spring’. With the availability of sequence assemblies and GenomeZippers for each of the wheat chromosome arms, the proposed strategy can be applied for focused marker development in any region of the wheat genome.

Supplementary material

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Supplementary material 1 (PDF 6246 kb)
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Supplementary material 2 (PDF 113 kb)
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Supplementary material 3 (PDF 111 kb)
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Supplementary material 4 (PDF 304 kb)
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Supplementary material 5 (PDF 125 kb)

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Copyright information

© Springer-Verlag Berlin Heidelberg 2015

Authors and Affiliations

  • Helena Staňková
    • 1
  • Miroslav Valárik
    • 1
  • Nora L. V. Lapitan
    • 2
    • 3
  • Paul J. Berkman
    • 4
  • Jacqueline Batley
    • 5
  • David Edwards
    • 5
    • 6
  • Ming-Cheng Luo
    • 7
  • Zuzana Tulpová
    • 1
  • Marie Kubaláková
    • 1
  • Nils Stein
    • 8
  • Jaroslav Doležel
    • 1
  • Hana Šimková
    • 1
  1. 1.Centre of the Region Haná for Biotechnological and Agricultural ResearchInstitute of Experimental BotanyOlomoucCzech Republic
  2. 2.Department of Soil and Crop SciencesColorado State UniversityFort CollinsUSA
  3. 3.USAID/Bureau for Food SecurityWashingtonUSA
  4. 4.CSIRO Plant IndustryBrisbaneAustralia
  5. 5.School of Plant BiologyUniversity of Western AustraliaPerthAustralia
  6. 6.Institute of AgricultureUniversity of Western AustraliaPerthAustralia
  7. 7.Department of Plant SciencesUniversity of CaliforniaDavisUSA
  8. 8.Department Genebank, AG Genome DiversityLeibniz Institute of Plant Genetics and Crop Plant ResearchGaterslebenGermany

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