A catalogue of resistance gene homologs and a chromosome-scale reference sequence support resistance gene mapping in winter wheat

Sandip M. Kale, Albert W. Schulthess, Sudharsan Padmarasu, Philipp H.G. Boeven, Johannes Schacht, Axel Himmelbach, Burkhard Steuernagel, Brande B.H. Wulff, Jochen C. Reif, Nils Stein*, Martin Mascher*

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

15 Scopus citations


A resistance gene atlas is an integral component of the breeder’s arsenal in the fight against evolving pathogens. Thanks to high-throughput sequencing, catalogues of resistance genes can be assembled even in crop species with large and polyploid genomes. Here, we report on capture sequencing and assembly of resistance gene homologs in a diversity panel of 907 winter wheat genotypes comprising ex situ genebank accessions and current elite cultivars. In addition, we use accurate long-read sequencing and chromosome conformation capture sequencing to construct a chromosome-scale genome sequence assembly of cv. Attraktion, an elite variety representative of European winter wheat. We illustrate the value of our resource for breeders and geneticists by (i) comparing the resistance gene complements in plant genetic resources and elite varieties and (ii) conducting genome-wide associations scans (GWAS) for the fungal diseases yellow rust and leaf rust using reference-based and reference-free GWAS approaches. The gene content under GWAS peaks was scrutinized in the assembly of cv. Attraktion.

Original languageEnglish (US)
Pages (from-to)1730-1742
Number of pages13
JournalPlant biotechnology journal
Issue number9
StatePublished - Sep 2022

Bibliographical note

Funding Information:
Our research was supported by a grant from the German Federal Ministry of Education and Research (BMBF) in the frame of the project GeneBank2.0 (grant nos. FKZ031B0184B and FKZ031B0184A). Open‐access fees were partially covered by a grant from the German Research Foundation (DFG, grant HE 9114/1‐1). We thank Susanne König, Jacqueline Pohl, Ines Walde, Manuela Knauft, Mary Ziems, Christoph Martin, Jelena Perovic and Johannes Schneider for technical assistance. We are grateful to Anne Fiebig and Daniel Arend for their support in data submission. Open Access funding enabled and organized by Projekt DEAL.

Publisher Copyright:
© 2022 The Authors. Plant Biotechnology Journal published by Society for Experimental Biology and The Association of Applied Biologists and John Wiley & Sons Ltd.


  • association genetics
  • genome assembly
  • leaf rust
  • resistance gene enrichment sequencing
  • wheat
  • yellow rust

ASJC Scopus subject areas

  • Biotechnology
  • Agronomy and Crop Science
  • Plant Science


Dive into the research topics of 'A catalogue of resistance gene homologs and a chromosome-scale reference sequence support resistance gene mapping in winter wheat'. Together they form a unique fingerprint.

Cite this