High-density SNP genotyping array for hexaploid wheat and its secondary and tertiary gene pool

Mark O Winfield, Alexandra M Allen, Amanda J Burridge, Gary L A Barker, Harriet R Benbow, Paul A Wilkinson, Jane Coghill, Christy Waterfall, Alessandro Davassi, Geoff Scopes, Ali Pirani, Teresa Webster, Fiona Brew, Claire Bloor, Julie King, Claire West, Simon Griffiths, Ian King, Alison R Bentley, Keith J Edwards

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In wheat, a lack of genetic diversity between breeding lines has been recognized as a significant block to future yield increases. Species belonging to bread wheat's secondary and tertiary gene pools harbour a much greater level of genetic variability, and are an important source of genes to broaden its genetic base. Introgression of novel genes from progenitors and related species has been widely employed to improve the agronomic characteristics of hexaploid wheat, but this approach has been hampered by a lack of markers that can be used to track introduced chromosome segments. Here, we describe the identification of a large number of single nucleotide polymorphisms that can be used to genotype hexaploid wheat and to identify and track introgressions from a variety of sources. We have validated these markers using an ultra-high-density Axiom(®) genotyping array to characterize a range of diploid, tetraploid and hexaploid wheat accessions and wheat relatives. To facilitate the use of these, both the markers and the associated sequence and genotype information have been made available through an interactive web site.

Original languageEnglish
Pages (from-to)1195-206
Number of pages12
JournalPlant Biotechnology Journal
Issue number5
Early online date15 Oct 2015
Publication statusPublished - May 2016


  • genotyping array
  • next-generation sequencing
  • secondary and tertiary gene pools
  • single nucleotide polymorphism
  • wheat
  • wheat progenitors

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