Abstract
A lack of genetic diversity between wheat breeding lines has been recognized as a significant block to future yield increases. Wheat breeding and prebreeding strategies are increasingly using material from wheat ancestors or wild relatives to reintroduce diversity. Where molecular markers are polymorphic between the host and introgressed material, they may be used to track the size and location of the introgressed material through generations of backcrossing. To generate markers for this purpose, sequence capture targeted resequencing was carried out for a range of wheat varieties, wheat relatives, and wheat progenitors. From these sequences, putative SNPs were identified and used to generate the Axiom® Wheat HD array. A selection of varieties representing a selection of elite wheat breeding material, progenitor species, and wild relatives were used to validate the array. The procedures used are described here in detail.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
References
Paux E, Sourdille R, MacKay I, Feuillet C (2012) Sequence-based marker development in wheat: advances and applications to breeding. Biotechnol Adv 30(5):1071–1088
Dubcovsky J, Dvorak J (2007) Genome plasticity a key factor in the success of polyploid wheat under domestication. Science 316:1862–1866
Matsuoka Y (2011) Evolution of polyploidy Triticum wheats under cultivation: the role of domestication, natural hybridization and allopolyploid speciation in their diversification. Plant Cell Physiol 52:750–764
Shewry PR (2009) Wheat. J Exp Bot 60:1537–1553
Tanksley SD, McCouch SR (1997) Seed banks and molecular maps: unlocking genetic potential from the wild. Science 277:1063–1066
Haudry A, Cenci A, Ravel C, Bataillon T, Brunel D, Poncet C, Hochu I, Poirier S, Santoni S, Glemin S, David J (2007) Grinding up wheat: a massive loss of nucleotide diversity since domestication. Mol Biol Evol 24:1506–1517
Roussel V, Koenig J, Beckert M, Balfourier F (2004) Molecular diversity in French bread wheat accessions related to temporal trends and breeding programmes. Theor Appl Genet 108:920–930
White J, Law JR, Mackay I, Chalmers KJ, Smith JSC, Kilian A, Powell W (2008) The genetic diversity of UK, US and Australian cultivars of Triticum aestivum measured by DArT markers and considered by genome. Theor Appl Genet 116:439–453
Molnár-Láng M, Line G, Szakács É (2014) Wheat-barley hybridization: the last 40 years. Euphytica 195:315–329
Gao L, Turner KM, Chao S, Kolmer J, Anderson JA (2016) Genome wide association study of seedling and adult leaf rust resistance in elite spring wheat breeding lines. PLoS One. doi:10.1371/journal.pone.0148671
Sukumaran S, Dreisiqacker S, Lopes M, Chavez P, Reynolds MP (2015) Genome wide association study for grain yield and related traits in an elite spring wheat population grown in temperate irrigated environments. Thoer Appl Genet 128:353–363
Winfield MO, Allen AM, Burridge AJ, Barker GLA, Benbow HR, Wilkinson PA, Coghill J, Waterfall C, Davassi A, Scopes G, Pirani A, Webster T, Brew F, Bloor C, King J, West C, Griffiths S, King I, Bentley AR, Edwards KJ (2016) High-density SNP genotyping array for hexaploid wheat and its secondary and tertiary gene pool. Plant Biotechnol J 14(5):1195–1206
Allen AM, Winfield MO, Burridge AJ, Downie R, Benbow HR, Barker GLA, Wilkinson PA, Coghill J, Waterfall C, Davassi A, Scopes G, Pirani A, Webster T, Brew F, Bloor C, Griffiths S, Bentley AR, Alda M, Jack P, Phillips A, Edwards KJ (2016) Characterisation of a wheat breeders’ array suitable for high throughput SNP genotyping of global accessions of hexaploid bread wheat (Triticum aestivum). Plant Biotechnol J. doi:10.1111/pbi.12635
King J, Grewal S, Yang C, Hubbart S, Scholefield D, Ashling S, Edwards KJ, Allen AM, Burridge A, Bloor C, Dayassi A, da Silva GJ, Chalmers K, King IP (2017) A step change in the transfer of interspecific variation into wheat from Amblyopyrum muticum. Plant Biotechnol J 15(2):217–226
Author information
Authors and Affiliations
Corresponding author
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2017 Springer Science+Business Media LLC
About this protocol
Cite this protocol
Burridge, A.J. et al. (2017). High-Density SNP Genotyping Array for Hexaploid Wheat and Its Relatives. In: Bhalla, P., Singh, M. (eds) Wheat Biotechnology. Methods in Molecular Biology, vol 1679. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-7337-8_19
Download citation
DOI: https://doi.org/10.1007/978-1-4939-7337-8_19
Published:
Publisher Name: Humana Press, New York, NY
Print ISBN: 978-1-4939-7335-4
Online ISBN: 978-1-4939-7337-8
eBook Packages: Springer Protocols