Primers for wheat SNP-Chips

The following files contain designed primers to known markers

Wheat Axiom 820k

The Axiom chip was developed by the WISP, for further information go here

• Located against Chinese Spring RefSeq 1.0. The markers where extracted from ensembl plants, release 40.

The primers where designed against the pseudomolecules described in IWGSC(2018)[1].

Wheat iSelect 90k

The markers in this section are from the Illumina iSelect chip described in Wang (2014)[2].

• Located against CSS 81,587 SNPs located according to the best hit to the scaffolds from the IWGSC[3]
• Genetically mapped 46,977 SNPs located according to the genetic map.

The primers were designed against the soft-masked reference as released in ensembl plants IWGSC1[3]. For an updated version of the primers, please look at the primers of the Wheat Axiom 820k section above, which contains the SNPs in the iSelect chip.

References

[1]: International Wheat Genome Sequencing Consortium (2018), Shifting the limits in wheat research and breeding using a fully annotated reference genome. Science, 361(eaar7191). doi: 10.1126/science.aar7191

[2]: Wang, S., Wong, D., Forrest, K., et al. (2014), Characterization of polyploid wheat genomic diversity using a high-density 90 000 single nucleotide polymorphism array. Plant Biotechnology Journal, 12: 787-796. doi:10.1111/pbi.12183

[3]: International Wheat Genome Sequencing Consortium. (2014). A chromosome-based draft sequence of the hexaploid bread wheat (Triticum aestivum) genome. Science, 345(6194), 1251788-1251788. doi:10.1126/science.1251788