KASP SNPs Summary Statistics
- Total number of varietal SNPs in SNP database: 99,945
- Markers for which assays have been developed: 8,700
- Marker assays that have been validated: 7,228
- Markers that have been mapped: 4,992
This study was undertaken to mine UK wheat germplasm for varietal SNPs. We used both the available wheat expressed sequence tags (ESTs) that are reposited in the public databases and next-generation sequencing (NGS), together with a novel sequence alignment and assembly approach to identify varietal SNPs in lines of interest to European wheat breeders (23 wheat varieties were used in the initial study). We then investigated whether these SNPs could be validated by the LGC Genomics (formerly KBioscience) high-throughput genotyping procedure, Competitive Allele-Specific polymerase chain reaction (KASP) assay. Finally, we made use of the existing Avalon X Cadenza mapping population to examine whether the validated SNPs could be efficiently placed onto the existing linkage groups identified within this doubled haploid population. The details of this work are available in the article Transcript-specific, single-nucleotide polymorphism discovery and linkage analysis in hexaploid bread wheat (Triticum aestivum L.).