Application of Array SNP and GBS in Genetics and Breeding of Hard Red Winter Wheat

The Illumina Infinium iSelect 90K array SNP and genotyping-by-sequencing have been used in wheat genetic and genomic studies. Here we presented several case studies in hard red winter wheat in the Great Plains in the U.S. Both techniques have been applied bi-parental and association mapping, genomic selections, and kompetitive allele specific PCR platform high throughput screening for many important traits. Texas wheat genetic and breeding programs has used both techniques in mapping quantitative trait loci for yield, its components, end-use quality, and several disease and pest resistances. We have developed KASP markers for resistance genes to Greenbug (GB), Hessain fly (HF), wheat curl mite (WCM) and wheat streak mosaic virus (WSMV). Gb3 and Gb7 have the broadest spectrum resistance to GB. Both were mapped on chromosome 7DL. Cmc_TAM112 for WCM resistance from Ae. tauschii was mapped and linked flanking SNP markers were validated. Wsm2 for WSMV resistance was saturately mapped on chromosome 3BS, and H32 for HF resistance was mapped onto 3DL. Closely linked high throughput KASP markers were validated for MAS in different populations. Applications of these tightly linked markers allow breeders to increase selection efficiency and accuracy.