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Development and Validation of KASP Markers for Wheat Streak Mosaic Virus Resistance Gene Wsm2

Tan, Chor-Tee, Assanga, Silvano, Zhang, Guorong, Rudd, Jackie C., Haley, Scott D., Xue, Qingwu, Ibrahim, Amir, Bai, Guihua, Zhang, Xinzhong, Byrne, Patrick, Fuentealba, Maria P., Liu, Shuyu
Crop science 2017 v.57 no.1 pp. 340-349
Brachypodium, Oryza sativa, Triticum aestivum, Wheat streak mosaic virus, alleles, assays, breeding programs, chromosome mapping, chromosomes, crossing, cultivars, genetic markers, genotype, germplasm, inbred lines, marker-assisted selection, polymerase chain reaction, resistance genes, rice, single nucleotide polymorphism, wheat, Great Plains region, North America
Wheat streak mosaic virus (WSMV) can cause significant yield loss in wheat (L.) in the Great Plains of North America. A recently identified WSMV resistance gene, , was mapped to chromosome 3BS in germplasm line ‘CO960293–2’. Effective genetic markers tightly linked to the gene will enhance the selection of WSMV-resistant lines through marker-assisted selection. We have mapped using a high-density map developed from the wheat 90K Infinium iSelect single-nucleotide polymorphism (SNP) array with recombinant inbred lines from the cross between CO960293–2 and susceptible cultivar ‘TAM 111’. Array-based SNPs that mapped within 4 cM of on chromosome 3BS were converted to Kompetitive Allele Specific Polymerase Chain Reaction (KASP) assays in this study. Six KASP SNPs were validated in two doubled haploid populations developed from crosses of ‘RonL’ × ‘Ripper’ and ‘Snowmass’ × ‘Antero’. RonL and Snowmass possess the gene from CO960293–2. Three closely linked KASP SNPs, converted from IAAV6442, BS00018764_51, and wsnp_Ra_c16264_24873670, showed high sensitivity and specificity (0.83 ≤ sensitivity ≤ 0.97, 0.89 ≤ specificity ≤ 0.99). The latter two were also validated in six F breeding populations. These three KASP SNPs were effective in differentiating resistant and susceptible genotypes. Comparative mapping was performed using sequences of SNPs flanking and identified candidate genes and regions in and rice (L. ssp.). The KASP SNPs developed in this study should be useful for marker-assisted selection of in wheat breeding programs, and the newly constructed map will also facilitate map based cloning of .
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