SNP Arrays in Crop Plants - Genotyping Services and Optimized Arrays at TraitGenetics

Genotyping arrays are now becoming an important tool for diversity analyses, genetic mapping and plant breeding. TraitGenetics has been involved in the development, characterization and optimization of a number of genotyping arrays for important diploid crop plants such as maize (50K array), tomato (10K SOLCAP array), barley (9K array), sunflower (30K array), Brassica oleracea and Brassica rapa (60K array). We have also been involved in the array development of allotetraploid oilseed rape (Brassica napus) array (60K), cotton (70K) and allohexaploid wheat (90K). Using such genotyping arrays, in many cases, we have analyzed large sets of varieties within internal projects. We demonstrate the use of such a marker database for the generation of optimized marker sets based on technical quality, distribution along chromosomes, allele frequency and haplotype data. Such arrays containing a selected marker set provide non-redundant data at very low costs for genomic selection, association analysis, marker-assisted backcrossing, variety identification and material characterization.