Genetics research is focusing more and more on mining fully sequenced genomes and their annotations to identify the causal genes associated with specific traits (phenotypes) of interest. However, a complex trait is typically associated with multiple quantitative trait loci (QTLs), each with hundreds of genes positively/negatively affecting the desired trait(s). Our aim is to develop a Big data analytics & semantic interoperability infrastructure for candidate gene prioritization that will aid breeders in the design of an optimal genotype with a desired trait(s) for a given environment.