Scientists working on domestic, model, non-model, and wild animal species now have access to genomic tools due to the rapid advancement of sequencing technologies over the past two decades. Animal scientists and veterinary researchers are attempting to use cutting-edge genomic techniques in response to the availability of numerous annotated animal genomes to improve breeding, accurately characterize genetic traits linked to productive traits, connect genomic, proteomic, and transcriptomic data to animal disease, and also understand the impact of epigenetic changes on the expression of genes. Recent research has suggested that epigenetic effects can be passed down from generation to generation. In this chapter, we highlight the implications of these findings for animal research and livestock as well as some features of the epigenetic mechanisms that control animal phenotypic behavior. This chapter also focuses on the use of epigenomic technologies in livestock, spanning reproduction, productivity, and healthcare, to essentially address animal and veterinary science researchers.