Efficient and sustainable reproduction and production of cattle and goats are vitally important for ensuring global food security. There is a need for potent biomarkers to accurately evaluate semen quality and predict male fertility. Although there is a reasonable set of biomarkers identified in bull sperm, there is a significant lack of such information in buck sperm along with a lack of transfer of proven technologies in goat reproductive biotechnology. These gaps are important problems because they are preventing advances in fundamental andrology and applied science of goat production. Both cattle and goats are ruminants, and they share significant similarities in their genetics and physiology although subtle differences do exist. This review harnesses the power of utilizing the knowledge developed in bull sperm to generate information on buck sperm fertility markers. These include genomic, functional genomic, epigenomic fertility markers. Revealing molecular underpinnings of such similarity and diversity using systems biology is expected to advance both fundamental and applied andrology of livestock and endangered species.