Cuba is a tropical island where beekeeping is an important economic activity. Cuban honey bees have a European origin, being hybrids of Apis mellifera mellifera and A. m. ligustica. Although Varroa destructor and Nosema are widely distributed in the country, there is no information regarding Nosema species identity and the presence of honey bee viruses. In this study, we report for the first time the presence of Nosema ceranae, Acute bee paralysis virus (ABPV), Deformed wing virus (DWV) and Sacbrood bee virus (SBV) in Cuba. Their detection in different provinces and the simultaneous infection of colonies by several viruses indicate that they are widely spread in Cuba. On the other side, N. apis and Black queen cell virus (BQCV) were not detected.