Piroplasmosis, caused byBabesiaspp. andTheileriaspp., poses significant constraints for livestock production and upgradation in Bangladesh. Besides examining blood smears, few molecular reports are available from some selected areas in the country. Therefore, the actual scenario of piroplasmosis in Bangladesh is deficient. This study aimed to screen the piroplasms in different livestock species by molecular tools. A total of 276 blood samples were collected from cattle (Bos indicus), gayals (Bos frontalis) and goats (Capra hircus) in five geographies of Bangladesh. After that, screening was conducted through a polymerase chain reaction, and species were confirmed by sequencing. The prevalence ofBabesia bigemina,B. bovis,B. naoakii,B. ovis,Theileria annulataandT. orientaliswas 49.28%, 0.72%, 1.09%, 32.26%, 6.52% and 46.01%, respectively. The highest prevalence (79/109; 72.48%) of co-infections was observed withB. bigeminaandT. orientalis. The phylogenetic analyses revealed that the sequences ofB. bigemina(BbigRAP-1a),B. bovis(BboSBP-4),B. naoakii(AMA-1),B. ovis(ssu rRNA) andT. annulata(Tams-1) were included in one clade in the respective phylograms. In contrast,T. orientalis(MPSP) sequences were separated into two clades, corresponding to Types 5 and 7. To our knowledge, this is the first molecular report on piroplasms in gayals and goats in Bangladesh.