We have designed and performed a new PCR method based on the 18S rRNA inorder to individuate the presence and the identity of Babesia parasites. Out of 1159 Ixodes ricinus (Acari:Ixodidae) ticks collected in four areas of Switzerland, nine were found to contain Babesia DNA. Sequencingof the short amplicon obtained (411-452 bp) allowed the identification of three human pathogenic species:Babesia microti, B. divergens, for the first time in Switzerland, Babesia sp. EU1. We also report coinfectionswith B. sp. EU1-Borrelia burgdorferi sensu stricto and Babesia sp. EU1-B. afzelii.