The survival of probiotic microorganisms including Lactobacillus acidophilus, Lactobacillus casei, Lactobacillus rhamnosus and Bifidobacterium spp. was evaluated in yoghurt and freeze-dried yoghurt after processing and storage. The effectiveness of microencapsulating probiotic organisms as well as adding cryoprotectants and prebiotics in improving their viability was also investigated. The viability of Bifidobacterium infantis 17930 and L. rhamnosus GG was reduced by 0.07log, while that of L. casei 1520 and Bifidobacterium longum 1941 was reduced by 0.28 and 0.39log, respectively. There was a 7% improvement in the viability of L. casei 1520 when cryoprotectant ‘Unipectine™ RS 150’ was added at 2.5% (w/v). The prebiotic ‘Raftilose ® P95’ when added at 1.5% w/v to yoghurt improved the viability of the combined selected probiotic organisms by 1.42log during four weeks of storage at 4°C. Microencapsulation with alginate improved viability of combined selected probiotic organisms by 0.31log in freeze-dried yoghurt stored at 21°C.