Europium-doped hydroxyapatite (HA), beta-tricalcium phosphate (β-TCP) and biphasic phosphate nanopowders were synthesized by co-precipitation method and their crystal structures and fluorescence properties were investigated depending on the pH of the starting solution. In the range of pH 6–10, HA and β-TCP phases coexist. The β-TCP proportion increased as the pH of the solution decreased, while HA yields decreased. At pH below 6, monophasic β-TCP powder was obtained after thermal treatment. In particular, HA and β-TCP can be used as luminescent materials when activated by Eu3+ ions in substitution of Ca2+ ions. Herein, the Eu3+ ions doped HA and β-TCP phase composition were analyzed in order to investigate the fluorescence emission of the HA, β-TCP and biphasic compounds. Eu-doped HA exhibited a red-orange emission at 575nm with several minor peaks at 610–640nm, while Eu-doped β-TCP had an unexpected strong red emission at 610–620nm and a secondary band at 590–600nm. In fact, the Eu:β-TCP integrated emission area is almost 20-fold higher than Eu:HA for the same europium ion concentration. These results demonstrate the potential of Eu:β-TCP as biomarker for medical applications, as drug release and targeting based on their luminescent properties.