Despite the growing interest of quantum dots (QDs) in biological applications, there are many concerns regarding the potential accumulation and toxic effects of Cd-containg QDs in animals and humans. Zinc oxide QDs are promising alternatives for diagnosis and imaging but their aqueous instability has markedly limited their use. Generations 1, 2 and 3 (noted G1, G2, and G3, respectively) of new poly(amidoamine) (PAMAM) dendrons bearing a siloxane group at the focal point were prepared from 3-aminopropyltrimethoxysilane. Using tetramethylammonium hydroxide as cross-linking agent, hydrophobic oleate-capped ZnO QDs were functionalized with G1 or G2 dendrons, as evidenced by FT-IR, UV-visible and XPS analyses, and were successfully transferred in aqueous solution. AFM and TEM images show that ZnO@G1 and ZnO@G2 QDs have a spherical shape with average crystalline sizes of 5.3 and 5.1 nm, respectively. Immediately after dispersion in water, ZnO@G1 and ZnO@G2 QDs exhibit a broad and strong visible emission peak centered at 550 nm with a quantum yield of ca. 18%. A strong increase of photoluminescence quantum yields was observed over time and values up to 59% could be reached after ca. 20 days of storage in water at room temperature. The good quantum yields and the stabilities of PAMAM-dendron capped ZnO QDs ensured their potential applications in cell imaging. ZnO@G2 were successfully used for the labelling of the Gram + bacterium Staphylococcus aureus. The biocompatibility of these QDs is markedly improved compared to Cd-based ones as growth inhibition tests showed that ZnO@G2 QDs could be used with concentrations up to 1 mM without altering the cell growth of the Escherichia coli bacterium while most Cd-containing QDs exhibit cytotoxicity already at the nM level.