A novel method of fabricating water-soluble bio-probes with ultra-small size such as NaYF4:Yb,Er (18 nm), NaGdF4:Yb,Er (8 nm), CaF2:Yb,Er (10 nm), PbS (7 nm), and ZnS (12 nm) has been developed to provide for the solubility switch of nanoparticles from oil-soluble to water-soluble in terms of hydrion rivalry aided by ultrasonic. Using NaYF4:Yb,Er (18 nm) as an example, we evaluate the properties of as-prepared water-soluble nanoparticles (NPs) by using thermogravimetric analyses (TGA), Fourier transform infrared spectroscopy (FTIR), zeta potential (ζ) testing, and 1H nuclear magnetic resonance (1HNMR). The measured ζ value shows that the newly prepared hydrophilic NaYF4:Yb,Er NPs are the positively charged particles. Acting as reactive electrophilic moiety, the freshly prepared hydrophilic NaYF4:Yb,Er NPs have carried out the coupling with amino acids and fluorescence labeling and imaging of HeLa cells directly. Experiments indicate that the method of hydrion rivalry aided by ultrasonic provides a simple and novel opportunity to transform hydrophobic NPs into hydrophilic NPs with good reactivity, which can be imaging some specific biological targets directly.Electronic supplementary materialThe online version of this article (doi:10.1186/s11671-016-1651-y) contains supplementary material, which is available to authorized users.