Optical labelling reagents (dyes and fluorophores) are an essential component of probe-based biomolecule detection, an approach widely employed in a variety of areas including environmental analysis, disease diagnostics, pharmaceutical screening, and proteomic and genomic studies. Recently, functional nanomaterials, as a new generation of high-value optical labels, have been applied to molecular detection. The great potential of such recent optical labels has paved the way for the development of new biomolecule assays with unprecedented analytical performance characteristics, related to sensitivity, multiplexing capability, sample throughput, cost-effectiveness and ease of use. This review aims to provide an overview of recent advances using different nanoparticles (such as quantum dots, rare earth doped nanoparticles or gold nanoparticles) for analytical genomics and proteomics, with particular emphasis on the outlook for different strategies of using nanoparticles for bioimaging and quantitative bioanalytical applications, as well as possibilities and limitations of nanoparticles in such a growing field.

The intentional introduction of transition metal impurities into semiconductor nanocrystals is an attractive approach for tuning quantum dot photoluminescence emission. Particularly, doping of ZnS quantum dots with Mn(2+) (Mn:ZnS QDs) results in a phosphorescence-type emission, attributed to the incorporation of manganese ions into the nanocrystal structure, so that delayed radiational deactivation of the energy of nanoparticles, excited through the energy levels of the metal, is enabled. However, the development of effective doping strategies can be challenging, especially if a highly efficient photoluminescent emission within a known crystalline core structure, is required (e.g. for analytical phosphorescence applications). The spectroscopic properties and the crystal structure of Mn(2+)-doped ZnS QDs are studied here to provide a better understanding on how the luminescence emission and the crystalline composition are influenced by the presence of Mn(2+) and its concentration used during the synthesis. In order to further control and optimize the synthesis of doped QDs for future bioanalytical applications, different complementary techniques including photoluminescence and X-ray powder diffraction have been employed. The information obtained has allowed standardization of the synthesis conditions of these doped QDs and the identification and quantification of the crystal phases obtained under different synthesis conditions.

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