Gold nanoparticles heavily functionalized with oligonucleotides have been used in a variety of DNA detection methods. The optical properties of three-dimensional aggregates of Au nanoparticles in solution or deposited onto suitable surfaces have been analyzed to detect hybridization processes of specific DNA sequences as possible alternatives to fluorescent labeling methods. This paper reports on the preparation of gold nanoparticles directly deposited onto the surface of silicon (Si) and sapphire (Al2O3) substrates by a physical methodology, consisting in the thermal evaporation of a thin Au film and its successive annealing. The method guarantees the preparation of monodispersed single-crystal An nanoparticles with a strong surface plasmon resonance (SPR) peak centered at about 540 nm. We show that the changes of SPR excitation before and after DNA functionalization and subsequent hybridization of Au nanoparticles immobilized onto Si and Al2O3 substrates can be exploited to fabricate specific biosensors devices in solid phase.