Computational investigation of the strategy of DNA/RNA stabilization through the study of the conjugation of an oligonucleotide with silver and gold nanoparticles.

Aali, Elahe; Shokuhi Rad, Ali; Esfahanian, Mehri

This research deals with the potential of metallic nanoparticles in DNA/RNA stabilization. In this regard, the interaction of adenosine monophosphate (AMP) as a representative of the nucleotide family was theoretically investigated through density functional theory. AMP is a short form of DNA or RNA macromolecules that can interact with gold (Au) and silver (Ag) nanoparticles. The literature represents the thiolation of oligonucleotides as a suitable way for DNA/RNA adsorption on the stated nanoparticles. In this study, the role of different solvents on the thiolation of AMP is scrutinized. The results showed that acetonitrile is the best solvent for the thiolation of AMP with reaction enthalpy (ΔH) of −66.3 kJ/mol. The adsorption of thiolated adenosine monophosphate (TAMP) on the surface of Ag/Au nanoparticles (Ag/AuNP) was studied in different solvents, and in the gas phase. Our results revealed the interaction of TAMP with adsorption energies of −65.3 and −74.1 kJ/mol (gas phase), −54.8 and −62.5 kJ/mol (acetonitrile), and −59.2 and −70.6 kJ/mol (water) on AgNPs and AuNPs, respectively. AuNPs have a shorter bond distance in adsorption of TAMP compared to AgNPs (2.61 vs. 2.78 Å). For all systems, the frontier molecular orbital, the electronic charge passed through the nanoparticles, the density of states, and the molecular electrostatic potential were investigated. The results confirm the suitability of these nanoparticles as carriers for nucleotides that may be useful in gen delivery applications.

GOLD nanoparticles; SILVER nanoparticles; RNA; FRONTIER orbitals; DNA; OLIGONUCLEOTIDES

Applied Organometallic Chemistry, 2020, Vol 34, Issue 8, p1

0268-2605

Academic Journal

10.1002/aoc.5690