Structure formation, melting, and optical properties of gold/DNA nanocomposites: Effects of relaxation time

We present a model for structure formation, melting, and optical properties of gold/DNA nanocomposites. These composites consist of a collection of gold nanoparticles (of radius 50 nm or less) which are bound together by links made up of DNA strands. In our structural model, the nanocomposite forms from a series of Monte Carlo steps, each involving reaction-limited cluster-cluster aggregation (RLCA) followed by dehybridization of the DNA links. These links form with a probability $p_{\mathrm{eff}}$ which depends on temperature T and particle radius a. The final structure depends on the number of monomers (i.e., gold nanoparticles) $N_m,$ T, and the relaxation time. At low temperature, the model results in a RLCA cluster. But after a long enough relaxation time, the nanocomposite reduces to a compact, nonfractal cluster. We calculate the optical properties of the resulting aggregates using the discrete dipole approximation. Despite the restructuring, the melting transition (as seen in the extinction coefficient at wavelength 520 nm) remains sharp, and the melting temperature $T_M$ increases with increasing a as found in our previous percolation model. However, restructuring increases the corresponding link fraction at melting to a value well above the percolation threshold. Our calculated extinction cross section agrees qualitatively with experiments on gold/DNA composites. It also shows a characteristic “rebound effect,” resulting from incomplete relaxation, which has also been seen in some experiments. We discuss briefly how our results relate to a possible sol-gel transition in these aggregates.