Metal-Triggered DNA Folding by Different Mechanisms

Metal-mediated base pairs by the interaction between metal ions and artificial bases in oligonucleotides has been widely used in DNA nanotechnology and biosensing technique. Using isothermal titration calorimetry, circular dichroism spectroscopy and fluorescence spectroscopy, the folding process of T-C-rich oligonucleotides (TCO) induced by Hg²⁺ and Ag⁺ with the synthetic sequence d(T₆C₆T₆C₆T₆C₆T₆) was studied and analyzed. Although thermodynamic data predict that TCO should initially fold into a relatively stable hairpin through two possible pathways of conformational transitions whether Hg²⁺ or Ag⁺ were added at first, the mechanisms and final products between the two are entirely different from isothermal titration calorimetry outcomes. When Hg²⁺ were added first, the haipin was formed through T-Hg-T structure with further stabilization by C-Ag-C after Ag⁺ addition. However, it is proposed that an unusual metal-base pair for Ag⁺ binding is generated instead classical C-Ag-C when Ag⁺ was injected first. Moreover, further confirmation of this unconventional metal-base pair T-Ag-C was verified by circular dichroism and fluorescence spectroscopy.