Controlled formation of 2D DNA origami arrays on hexagonal boron nitride surfaces
W.T. Oosterhoff (TU Delft - Mechanical Engineering)
Sabina Caneva – Mentor (TU Delft - Dynamics of Micro and Nano Systems)
D. Orekhova – Mentor (TU Delft - Dynamics of Micro and Nano Systems)
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Abstract
This research focuses on the utility of using DNA origami nanoactuator arrays. The goal of this research is to control the formation of DNA origami nanoactuator arrays, and their immobilization on hBN. By controlling the formation of DNA origami arrays, large site-specific templates can be produced and used as single-molecule sensing platforms for preliminary cancer diagnostics. By inserting sticky end staples at the edges of the origamis, arrays were realized. Moreover, two fluorescent docking probes for ATTO647n and 12 immobilization 'docking staples' were implemented in the origami design. The docking staples consist of 30 Adenine bases and were placed on the largest deflection sites of the origamis. The origami with docking staples showed better results on pristine hBN than origamis without. In both cases, an interference layer between origami and hBN was observed, no origamis were immobilized directly on the surface. By creating two different samples, both with different sticky end staples at the edges, large arrays were created. With this method, 7-8 binding sites were utilized per origami interface. When placing them on pristine hBN, no arrays were visible, only a background mesh. When placing single origami structures with docking staples on defective hBN, they appeared stable without an interference layer. Also, when placing the arrays on hBN, they appeared stable and visible, but the length was reduced. By inserting an excess of the full set of edge staples, 17 binding sites were created per origami interface. When placing these arrays on hBN, larger arrays with better visibility were observed, but resulted in a significant reduction on yield per flake. Subsequently, fluorescent measurements were made by using the red channel, the ATTO647N dye attached to the origami could be imaged. By comparing the ATTO647n results to the arrays on hBN, a difference in intensity was detected. This could indicate multiple fluorescent dyes in one spot, and could thus indicate the fluorescent detection of arrays.