DNA origami based assembly of gold nanoparticle dimers for SERS detection

Plasmonic sensors are extremely promising candidates for label-free single molecule analysis but require exquisite control over the physical arrangement of metallic nanostructures. We employ self-assembly based on the DNA origami technique for accurate positioning of individual 40 nm gold nanoparticles with gaps of 3.3±1 nm. This is probed through far field scattering measurements on individual dimers. This plasmonic coupling allows us to use surface enhanced Raman scattering (SERS) to detect a small number of dye molecules as well as short single-stranded DNA oligonucleotides in the vicinity of the dimers. This demonstrates that DNA origami is a powerful tool with great potential for a wide variety of biosensing and single-molecule applications.

[1]  L. Movileanu,et al.  Temperature dependence of the Raman spectrum of DNA. II. Raman signatures of premelting and melting transitions of poly(dA).poly(dT) and comparison with poly(dA-dT).poly(dA-dT). , 2002, Biopolymers.

[2]  N. Seeman,et al.  Crystalline two-dimensional DNA-origami arrays. , 2011, Angewandte Chemie.

[3]  Hao Yan,et al.  Gold nanoparticle self-similar chain structure organized by DNA origami. , 2010, Journal of the American Chemical Society.

[4]  W. B. Knowlton,et al.  Programmable Periodicity of Quantum Dot Arrays with DNA Origami Nanotubes , 2010, Nano letters.

[5]  Philip Tinnefeld,et al.  Angular modulation of single-molecule fluorescence by gold nanoparticles on DNA origami templates , 2013, Biomimetic Nanotechnology.

[6]  Ignacy Gryczynski,et al.  Metal-enhanced fluorescence: an emerging tool in biotechnology. , 2005, Current opinion in biotechnology.

[7]  Tao Zhang,et al.  DNA origami based assembly of gold nanoparticle dimers for surface-enhanced Raman scattering , 2014, Nature Communications.

[8]  Jeunghoon Lee,et al.  Multiscaffold DNA Origami Nanoparticle Waveguides , 2013, Nano letters.

[9]  Philip Tinnefeld,et al.  Fluorescence Enhancement at Docking Sites of DNA-Directed Self-Assembled Nanoantennas , 2012, Science.

[10]  F. Simmel,et al.  DNA-based self-assembly of chiral plasmonic nanostructures with tailored optical response , 2011, Nature.

[11]  Mark Bathe,et al.  A primer to scaffolded DNA origami , 2011, Nature Methods.

[12]  Adam H. Marblestone,et al.  Rapid prototyping of 3D DNA-origami shapes with caDNAno , 2009, Nucleic acids research.

[13]  Baoquan Ding,et al.  Rolling up gold nanoparticle-dressed DNA origami into three-dimensional plasmonic chiral nanostructures. , 2012, Journal of the American Chemical Society.

[14]  A Paul Alivisatos,et al.  A nanoplasmonic molecular ruler for measuring nuclease activity and DNA footprinting , 2006, Nature nanotechnology.

[15]  Mark R. Servos,et al.  Instantaneous and quantitative functionalization of gold nanoparticles with thiolated DNA using a pH-assisted and surfactant-free route. , 2012, Journal of the American Chemical Society.

[16]  N. Seeman.  Nanomaterials based on DNA. , 2010, Annual review of biochemistry.

[17]  Michael J. Campolongo,et al.  Building plasmonic nanostructures with DNA. , 2011, Nature nanotechnology.

[18]  P. Yin,et al.  Complex shapes self-assembled from single-stranded DNA tiles , 2012, Nature.

[19]  N. Halas,et al.  Surface-enhanced Raman spectroscopy of DNA. , 2008, Journal of the American Chemical Society.

[20]  Shawn M. Douglas,et al.  Self-assembly of DNA into nanoscale three-dimensional shapes , 2009, Nature.

[21]  P. Rothemund.  Folding DNA to create nanoscale shapes and patterns , 2006, Nature.

[22]  Qiao Jiang,et al.  Three-dimensional plasmonic chiral tetramers assembled by DNA origami. , 2013, Nano letters.

[23]  Luvena L. Ong,et al.  Three-Dimensional Structures Self-Assembled from DNA Bricks , 2012, Science.

[24]  Shawn M. Douglas,et al.  Folding DNA into Twisted and Curved Nanoscale Shapes , 2009, Science.

[25]  Silvia Hernández-Ainsa,et al.  DNA origami nanopores for controlling DNA translocation. , 2013, ACS nano.

[26]  N. Seeman,et al.  Synthesis from DNA of a molecule with the connectivity of a cube , 1991, Nature.

[27]  S. Joo,et al.  Charge‐dependent adsorption of rhodamine 6G on gold nanoparticle surfaces: fluorescence and Raman study , 2011 .