Gold nanostructures based on DNA Origami templates with applications in nanoelectronics and plasmonics

MRS Advances ◽  
2017 ◽  
Vol 2 (64) ◽  
pp. 4017-4023 ◽  
Author(s):  
David D. Ruiz ◽  
Karen L. Cardos ◽  
Gerardo Soto ◽  
Enrique C. Samano
Keyword(s):  
Binding Sites ◽  
Virus Genome ◽  
Dna Origami ◽  
Minimum Size ◽  
Dna Nanostructures ◽  
Nanoparticle Arrays ◽  
M13 Virus ◽  
Dna Binding Sites ◽  
Significant Interest ◽  
Artificial Dna

ABSTRACTA major challenge in nanofabrication is the manipulation and exact placement of nano-objects on a specific template. Artificial DNA nanostructures such as DNA origami have garnered significant interest as templates for incorporating nanomaterials at precise sites while the structures are self-assembled. This work shows the usage of the DNA origami technique in the design and fabrication of nanostructures with the shapes of a circle and a triangle using the third part of the M13 virus genome, named mini-M13, as a scaffold. These DNA origami templates were modified to have DNA binding sites with a uniquely coded sequence. This method is used to attach 5 nm gold nanoparticles functionalized with the complementary DNA sequence. Two new metallic nanostructures with different nanoparticle arrays having minimum size but recognizable morphology are provided. The formation and dimensions of the nanostructures were verified using AFM and agarose gel electrophoresis.

scholarly journals Biophysical characterization of DNA origami nanostructures reveals inaccessibility to intercalation binding sites

2019 ◽  
Author(s):  
Helen L. Miller ◽  
Sonia Contera ◽  
Adam J.M. Wollman ◽  
Adam Hirst ◽  
Katherine E. Dunn ◽  
...  
Keyword(s):  
Drug Delivery ◽  
Single Molecule ◽  
Targeted Drug Delivery ◽  
Binding Sites ◽  
Dna Origami ◽  
Target Cells ◽  
Dna Nanostructures ◽  
Synthetic Dna ◽  
Drug Molecules ◽  
Targeted Drug

AbstractIntercalation of drug molecules into synthetic DNA nanostructures formed through self-assembled origami has been postulated as a valuable future method for targeted drug delivery. This is due to the excellent biocompatibility of synthetic DNA nanostructures, and high potential for flexible programmability including facile drug release into or near to target cells. Such favourable properties may enable high initial loading and efficient release for a predictable number of drug molecules per nanostructure carrier, important for efficient delivery of safe and effective drug doses to minimise non-specific release away from target cells. However, basic questions remain as to how intercalation-mediated loading depends on the DNA carrier structure. Here we use the interaction of dyes YOYO-1 and acridine orange with a tightly-packed 2D DNA origami tile as a simple model system to investigate intercalation-mediated loading. We employed multiple biophysical techniques including single-molecule fluorescence microscopy, atomic force microscopy, gel electrophoresis and controllable damage using low temperature plasma on synthetic DNA origami samples. Our results indicate that not all potential DNA binding sites are accessible for dye intercalation, which has implications for future DNA nanostructures designed for targeted drug delivery.

scholarly journals High precision and high yield fabrication of dense nanoparticle arrays onto DNA origami at statistically independent binding sites

Nanoscale ◽  
2014 ◽  
Vol 6 (22) ◽  
pp. 13928-13938 ◽  
Author(s):  
Sadao Takabayashi ◽  
William P. Klein ◽  
Craig Onodera ◽  
Blake Rapp ◽  
Juan Flores-Estrada ◽  
...  
Keyword(s):  
High Precision ◽  
Steric Hindrance ◽  
Binding Sites ◽  
Dna Origami ◽  
High Yield ◽  
Electrostatic Repulsion ◽  
Nanoparticle Arrays ◽  
Self Assembled

Nanoparticle arrays self-assembled in the absence of site-bridging, steric hindrance, and electrostatic repulsion.

scholarly journals Analysis of two distinct single-stranded DNA binding sites on the recA nucleoprotein filament.

1993 ◽  
Vol 268 (30) ◽  
pp. 22525-22530
Author(s):  
A Zlotnick ◽  
R.S. Mitchell ◽  
R.K. Steed ◽  
S.L. Brenner
Keyword(s):  
Dna Binding ◽  
Binding Sites ◽  
Single Stranded Dna ◽  
Dna Binding Sites

scholarly journals Deep learning identifies genome-wide DNA binding sites of long noncoding RNAs

RNA Biology ◽  
2018 ◽  
Vol 15 (12) ◽  
pp. 1468-1476 ◽  
Author(s):  
Fan Wang ◽  
Pranik Chainani ◽  
Tommy White ◽  
Jin Yang ◽  
Yu Liu ◽  
...  
Keyword(s):  
Deep Learning ◽  
Dna Binding ◽  
Binding Sites ◽  
Noncoding Rnas ◽  
Long Noncoding Rnas ◽  
Dna Binding Sites ◽  
Genome Wide
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