Layered graphene-mica substrates induce melting of DNA origami

Green, Nathaniel S.; Pham, Phi H. Q.; Crow, Daniel T; Burke, Peter J.; Norton, Michael L.

doi:10.1088/2053-1591/aabcab

Cited by 6 publications

(7 citation statements)

References 50 publications

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“…In previous works, DNA origami structures were coupled to pristine graphene either to increase their stability or as a template for metallized DNA nanolithography . However, it was demonstrated with TEM imaging that DNA origami nanoplates were denatured due to hydrophobic interactions of the DNA bases with graphene upon adsorption. , As a universal glue to connect the DNA origami constructs to the graphene layer, we used several pyrene-modified DNA strands that are hybridized to the DNA origami on the one hand and interact with the graphene lattice via π–π stacking interactions on the other hand. We show that this immobilization scheme provides stable DNA origami structures for different geometries and enables placing of single, freely rotating fluorescent molecules at defined distances to the graphene layer.…”

Section: Resultsmentioning

confidence: 99%

Distance Dependence of Single-Molecule Energy Transfer to Graphene Measured with DNA Origami Nanopositioners

et al. 2019

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Despite the thorough investigation of graphene since 2004, altering its surface chemistry and reproducible functionalization remain challenging. This hinders fabrication of more complex hybrid materials with controlled architectures, and as a consequence the development of sensitive and reliable sensors and biological assays. In this contribution, we introduce DNA origami structures as nanopositioners for placing single dye molecules at controlled distances from graphene. The measurements of fluorescence intensity and lifetime of single emitters carried out for distances ranging from 3 to 58 nm confirmed the d −4 dependence of the excitation energy transfer to graphene. Moreover, we determined the characteristic distance for 50% efficiency of the energy transfer from single dyes to graphene to be 17.7 nm. Using pyrene molecules as a glue to immobilize DNA origami nanostructures of various shape on graphene opens new possibilities to develop graphene-based biophysics and biosensing.

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Section: Resultsmentioning

confidence: 99%

Distance Dependence of Single-Molecule Energy Transfer to Graphene Measured with DNA Origami Nanopositioners

et al. 2019

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“…Two parameters of this “test” origami form may be used to evaluate the utility of sapphire as a substrate for origami. The first parameter, edge to edge width of the central, raised portion of the origami, was adopted in view of the observation that several incompatible substrates “expand” origami − , presumably through partial melting of the structure. The second parameter is the measured depth of the corrugation, the “trough” that runs through the center of the origami.…”

Section: Resultsmentioning

confidence: 99%

“…When alternative ultraflat substrates, for example graphite , and graphene , have been tested, interactions with these surfaces have been found to induce unanticipated distortions of the DNA-based test structure. For example, when cross-shaped DNA origami are applied to graphite, significant rearrangement of the DNA structure is observed, as demonstrated in Figure .…”

Section: Introductionmentioning

confidence: 99%

The Sapphire (0001) Surface: A Transparent and Ultraflat Substrate for DNA Nanostructure Imaging

et al. 2018

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Mica is the current substrate of choice for DNA nanostructure imaging, mainly due to its atomically flat surface. However, these mica substrates are often not optically clear. In this work, sapphire has been evaluated as an alternative substrate, with potential to enable parallel optical and AFM studies. Well known for its thermal and chemical properties, sapphire is a hard ionic material with excellent optical properties. Because sapphire lacks the excellent basal cleavage properties of the sheet silicate mica, a process to anneal it at high temperature in water vapor was developed to achieve near atomically smooth (average roughness = 0.141 nm) terraces. AFM imaging was used to determine the dimensions of these terraces and to characterize the morphology of the DNA nanostructures, revealing that their structures were preserved, indicating that annealed c-plane cut (0001) sapphire is a promising substitute for mica as a flat and transparent substrate for DNA nanostructure studies.

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“…Additionally, single-stranded extensions can be employed to immobilize those structures, building on the noncovalent interactions previously introduced. [105,106] As there are studies where distortions of DNA-origami nanostructures on graphene have been reported, [107,108] it is crucial to perform control experiments to verify that the integrity of the former is conserved. Naturally, the choice of an anchoring method will and features of the main data outcome.…”

Section: Controlled Immobilization Of Dna Nanostructures On 2d Materialsmentioning

confidence: 99%

Exploring the Synergies of Single‐Molecule Fluorescence and 2D Materials Coupled by DNA

Richter,

Szalai,

Manzanares‐Palenzuela

et al. 2023

Advanced Materials

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The world of 2D materials is steadily growing, with numerous researchers attempting to discover, elucidate, and exploit their properties. Approaches relying on the detection of single fluorescent molecules offer a set of advantages, for instance, high sensitivity and specificity, that allow the drawing of conclusions with unprecedented precision. Herein, it is argued how the study of 2D materials benefits from fluorescence‐based single‐molecule modalities, and vice versa. A special focus is placed on DNA, serving as a versatile adaptor when anchoring single dye molecules to 2D materials. The existing literature on the fruitful combination of the two fields is reviewed, and an outlook on the additional synergies that can be created between them provided.

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Layered graphene-mica substrates induce melting of DNA origami

Cited by 6 publications

References 50 publications

Distance Dependence of Single-Molecule Energy Transfer to Graphene Measured with DNA Origami Nanopositioners

Distance Dependence of Single-Molecule Energy Transfer to Graphene Measured with DNA Origami Nanopositioners

The Sapphire (0001) Surface: A Transparent and Ultraflat Substrate for DNA Nanostructure Imaging

Exploring the Synergies of Single‐Molecule Fluorescence and 2D Materials Coupled by DNA

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