Sequence-responsive unzipping DNA cubes with tunable cellular uptake profiles

Bujold, Katherine E.; Fakhoury, Johans; Carneiro, Karina M. M.; Briard, Joel Neves; Godin, Antoine G.; Amrein, Lilian; Hamblin, Graham D.; Panasci, Lawrence C.; Wiseman, Paul W.; Sleiman, Hanadi F.

doi:10.1039/c4sc00646a

Cited by 66 publications

(52 citation statements)

References 37 publications

(28 reference statements)

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Section: Towards Dna-based Drug Delivery Vehicles and Advanced Therapmentioning

confidence: 99%

“…1A). Since then, cellular uptake for various DNA structures (based on different design strategies) such as nanotubes [27,28], cages [29] and cubes [30] has been demonstrated both in vitro and in vivo.The successful delivery of DNA-based structures into cells opens new avenues for tackling diverse medical tasks. Jiang et al [31] and Zhang et al [32] managed to deliver doxorubicin -an anticancer drug and a DNA intercalator -into cells in vivo using rod-like DNA origamis or DNA origami triangles as carriers ( Figure 1B).…”

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confidence: 99%

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DNA Nanostructures as Smart Drug-Delivery Vehicles and Molecular Devices

Linko

Ora

Kostiainen

2015

Trends in Biotechnology

226

164

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Emerging DNA nanotechnologyThe field of structural DNA nanotechnology started around 30 years ago when Ned Seeman performed pioneering research with DNA junctions and lattices [1]. To date, a cornucopia of different DNA nanostructures and shapes based on WatsonCrick basepairing [2] have been designed and demonstrated, and the whole research area has enjoyed a rapid progress especially during the past decade [3]. The key player in the fast development of DNA nanotechnology has been the invention of DNA origami in 2006 [4]. The DNA origami method is based on folding a long single-stranded "DNA scaffold strand" into a customized shape with a set of short synthetic staple strands. The robustness of the technique has made it widely accessible.Since then, the method has been generalized to 3D-fabrication [5][6][7][8][9][10], and it enables shapes with custom curvatures, twists and bends [11,12]. Very recently, techniques for modular scaffold-free fabrication [13,14], 3D meshing and wireframe-based approaches [15][16][17], as well as shape-complementarity-based construction [18] of DNA objects have been introduced. In addition, powerful computational tools for designing and analyzing DNA nanostructures have been developed [19][20][21], which appreciably help researchers to create their own DNA nanoarchitectures for any conceivable application. Table 1 lists and 2 describes the novel design strategies that can be used for fabricating diverse DNA origami nanostructures and other complex DNA-based shapes for various nanotechnological purposes.The platonic DNA nanostructures and DNA origamis are by all means remarkably impressive examples of precise engineering and constructing at the nanoscale. However, the attractiveness of the origami method lies in the fact that one can add any desired functionality to the tailored DNA shapes by assembling other biomolecules and molecular components to them with nanometer precision. Importantly, DNA is inherently biocompatible, and its stability can be further tuned by the optional functionalization [20,[22][23][24]. Aforementioned superior features can be eventually exploited in designing artificial DNA-based biomachinery, such as nucleic acid devices [25] and protein-DNA hybrid structures [26] for nanomedicine and biosensing. In this focused review, we discuss the recent progress of the nanomedical applications of self-assembled DNA systems; especially the drug delivery vehicles and nanomachines based on the DNA origami technique. Towards DNA-based drug delivery vehicles and advanced therapeuticsThe tremendous self-assembly properties of DNA can be exploited in creating various programmable shapes and larger assemblies for cellular delivery for e.g. cancer and enzyme replacement therapy. The very first DNA origami nano-objects proposed to work as molecular containers for drug delivery applications were single-layer origamis, which were further assembled into 3D shapes -a tetrahedron [5] or hollow cubes [6,7] (Fig. 1A). Since then, cellular uptake for various DNA structures (based o...

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Section: Towards Dna-based Drug Delivery Vehicles and Advanced Therapmentioning

confidence: 99%

mentioning

confidence: 99%

DNA Nanostructures as Smart Drug-Delivery Vehicles and Molecular Devices

Linko

Ora

Kostiainen

2015

Trends in Biotechnology

226

164

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“…Therefore, we propose that our FNA device (FNA‐1) enters cells through caveolin‐dependent receptor‐mediated endocytosis . FNA‐1 is thought to be able to retain its structural integrity in living cells for a long period of time . These features allow this FNA device to undergo the desirable structural changes during cellular internalization, and thereby respond to cellular stimuli to perform different cascaded operations by varying the toehold length (Figure a).…”

Section: Resultsmentioning

confidence: 99%

Environment‐Recognizing DNA‐Computation Circuits for the Intracellular Transport of Molecular Payloads for mRNA Imaging

et al. 2020

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Programming intelligent DNA nanocarriers for the targeted transport of molecular payloads in living cells has attracted extensive attention. In vivo activation of these nanocarriers usually relies on external light irradiation. An interest is emerging in the automatic recognition of intracellular surroundings by nanocarriers and their in situ activation under the control of programmed DNA‐computation circuits. Herein, we report the integration of DNA circuits with framework nucleic acid (FNA) nanocarriers that consist of a truncated square pyramid (TSP) cage and a built‐in duplex cargo containing an antisense strand of the target mRNA. An i‐motif and ATP aptamer embedded in the TSP are employed as logic‐controlling units to respond to H+ and ATP inside cellular compartments, triggering the release of the sensing element for fluorescent mRNA imaging. Logic‐controlled FNA devices could be used to target drug delivery, enabling precise disease treatment.

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“…300 The nanostructure remains substantially intact for at least 48 h after transfection, and is mostly localized within the cytoplasm. Cellular uptake of nanotubes 301 and cubes 302 was also demonstrated both in vitro and in vivo. These findings opened the way to therapeutic applications of DNA nanostructures.…”

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confidence: 87%

Chemistry Can Make Strict and Fuzzy Controls for Bio-Systems: DNA Nanoarchitectonics and Cell-Macromolecular Nanoarchitectonics

Komiyama

Yoshimoto

Sisido

et al. 2017

Bulletin of the Chemical Society of Japan

266

128

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In this review, we introduce two kinds of bio-related nanoarchitectonics, DNA nanoarchitectonics and cellmacromolecular nanoarchitectonics, both of which are basically controlled by chemical strategies. The former DNA-based approach would represent the precise nature of the nanoarchitectonics based on the strict or "digital" molecular recognition between nucleic bases. This part includes functionalization of single DNAs by chemical means, modification of the main-chain or side-chain bases to achieve stronger DNA binding, DNA aptamers and DNAzymes. It also includes programmable assemblies of DNAs (DNA Origami) and their applications for delivery of drugs to target sites in vivo, sensing in vivo, and selective labeling of biomaterials in cells and in animals. In contrast to the digital molecular recognition between nucleic bases, cell membrane assemblies and their interaction with macromolecules are achieved through rather generic and "analog" interactions such as hydrophobic effects and electrostatic forces. This cell-macromolecular nanoarchitectonics is discussed in the latter part of this review. This part includes bottom-up and top-down approaches for constructing highly organized cell-architectures with macromolecules, for regulating cell adhesion pattern and their functions in twodimension, for generating three-dimensional cell architectures on micro-patterned surfaces, and for building synthetic/natural macromolecular modified hybrid biointerfaces.

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Sequence-responsive unzipping DNA cubes with tunable cellular uptake profiles

Abstract: Here, we demonstrate a new approach for the design and assembly of a dynamic DNA cube with an addressable cellular uptake profile.

Cited by 66 publications

References 37 publications

DNA Nanostructures as Smart Drug-Delivery Vehicles and Molecular Devices

DNA Nanostructures as Smart Drug-Delivery Vehicles and Molecular Devices

Environment‐Recognizing DNA‐Computation Circuits for the Intracellular Transport of Molecular Payloads for mRNA Imaging

Chemistry Can Make Strict and Fuzzy Controls for Bio-Systems: DNA Nanoarchitectonics and Cell-Macromolecular Nanoarchitectonics

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