Towards applications of synthetic genetic polymers in diagnosis and therapy

Taylor, Alexander I.; Arangundy-Franklin, Sebastian; Holliger, Philipp

doi:10.1016/j.cbpa.2014.09.022

Cited by 43 publications

(31 citation statements)

References 55 publications

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“…XNAs have previously been shown to be capable of XNA–XNA duplex formation and can fold into 3 D structures, forming ligands (aptamers) and catalysts (XNAzymes) . This offers a range of divergent structures and properties of potential benefit to biotechnology and medicine . However, de novo design in the absence of detailed knowledge on XNA structural and conformational parameters is challenging.…”

Section: Figurementioning

confidence: 99%

“…[37] This offersarange of divergent structures and properties [38] of potential benefitt o biotechnology and medicine. [39] However, de novo design in the absence of detailed knowledge on XNA structural and conformational parameters is challenging. Hybrid nanostructures based on DNA designs have previously been demonstrated to retain overall architecture, despite invasion by strands composed of, inter alia, peptiden ucleic acids (PNA) [41][42][43] or phosphorothioate DNA (PS-DNA).…”

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confidence: 99%

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Nanostructures from Synthetic Genetic Polymers

et al. 2016

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Nanoscale objects of increasing complexity can be constructed from DNA or RNA. However, the scope of potential applications could be enhanced by expanding beyond the moderate chemical diversity of natural nucleic acids. Here, we explore the construction of nano‐objects made entirely from alternative building blocks: synthetic genetic polymers not found in nature, also called xeno nucleic acids (XNAs). Specifically, we describe assembly of 70 kDa tetrahedra elaborated in four different XNA chemistries (2′‐fluro‐2′‐deoxy‐ribofuranose nucleic acid (2′F‐RNA), 2′‐fluoroarabino nucleic acids (FANA), hexitol nucleic acids (HNA), and cyclohexene nucleic acids (CeNA)), as well as mixed designs, and a ∼600 kDa all‐FANA octahedron, visualised by electron microscopy. Our results extend the chemical scope for programmable nanostructure assembly, with implications for the design of nano‐objects and materials with an expanded range of structural and physicochemical properties, including enhanced biostability.

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Section: Figurementioning

confidence: 99%

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Nanostructures from Synthetic Genetic Polymers

et al. 2016

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“…Importantly, its small size of a few nanometers comparable to the thickness of electrical double layer allows the target recognition event close to the gate surface without shielding the charges by mobile counterions Miyahara, 2012a, 2013;Lee et al, 2008). Recent developments have realized the discovery of many aptamers showing the excellent affinity in terms of the dissociation constant (K d ) at subnanomolar or nanomolar levels for various target species (Jayasena, 1999;Taylor et al, 2014). Nevertheless, the binding ability is generally superior in antibody to aptamer.…”

Section: Introductionmentioning

confidence: 98%

Dual aptamer-immobilized surfaces for improved affinity through multiple target binding in potentiometric thrombin biosensing

Goda

Higashi

Matsumoto

et al. 2015

Biosensors and Bioelectronics

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We developed a label-free and reagent-less potentiometric biosensor with improved affinity for thrombin. Two different oligomeric DNA aptamers that can recognize different epitopes in thrombin were introduced in parallel or serial manners on the sensing surface to capture the target via multiple contacts as found in many biological systems. The spacer and linker in the aptamer probes were optimized for exerting the best performance in molecular recognition. To gain the specificity of the sensor to the target, an antifouling molecule, sulfobeaine-3-undecanethiol (SB), was introduced on the sensor to form a self-assembled monolayer (SAM). Surface characterization revealed that the aptamer probe density was comparable to the distance of the two epitopes in thrombin, while the backfilling SB SAM was tightly aligned on the surface to resist nonspecific adsorption. The apparent binding parameters were obtained by thrombin sensing in potentiometry using the 1:1 Langmuir adsorption model, showing the improved dissociation constants (Kd) with the limit of detection of 5.5 nM on the dual aptamer-immobilized surfaces compared with single aptamer-immobilized ones. A fine control of spacer and linker length in the aptamer ligand was essential to realize the multivalent binding of thrombin on the sensor surface. The findings reported herein are effective for improving the sensitivity of potentiometric biosensor in an affordable way towards detection of tiny amount of biomolecules.

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“…As RNA and DNA aptamers are prone to degradation by endogenous nucleases early efforts focused on modifications of the sugar-phosphate backbone to increase aptamer stability [5]. Common variations are 2 0 -modifications, 2 0 -4 0 -bridging, 2 0 -3 0 -ring opening, and phosphorothioate backbone modifications [6]. We refer to current excellent reviews on this topic for further reading [5,7 ,8,9].…”

Section: Introductionmentioning

confidence: 99%