DNA Nanoswitch Barcodes for Multiplexed Biomarker Profiling

Chandrasekaran, Arun Richard; MacIsaac, Molly; Vilcapoma, Javier; Hansen, Clinton H; Yang, Darren; Wong, Wesley P.; Halvorsen, Ken

doi:10.1021/acs.nanolett.0c03929

Cited by 33 publications

(32 citation statements)

References 32 publications

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“…This DNA nanoswitch-based assay also offers multiplexed detection of several RNA targets, as well as multiplexed barcoded detection of different types of biomarkers such as proteins, DNA, RNA, and antibodies in a single reaction. 276 …”

Section: Role Of Dna Nanotechnology In Viral Diagnostics and Therapymentioning

confidence: 99%

Aptamers for Viral Detection and Inhibition

et al. 2022

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Recent times have experienced more than ever the impact of viral infections in humans. Viral infections are known to cause diseases not only in humans but also in plants and animals. Here, we have compiled the literature review of aptamers selected and used for detection and inhibition of viral infections in all three categories: humans, animals, and plants. This review gives an in-depth introduction to aptamers, different types of aptamer selection (SELEX) methodologies, the benefits of using aptamers over commonly used antibody-based strategies, and the structural and functional mechanism of aptasensors for viral detection and therapy. The review is organized based on the different characterization and read-out tools used to detect virus–aptasensor interactions with a detailed index of existing virus-targeting aptamers. Along with addressing recent developments, we also discuss a way forward with aptamers for DNA nanotechnology-based detection and treatment of viral diseases. Overall, this review will serve as a comprehensive resource for aptamer-based strategies in viral diagnostics and treatment.

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Section: Role Of Dna Nanotechnology In Viral Diagnostics and Therapymentioning

confidence: 99%

Aptamers for Viral Detection and Inhibition

et al. 2022

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“…Arun et al. established a programmable DNA nanoswitch platform to multiplexed detect biomarkers at once, [ 115 ] which it will be detected by gel electrophoresis when M13 scaffold interacted with target proteins to have a loop formation. Above all, DNA nanostructures meets the requirements of all needs of protein detection from microcosmic to macrocosmic viewpoint.…”

Section: Dna Nanotechnology‐based Biosensorsmentioning

confidence: 99%

DNA Nanotechnology‐Based Biosensors and Therapeutics

Shen

Wang

2021

Adv Healthcare Materials

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Over the past few decades, DNA nanotechnology engenders a vast variety of programmable nanostructures utilizing Watson–Crick base pairing. Due to their precise engineering, unprecedented programmability, and intrinsic biocompatibility, DNA nanostructures cannot only interact with small molecules, nucleic acids, proteins, viruses, and cancer cells, but also can serve as nanocarriers to deliver different therapeutic agents. Such addressability innate to DNA nanostructures enables their use in various fields of biomedical applications such as biosensors and cancer therapy. This review is begun with a brief introduction of the development of DNA nanotechnology, followed by a summary of recent applications of DNA nanostructures in biosensors and therapeutics. Finally, challenges and opportunities for practical applications of DNA nanotechnology are discussed.

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“…DNA nanostructures have been shown to be capable of detecting a variety of different biomarkers, by incorporating or conjugating with affinity reagents such as aptamers and antibodies [20][21][22][23] . Furthermore, DNA nanotechnology-based assays are compatible with a large range of readouts, including electrochemistry 24 , pH 25 , conformational changes detected via gel electrophoresis [26][27][28] , fluorescence imaging 29,30 and naked-eye colorimetric changes 31 . This flexibility in both target analyte and readout could allow a single DNA nanotechnology-based assay to detect multiple classes of biomarkers simultaneously.…”

Section: Introductionmentioning

confidence: 99%

Multiplexed Label-Free Biomarker Detection by Targeted Disassembly of Variable-Length DNA Payload Chains

Aquilina

Dunn

2022

Preprint

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Simultaneously studying different types of biomarkers (DNA, RNA, proteins, metabolites) has the potential to significantly improve understanding and diagnosis for many complex diseases. However, extracting biomarkers of different types involves using several technically complex or expensive methodologies, often requiring specialized laboratories and personnel. Streamlining detection through the use of a single multiplexed assay would greatly facilitate the process of accessing and interpreting patient biomarker data. In this work, we present a method for multiplexed biomarker detection based on variable-length DNA payload chains, which are systematically disassembled in the presence of specific biomolecular targets, leading to fragments of different sizes that yield characteristic band patterns in gel electrophoresis. This strategy has enabled us to detect with high sensitivity and specificity DNA sequences including BRCA1, an RNA sequence (miR-141) and the steroid aldosterone. We show that our assay can be multiplexed, enabling simultaneous detection of different types of biomarker. Furthermore, we show that our method suffers no loss of sensitivity when conducted in fetal bovine serum and can be applied using capillary electrophoresis, which may be more amenable to automation and integration in healthcare settings.

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DNA Nanoswitch Barcodes for Multiplexed Biomarker Profiling

Cited by 33 publications

References 32 publications

Aptamers for Viral Detection and Inhibition

Aptamers for Viral Detection and Inhibition

DNA Nanotechnology‐Based Biosensors and Therapeutics

Multiplexed Label-Free Biomarker Detection by Targeted Disassembly of Variable-Length DNA Payload Chains

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