Aptamer-functionalized nanomaterials for biological applications

Ren, Qiaoli; Ga, Lu; Lu, Zhili; Ai, Jun; Wang, Tie

doi:10.1039/c9qm00779b

Cited by 39 publications

(28 citation statements)

References 109 publications

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“…In the past few years, aptamers have been obtained for a wide range of targets, for example, cells, viruses, inorganic materials, metal ions, coenzymes, nucleobases, amino acids, antibiotics, pesticides, polypeptides, and hormones and other low-molecular-weight molecules [ 1 , 2 , 3 ]. Multiple studies have been performed that are dedicated to the development of biosensors functionalized with aptamers; the biosensors are based on various nanomaterials: quantum dots, metal nanoparticles (NPs), and single- and multiwalled carbon nanotubes [ 4 , 5 , 6 ].…”

Section: Introductionmentioning

confidence: 99%

Methods and Applications of In Silico Aptamer Design and Modeling

Buglak

Самохвалов

Zherdev

et al. 2020

IJMS

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Aptamers are nucleic acid analogues of antibodies with high affinity to different targets, such as cells, viruses, proteins, inorganic materials, and coenzymes. Empirical approaches allow the design of in vitro aptamers that bind particularly to a target molecule with high affinity and selectivity. Theoretical methods allow significant expansion of the possibilities of aptamer design. In this study, we review theoretical and joint theoretical-experimental studies dedicated to aptamer design and modeling. We consider aptamers with different targets, such as proteins, antibiotics, organophosphates, nucleobases, amino acids, and drugs. During nucleic acid modeling and in silico design, a full set of in silico methods can be applied, such as docking, molecular dynamics (MD), and statistical analysis. The typical modeling workflow starts with structure prediction. Then, docking of target and aptamer is performed. Next, MD simulations are performed, which allows for an evaluation of the stability of aptamer/ligand complexes and determination of the binding energies with higher accuracy. Then, aptamer/ligand interactions are analyzed, and mutations of studied aptamers made. Subsequently, the whole procedure of molecular modeling can be reiterated. Thus, the interactions between aptamers and their ligands are complex and difficult to understand using only experimental approaches. Docking and MD are irreplaceable when aptamers are studied in silico.

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Section: Introductionmentioning

confidence: 99%

Methods and Applications of In Silico Aptamer Design and Modeling

Buglak

Самохвалов

Zherdev

et al. 2020

IJMS

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“…The specificity of aptamers comes from the variety of shapes they can assume (such as helices and single-stranded loops). , In addition to this functionality, their small size (typically <100 nucleotides), ease of modification, structural and conformational flexibility, biocompatibility, and improved stability make them suitable for use in cancer diagnosis, targeted drug delivery, and biomarker discovery. − Moreover, compared with antibodies, the small size of aptamers, the ability to withstand against degradation (due to processing steps, temperature change, shear), and the absence of immunogenicity make them more useful in biological applications . The high-affinity binding of aptamers to targeting cells and tissues in a complex biological environment ensures selective and specific sensing (of proteins, viruses, bacteria, diseased cells), bioimaging, , and delivery of therapeutics . Traditionally, aptamers are discovered using SELEX (systematic evolution of ligands by exponential enrichment), a directed in vitro evolution technique in which large libraries of oligonucleotides are screened for binding various targets with strong affinity. , Known aptamers can be chemically synthesized (including truncated versions) and integrated into DNA nanomaterials using hybridization (Figure b).…”

Section: Aptamer-functionalized Dna Nanomaterialsmentioning

confidence: 99%

Aptamer-Programmed DNA Nanodevices for Advanced, Targeted Cancer Theranostics

Walia

Chandrasekaran

Chakraborty³

et al. 2021

ACS Appl. Bio Mater.

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DNA has been demonstrated to be a versatile material for construction at the nanoscale. DNA nanodevices are highly programmable and allow functionalization with multiple entities such as imaging modalities (fluorophores), targeting entities (aptamers), drug conjugation (chemical linkers), and triggered release (photoresponsive molecules). These features enhance the use of DNA nanodevices in biological applications, catalyzing the rapid growth of this domain of research. In this review, we focus on recent progress in the development and use of aptamer-functionalized DNA nanodevices as theranostic agents, their characterization, applications as delivery platforms, and advantages. We provide a brief background on the development of aptamers and DNA nanodevices in biomedical applications, and we present specific applications of these entities in cancer diagnosis and therapeutics. We conclude with a perspective on the challenges and possible solutions for the clinical translation of aptamer-functionalized DNA nanodevices in the domain of cancer therapeutics.

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“…Apart from the above mentioned materials, other advanced materials also have been used in sample preparation of aquatic products such as ions liquid [113][114][115] and aptamer modified materials [22,116]. Ionic liquid is a kind of molten salt with melting point near room temperature, which is completely composed of anionic and cationic in liquid at room temperature or near room temperature [114,115].…”

Section: Other Materialsmentioning

confidence: 99%

“…Aptamer modified materials has also attracted much attention in analytical and bioanalytical chemistry, and biomedicine due to their high stability, affinity, and selectivity [116]. Cheng et al [22] developed an ELISA for residue screening of the furazolidone metabolite, 3‐Amino‐2‐oxazolidinone (AOZ), in cultured fish via the specific interaction between AOZ and AOZ‐specific antibodies.…”

Section: Advanced Materials For Sample Preparationmentioning

confidence: 99%

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Advanced materials on sample preparation for safety analysis of aquatic products

Lai

Zhang

2020

J of Separation Science

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Safety analysis of aquatic products has been a challenge in recent years due to the serious matrix interference, complex characteristics, and ultra-low content of analytes. Introducing advanced materials to sample preparation technique can greatly improve the extraction, enrichment, and separation for further qualification and quantification of target analytes by coupling with consequent analytical technologies. Based on this scope, this review is mainly introducing advanced materials on the sample preparation for safety analysis of aquatic products in the past decade. After introducing the importance of the corresponding advanced materials, advanced materials are used for the sample preparation and in the improvement of safety analysis result of aquatic products. Advanced materials for sample preparation of aquatic products were reviewed including carbon materials, metal organic frameworks, covalent organic frameworks, molecularly/ions imprinted polymers, etc. Then, applications of the advanced materials for the analysis of specific fishery analytes (antibiotics, anesthetic, preservatives, etc.) were briefly introduced. Conclusions and perspectives on advanced materials for sample preparation and safety analysis of aquatic products were also presented.

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Aptamer-functionalized nanomaterials for biological applications

Abstract: This review comprehensively summarizes potential biological application using aptamer-functionalized nanomaterials platform, focusing on explaining syntheses, properties, prospects and challenges.

Cited by 39 publications

References 109 publications

Methods and Applications of In Silico Aptamer Design and Modeling

Methods and Applications of In Silico Aptamer Design and Modeling

Aptamer-Programmed DNA Nanodevices for Advanced, Targeted Cancer Theranostics

Advanced materials on sample preparation for safety analysis of aquatic products

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