Biosensors for DNA and RNA detection and characterization

Davis, Frank; Higson, Séamus P.J.

doi:10.1533/9780857097187.2.163

Biosensors for Medical Applications 2012

DOI: 10.1533/9780857097187.2.163

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Biosensors for DNA and RNA detection and characterization

Frank Davis

Séamus P.J. Higson

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Cited by 2 publications

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“…Label-free sensing of RNA–small molecule interactions has been shown using propagating surface plasmon resonance (SPR) and electrochemistry methods. , The common approach to the preparation of optical and electrochemical , transducers is based on immobilization of RNA as the recognition element. In the case of the SPR-based transducer, several 5′-biotinylated RNA transcripts were synthesized and immobilized on the surface of a streptavidin-modified SPR chip, and the binding of AMG antibiotics to different RNA sequences on the surface was studied .…”

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Direct Observation of Aminoglycoside–RNA Binding by Localized Surface Plasmon Resonance Spectroscopy

et al. 2013

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RNA is involved in fundamental biological functions when bacterial pathogens replicate. Identifying and studying small molecules that can interact with bacterial RNA and interrupt cellular activities is a promising path for drug design. Aminoglycoside (AMG) antibiotics, prominent natural products that recognize RNA specifically, exert their biological functions by binding to prokaryotic ribosomal RNA and interfering with protein translation, ultimately resulting in bacterial cell death. The decoding site, a small internal loop within the 16S rRNA, is the molecular target for the AMG antibiotics. The specificity of neomycin B, a highly potent AMG antibiotic, to the ribosomal decoding RNA site, was previously studied by observing AMG–RNA complexes in solution. Here we study this interaction using localized surface plasmon resonance (LSPR) transducers comprising gold island films prepared by evaporation on glass and annealing. Small molecule AMG receptors were immobilized on the Au islands via PEG-thiol linkers, and the interaction with target RNA in solution was studied by monitoring the change in the LSPR optical response upon binding. The results show high-affinity binding of neomycin to 27-nucleotide model A-site and A-modified RNA sequences in the nanomolar range, while no specific binding is observed for synthetic RNA oligomers (e.g., poly-U). The impact of specific base substitutions in the A-site RNA constructs on binding affinity and selectivity is determined quantitatively. It is concluded that LSPR is a powerful tool for providing molecular insight into small molecule–RNA interactions and for the design and screening of selective antimicrobial drugs.

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Direct Observation of Aminoglycoside–RNA Binding by Localized Surface Plasmon Resonance Spectroscopy

et al. 2013

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High resolution UV spectral imaging and bio-detection with magnetic dipole quasi-BIC resonant dielectric metasurfaces

Zhang

Nie

Liu

et al. 2023

Optics Communications

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Biosensors for DNA and RNA detection and characterization

Cited by 2 publications

References 119 publications

Direct Observation of Aminoglycoside–RNA Binding by Localized Surface Plasmon Resonance Spectroscopy

Direct Observation of Aminoglycoside–RNA Binding by Localized Surface Plasmon Resonance Spectroscopy

High resolution UV spectral imaging and bio-detection with magnetic dipole quasi-BIC resonant dielectric metasurfaces

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