Exploiting SERS sensitivity to monitor DNA aggregation properties

Caprara, Debora; Ripanti, Francesca; Capocefalo, Angela; Ceccarini, Marina; Petrillo, C.; Postorino, P.

doi:10.1016/j.ijbiomac.2020.12.039

Cited by 4 publications

(2 citation statements)

References 73 publications

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“…The peak at 1610 cm −1 shifted to 1633 cm −1 , corresponding to the molecular vibration of base A. The peak at 1665 cm −1 shifted to 1658 cm −1 , corresponding to the stretching vibration of C=O in base C. In Figure 5b, there is also an obvious peak change in the range of 1650 to 1685 cm −1 , and the peak at 1677 cm −1 is attributed to hydrogen bonding Watson-Crick complementary pairing, which indicates that the hydrogen bonding between the bases is affected [44]. These shifts indicate interactions between DOX molecules and bases A, T, C, and G, as well as the phosphate group in the DNA chain, revealing the non-specific binding of DOX molecules to ctDNA [12].…”

Section: Sers Spectra Of Ctdna-dox and Ctdna-dox + Yoyo-1mentioning

confidence: 94%

Studying the Effects and Competitive Mechanisms of YOYO-1 on the Binding Characteristics of DOX and DNA Molecules Based on Surface-Enhanced Raman Spectroscopy and Molecular Docking Techniques

Li,

Yun

et al. 2024

IJMS

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Revealing the interaction mechanisms between anticancer drugs and target DNA molecules at the single-molecule level is a hot research topic in the interdisciplinary fields of biophysical chemistry and pharmaceutical engineering. When fluorescence imaging technology is employed to carry out this kind of research, a knotty problem due to fluorescent dye molecules and drug molecules acting on a DNA molecule simultaneously is encountered. In this paper, based on self-made novel solid active substrates NpAA/(ZnO-ZnCl2)/AuNPs, we use a surface-enhanced Raman spectroscopy method, inverted fluorescence microscope technology, and a molecular docking method to investigate the action of the fluorescent dye YOYO-1 and the drug DOX on calf thymus DNA (ctDNA) molecules and the influencing effects and competitive relationships of YOYO-1 on the binding properties of the ctDNA-DOX complex. The interaction sites and modes of action between the YOYO-1 and the ctDNA-DOX complex are systematically examined, and the DOX with the ctDNA-YOYO-1 are compared, and the impact of YOYO-1 on the stability of the ctDNA-DOX complex and the competitive mechanism between DOX and YOYO-1 acting with DNA molecules are elucidated. This study has helpful experimental guidance and a theoretical foundation to expound the mechanism of interaction between drugs and biomolecules at the single-molecule level.

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Section: Sers Spectra Of Ctdna-dox and Ctdna-dox + Yoyo-1mentioning

confidence: 94%

Studying the Effects and Competitive Mechanisms of YOYO-1 on the Binding Characteristics of DOX and DNA Molecules Based on Surface-Enhanced Raman Spectroscopy and Molecular Docking Techniques

Li,

Yun

et al. 2024

IJMS

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“…In recent years, the attention has moved to genomic dsDNA, increasing the complexity of the system, as targets are composed of thousands of bases and require PCR amplification [ 126 , 127 ]. PCR and asymmetric PCR [ 128 ] techniques for the detection and multiple detection of mutations [ 112 ], While, ct-DNA [ 129 ] were integrated in extrinsic SERS approach. In extrinsic SERS, a label or tag, named “Raman reporter” is introduced to provide a detection signal.…”

Section: Insights Into Double Helix Structure and Analysis: Spectroscopic Approachesmentioning

confidence: 99%

DNA Studies: Latest Spectroscopic and Structural Approaches

et al. 2021

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This review looks at the different approaches, techniques, and materials devoted to DNA studies. In the past few decades, DNA nanotechnology, micro-fabrication, imaging, and spectroscopies have been tailored and combined for a broad range of medical-oriented applications. The continuous advancements in miniaturization of the devices, as well as the continuous need to study biological material structures and interactions, down to single molecules, have increase the interdisciplinarity of emerging technologies. In the following paragraphs, we will focus on recent sensing approaches, with a particular effort attributed to cutting-edge techniques for structural and mechanical studies of nucleic acids.

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