Interaction between antidepressant drug trazodone with double-stranded DNA: Multi-spectroscopic and computational analysis

Trazodone (TZD) is an antidepressant drug used to treat major depressive and sleeping disorders. Elevated doses of trazodone are associated with central nervous system depression, which manifests as nausea, drowsiness, confusion, vertigo, exhaustion, etc. To develop a clinically viable active pharmaceutical compound with minimal adverse effects, it is imperative to possess a comprehensive knowledge of the drug's action mechanism on DNA. Hence, we investigate the mode of interaction between trazodone and DNA utilizing various spectroscopic and computational techniques. Studies using UV-vis titration showed that the DNA and trazodone have an effective interaction. The magnitude of the Stern-Volmer constant (KSV) has been calculated to be 5.84 × 106 M-1 by the Lehrer equation from a steady-state fluorescence study. UV-vis absorption, DNA melting, dye displacement, and circular dichroism studies suggested that trazodone binds with DNA in minor grooves. Molecular docking and molecular dynamic simulation demonstrated that the TZD-DNA system was stable, and the mode of binding was minor groove. Furthermore, ionic strength investigation demonstrates that DNA and trazodone do not have a substantial electrostatic binding interaction.

Fluorescent folic acid-capped copper nanoclusters for the determination of rifampicin based on inner filter effect

Development of excellent sensors to determine trace concentrations of rifampicin is of intense importance for medicine analysis and human health. Herein, a facile and green fluorescent probe was established for the determination of rifampicin by using folic acid protected copper nanoclusters (FA-Cu NCs). Many characterization methods were applied for the analysis of the as-prepared FA-Cu NCs including UV-visible absorption spectra, fluorescence spectra, Fourier-transform infrared spectroscopy (FT-IR), transmission electron microscope (TEM), fluorescence lifetime and X-ray photoelectron spectroscopy (XPS). The TEM image suggested that the as-prepared FA-Cu NCs were highly dispersed. The as-synthesized FA-Cu NCs emerged blue fluorescence under UV light and demonstrated maximum emission wavelength at 446 nm under the maximum excitation wavelength of 358 nm. After the addition of rifampicin, the FL intensities of FA-Cu NCs were uncommonly quenched. The related experimental data intimated that the quenching mechanisms were assumed to the inner filter effect (IFE) and static quenching. The as-proposed probe platform displayed an obvious linear relationship with rifampicin concentrations varying from 0.5 to 100 µM, and the corresponding detection limit (LOD) was 0.073 µM (S/N = 3). Finally, the as-established detection platform was successfully employed to analyze trace concentrations of rifampicin in real samples.

A highly selective fluorescent sensor for chlortetracycline based on histidine-templated copper nanoclusters

In this study, histidine-protected copper nanoclusters (Cu NCs@His) were established by using a one-pot method, which histidine and ascorbic acid were applied as the template and reducing agent, respectively. The as-developed Cu NCs@His endued green emission wavelength at 494 nm with the excitation of 378 nm. The Cu NCs@His exhibited green fluorescence under UV light (365 nm). Using Cu NCs@His as a pattern nanosensor, the fluorescent "turn off" mechanism was fabricated for the determination of chlortetracycline in the light of the linear decrease of fluorescence intensities around 494 nm. The chlortetracycline conducted as a quencher, leading to reveal an excellent linear relationship between ln(F₀/F) of Cu NCs@His and chlortetracycline concentrations with the range of 0.5-200 μM, and the detection limit was 0.876 μM. The fluorescence quenching of Cu NCs@His revealed excellent selectivity for chlortetracycline over other potential interfering substances in the human body. This strategy was exhibited to be a convenient sensing platform for the detection of chlortetracycline in real medical samples, which could unfold a brand new and direct system for the sensing of chlortetracycline in real samples.

Realization of a Model-Free Pathway for Quantum Dot-Protein Interaction Beyond Classical Protein Corona or Protein Complex

Although in recent times nanoparticles (NPs) are being used in various biological applications, their mechanism of binding interactions still remains hazy. Usually, the binding mechanism is perceived to be mediated through either the protein corona (PC) or protein complex (PCx). Herein, we report that the nanoparticle (NP)-protein interaction can also proceed via a different pathway without forming the commonly observed PC or PCx. In the present study, the NP-protein interaction between less-toxic zinc-silver-indium-sulfide (ZAIS) quantum dots (QDs) and bovine serum albumin (BSA) was investigated by employing spectroscopic and microscopic techniques. Although the analyses of data obtained from fluorescence and thermodynamic studies do indicate the binding between QDs and BSA, they do not provide clear experimental evidence in favor of PC or PCx. Quite interestingly, high-resolution transmission electron microscopy (HRTEM) studies have shown the formation of a new type of species where BSA protein molecules are adsorbed onto some portion of a QD surface rather than the entire surface. To the best of our knowledge, we believe that this is the first direct experimental evidence in favor of a model-free pathway for NP-protein interaction events. Thus, the outcome of the present study, through experimental evidence, clearly suggests that NP-protein interaction can proceed by following a pathway that is different from classical PC and PCx.

Probing How Various Metal Ions Interact with the Surface of QDs: Implication of the Interaction Event on the Photophysics of QDs

With an aim to understand the mechanism of interaction between quantum dots (QDs) and various metal ions, fluorescence response of less-toxic and water-soluble glutathione-capped Zn-Ag-In-S (GSH@ZAIS) QDs in the presence of different metal ions has been investigated at both ensemble and single-molecule level. Fourier transform infrared (FT-IR) spectroscopy has also been performed to obtain a molecular level understanding of the interaction event. The steady-state data reveal no significant change in QD emission for alkali and alkaline earth metal ions, while there is a decrease in fluorescence intensity for transition metal (TM) and some heavy transition metal (HTM) ions. Interestingly, a significant fluorescent enhancement (FE) (19-96%) of QDs is found for Cd²⁺ ions. Time-resolved fluorescence studies reveal that all the three decay components of QDs decrease in the presence of first-row TM ions. However, in the case of Cd²⁺, the shorter component is found to increase while the longer one decreases. The analysis of data reveals that photoinduced electron transfer is responsible for fluorescence quenching of QDs in the presence of first-row TM ions and destruction/removal of trap/defect states in the case of Cd²⁺ causes the FE. In FT-IR experiments, a prominent peak at 670 cm^-1, corresponding to Cd-S stretching vibrations, indicates strong ground-state interactions between the -SH of GSH and Cd²⁺ ions. Moreover, a decrease in the diffusion coefficient of QDs in the presence of Cd²⁺ ions during fluorescence correlation spectroscopy (FCS) studies further substantiates the removal of GSH by Cd²⁺ from the surface of QDs. The optical output of this study demonstrates that ZAIS can be used for fluorescence signaling of various metal ions and in particular selective detection of Cd²⁺. More importantly, these results also suggest that Cd²⁺ can effectively be used for enhancing the fluorescence quantum yield of thiol-capped QDs such as GSH@ZAIS.

Highly efficient energy transfer from a water soluble zinc silver indium sulphide quantum dot to organic J-aggregates

Highly efficient energy transfer from a water soluble quantum dot to organic J-aggregates in an inorganic–organic nanohybrid associate.

Reply to the 'Comment on ""Where does the fluorescing moiety reside in a carbon dot?"- Investigations based on fluorescence anisotropy decay and resonance energy transfer dynamics"' by H. C. Joshi, Phys. Chem. Chem. Phys., 2019, 21, DOI: 10.1039/c9cp00136k

The claim that the analysis regarding resonance energy transfer should have been made using different equations than those that we have used is negated based on the following points: (1) we are well aware of the equations the author has provided in his comment. The equation (eqn (3) mentioned below) that the author has written is undoubtedly too simple to describe the complex system delineated in our original paper. This particular equation is perhaps OK for simple dye (donor and acceptor) systems; however, such a simple equation is never enough for nanoparticle/quantum dot systems. (2) Another equation suggested by the author in his comment (eqn (2)) contains a parameter called donor concentration in excited state. We have categorically described in page 6-7 of our original paper why it is difficult to measure the donor concentration accurately even in the ground state. When the donor concentration can't be known accurately it can't be used in the suggested equation. (3) Donor-acceptor distance calculated by eqn (3)/Table 1 provided by the author deviates more than 100% from the distance that is physically feasible. Such kinds of problems are well documented in the literature. (4) One of the papers cited by the author in his comment and many other published papers clearly mention that in the case when all donor molecules/particles do not take part in the resonance energy transfer process or the stoichiometry of a donor-acceptor complex is not known or deviates strongly from 1 : 1, especially in quantum dots or any other nanomaterial system, it is not possible to extract accurate dynamical information related to RET from donor decay. Instead risetime of acceptor yields much more accurate information. Such situations do arise in our system as well.

"Where does the fluorescing moiety reside in a carbon dot?" - Investigations based on fluorescence anisotropy decay and resonance energy transfer dynamics

It has been shown recently that aggregated dyes are responsible for very high fluorescence in a carbon dot (CD). However, what is the location of the fluorescing moiety in CD? Is it inside the CD or attached to the CD's surface? In order to answer these intriguing questions regarding the location of the fluorescing moiety in a CD, we performed rotational anisotropy decay dynamics and resonance energy transfer (RET) dynamics. Rotational correlation time of ∼120 picoseconds nullifies the fact that the whole CD is fluorescing. Instead, we can say that the fluorescing moiety is either embedded inside the CD or attached to the surface of the CD or linked to the CD through covalent bonds. From the fluorescence anisotropy decay dynamics in solvents of different viscosities, we could show that the fluorescing moiety is not attached to the surface of the CD or for that matter, the fluorescing moiety is not in a rigid environment inside the CD. RET dynamical analysis has shown that the time for RET (from CD to acceptor Rh123) is about 5.4 ns and the RET dynamics are independent of the acceptor concentration. Using RET dynamics, we could prove that the fluorescing moiety is not outside the CD; rather, it is inside the CD, but not in a rigid environment. The geometric distance between the fluorescing moiety of the CD and the acceptor (Rh123) has been obtained to be 4.55 nm. Using Förster formulation, the distance between the fluorescing moiety inside the CD and the acceptor Rh123 has been calculated to be 4.24 nm. Thus, we could not only reveal the exact location of the fluorescing moiety in a CD, but we could also demonstrate that unlike for many other nanomaterials, Förster formulation could explain the experimental observables regarding RET involving CD reasonably well.

Evidence of homo-FRET in quantum dot–dye heterostructured assembly

Evidence of homo-FRET in inorganic–organic hybrid hetero-structured assembly is demonstrated

What type of nanoscopic environment does a cationic fluorophore experience in room temperature ionic liquids?

In the presence of a cationic fluorophore (rhodamine 6G) whose absorption has a significant spectral overlap with the emission of a room temperature ionic liquid (RTIL), the emission of the latter gets quenched, and the quenching has been shown to be dynamic in nature. It has been shown that resonance energy transfer (RET) indeed happens between the RTIL (donor) and rhodamine 6G (cationic acceptor), and RET is the reason for the quenching of the RTIL emission. The spectral and temporal aspects of the RET (between neat RTILs as the donors and rhodamine 6G as the acceptor) were closely studied by steady-state and picosecond time-resolved fluorescence spectroscopy. The influence of the alkyl chain length of the cation, size of the anion, excitation wavelength and concentration of the acceptor on the RET dynamics were also investigated. The energy transfer time (obtained from the rise time of the acceptor) was noted to vary from 2.5 ns to 4.1 ns. By employing the Förster formulation, the donor-acceptor distance was obtained, and its magnitude was found to vary between 31.8 and 37.1 Å. The magnitude of the donor-acceptor distance was shown to be independent of the alkyl chain length of the cation but dependent on the size of the anion of the RTIL. Moreover, the donor-acceptor distance was observed to be independent of the excitation wavelength or concentration of the acceptor. It was shown that the Förster formulation can possibly account for the mechanism and hence can explain the experimental observables in the RET phenomenon. Following the detailed experiments and rigorous analysis, a model has been put forward, which can successfully explain the nanoscopic environment that a cationic fluorophore experiences in an RTIL. Moreover, the nanoscopic environment experienced by the cationic probe has been noted to be different from that experienced by a neutral fluorophore.

Binding interaction of a prospective chemotherapeutic antibacterial drug with β-lactoglobulin: results and challenges

This Article reports a detailed characterization of the binding interaction of a potential chemotherapeutic antibacterial drug, norfloxacin (NOF), with the mammalian milk protein β-lactoglobulin (βLG). The thermodynamic parameters, ΔH, ΔS, and ΔG, for the binding phenomenon as-evaluated on the basis of van't Hoff relationship reveal the predominance of electrostatic/ionic interactions underlying the binding process. However, the drug-induced quenching of the intrinsic tryptophanyl fluorescence of the protein exhibits intriguing characteristics on Stern-Volmer analysis (displays an upward curvature instead of conforming to a linear regression). Thus, an extensive time-resolved fluorescence spectroscopic characterization of the quenching process has been undertaken in conjugation with temperature-dependent fluorescence quenching studies to unveil the actual quenching mechanism. The invariance of the fluorescence decay behavior of βLG as a function of the quencher (here NOF) concentration coupled with the commensurate dependence of the drug-protein binding constant (K) on temperature, the drug-induced fluorescence quenching of βLG is argued to proceed through static mechanism. This postulate is aided further support from absorption, fluorescence, and circular dichroism (CD) spectral studies. The present study also throws light on the important issue of drug-induced modification in the native protein conformation on the lexicon of CD, excitation-emission matrix spectroscopic techniques. Concurrently, the drug-protein interaction kinetics and the energy of activation of the process are also explored from stopped-flow fluorescence technique. The probable binding locus of NOF in βLG is investigated from AutoDock-based blind docking simulation.