Adsorption of amino acids on boron and/or nitrogen doped functionalized graphene: A Density Functional Study

N3-Methyluridine and 2'-O-Alkyl/2'-Fluoro-N3-methyluridine functionalized nucleic acids improve nuclease resistance while maintaining duplex geometry

Herein, we report the synthesis of 2'-O-alkyl/2'-fluoro-N3-methyluridine (2'-O-alkyl/2'-F-m3U) phosphoramidites and their incorporation in DNA and RNA oligonucleotides. The duplex binding affinity and base discrimination studies showed that all 2'-O-alkyl/2'-F-m3U modifications significantly decreased the thermal stability and base-pairing discrimination ability. Serum stability study of dT20 with 2'-O-alkyl-m3U modification exhibited excellent nuclease resistance when incubated with 3'-exonucleases (SVPD) or 5'-exonucleases (PDE-II) as compared to m3U, 2'-F, 2'-OMe modified oligonucleotides. MD simulation studies with RNA tetradecamer duplexes illustrated that the m3U and 2'-O-methyl-m3U modifications reduce the duplex stabilities by disrupting the Watson-Crick hydrogen bonding and base-stacking interactions. Further molecular modelling investigations demonstrated that the 2'-O-propyl-m3U modification exhibits steric interactions with amino acid residues in the active site of 3'- and 5'-exonuclease, leading to enhanced stability. These combined data indicate that the 2'-modified-m3U nucleotides can be used as a promising tool to enhance the stability, silencing efficiency, and drug-like properties of antisense/siRNA-based therapeutics.

The Synergistic Properties and Gas Sensing Performance of Functionalized Graphene-Based Sensors

The detection of toxic gases has long been a priority in industrial manufacturing, environmental monitoring, medical diagnosis, and national defense. The importance of gas sensing is not only of high benefit to such industries but also to the daily lives of people. Graphene-based gas sensors have elicited a lot of interest recently, due to the excellent physical properties of graphene and its derivatives, such as graphene oxide (GO) and reduced graphene oxide (rGO). Graphene oxide and rGO have been shown to offer large surface areas that extend their active sites for adsorbing gas molecules, thereby improving the sensitivity of the sensor. There are several literature reports on the promising functionalization of GO and rGO surfaces with metal oxide, for enhanced performance with regard to selectivity and sensitivity in gas sensing. These synthetic and functionalization methods provide the ideal combination/s required for enhanced gas sensors. In this review, the functionalization of graphene, synthesis of heterostructured nanohybrids, and the assessment of their collaborative performance towards gas-sensing applications are discussed.

Fine-tuning pharmacological properties of mirtazapine antidepressant drug: a theoretical study

It has become obvious that fluorinated drugs have a significant role in medicinal applications. In this study, the fluorination of mirtazapine antidepressant drug was investigated using density functional theory calculations. We found that the intramolecular hydrogen bonding and charge transfers of the mirtazapine drug were influenced by fluorine substitution. Our results also reveal that the fluorination altered the stability, solubility, and molecular polarity of the mirtazapine antidepressant drug. Moreover, our results show that the electronic spectra of fluorinated derivatives of the mirtazapine exhibit a red shift toward higher wavelengths compared to the original antidepressant drug. Our calculations show that the difference between G value of the gas and water (ΔG) of fluorinated derivatives of the mirtazapine drug was negative. We also found that the fluorination can increases the first hyperpolarizability of the mirtazapine antidepressant drug. Our results present an efficient strategy to improve the nonlinear optical responses of the antidepressant drugs. Consequently, the results of present study show that the fluorination of mirtazapine could be considered as a promising strategy to design antidepressant drugs with better pharmacological properties.Communicated by Ramaswamy H. Sarma.

The recent advancement of low-dimensional nanostructured materials for drug delivery and drug sensing application: A brief review

In this review article, we have presented a detailed analysis of the recent advancement of quantum mechanical calculations in the applications of the low-dimensional nanomaterials (LDNs) into biomedical fields like biosensors and drug delivery systems development. Biosensors play an essential role for many communities, e.g. law enforcing agencies to sense illicit drugs, medical communities to remove overdosed medications from the human and animal body etc. Besides, drug delivery systems are theoretically being proposed for many years and experimentally found to deliver the drug to the targeted sites by reducing the harmful side effects significantly. In current COVID-19 pandemic, biosensors can play significant roles, e.g. to remove experimental drugs during the human trials if they show any unwanted adverse effect etc. where the drug delivery systems can be potentially applied to reduce the side effects. But before proceeding to these noble and expensive translational research works, advanced theoretical calculations can provide the possible outcomes with considerable accuracy. Hence in this review article, we have analyzed how theoretical calculations can be used to investigate LDNs as potential biosensor devices or drug delivery systems. We have also made a very brief discussion on the properties of biosensors or drug delivery systems which should be investigated for the biomedical applications and how to calculate them theoretically. Finally, we have made a detailed analysis of a large number of recently published research works where theoretical calculations were used to propose different LDNs for bio-sensing and drug delivery applications.

State of the art: synthesis and characterization of functionalized graphene nanomaterials

Nanomaterials play nowadays a preponderant role in the field of materials science due to the wide range of applications and synergy with other fields of knowledge. Recently, carbonaceous nanomaterials, most notably bi-dimensional graphene (2D graphene), have been highlighted by their application in several areas: electronics, chemistry, medicine, energy and the environment. The search for new materials has led many researchers to develop new routes of synthesis and the expansion of the current means of production, by the anchoring of other nanomaterials on graphene surface, or by modifications of its hexagon sp2 structure, through the doping of heteroatoms. By adding functional groups to the graphene surface, it is possible to increase its affinity with other materials, such as polymers, magnetic nanoparticles and clays, leading to the formation of new nanocomposites. Several covalent and non-covalent functionalization processes, their advantages and disadvantages with respect to their interactions with other chemical species, are discussed in this review. The characterization of these materials is a sensitive topic, since the insertion of functional groups over the graphene basal plane causes changes in its morphology and the so-called chemistry of surface. In this sense, beyond the classical techniques, such as x-ray Diffraction (XRD), Infrared Spectroscopy (FTIR), Raman Spectroscopy and Transmission Electron Microscopy (TEM), modern characterization techniques of graphene-based nanomaterials are discussed, focusing on those more indicated according to the proposed modifications. A significant attention was driven to environmental applications of functionalized graphenes, specifically in the removal of pollutants from wastewaters.

Acid-Free Hydrothermal-Extraction and Molecular Structure of Carbon Quantum Dots Derived from Empty Fruit Bunch Biochar

Carbon quantum dots (CQD) have great potential to be used in various applications due to their unique electrical and optical properties. Herein, a facile, green and eco-friendly hydrothermal method for the preparation of carbon quantum dots was achieved using empty fruit bunch (EFB) biochar as a renewable and abundant carbon source. In the current study, the role of the hydrothermal process was observed and studied by comparing the morphology and optical characteristics of CQD obtained from EFB biochar. Interestingly, based on the high-resolution transmission electron microscopy (HRTEM) result, a considerably similar carbon quantum dots structure can be observed for the EFB biochar sample, showing the similar size and distribution of CQD. To further discuss the extraction of CQD from EFB biochar, a mechanism based on hydrothermal-induced extraction of CQD is proposed. The optimal structure of CQD deduced by density functional theory (DFT) in energy and dipole momentum was about 2057.4905 Hatree and 18.1699 Debye, respectively. This study presents a practical experimental approach in elucidating the molecular structure of photoluminescence CQD based on the Fourier transform infrared (FTIR) spectroscopy, X-ray photoelectron spectroscopy (XPS) and transmission electron microscopy (TEM) results.

Fluorinated-antioxidant derivatives with improved pharmacological activity: a theoretical study

It has become obvious that fluorinated drugs have a significant role in medicinal applications. In this study, the fluorination of ferulic acid (FA) antioxidant was investigated using density functional theory calculations. We have explored the most important chemical properties of FA that affects the pharmacological activity of antioxidant. We found that the intramolecular hydrogen bonding and charge transfers of the FA were influenced by fluorine substitution. Our results also reveal that the fluorination altered the stability, solubility and molecular polarity of the FA. Moreover, our results show that the electronic spectra of fluorinated derivatives of FA exhibit the red and blue shifts toward higher and lower wavelengths, respectively, compared to the original FA. Our calculations show that the free energy transfer of fluorinated derivatives of the FA in water was negative that it meant that the designed molecules dissolving in aqueous phase occurred simultaneously. We also found that the fluorination can increase the first hyperpolarizability of the FA. Our results present an efficient strategy to improve the nonlinear optical responses of the antioxidants. Consequently, the results of present study show that the fluorination of FA could be considered as a promising strategy to design useful drugs with better pharmacological properties.[Formula: see text]Fluorination is an effective strategy to improve pharmacological activity of frulic acid antioxidant.Communicated by Ramaswamy H. Sarma.

Free-standing Pt and Pd nanowires: strain-modulated stability and magnetic and thermoelectric properties

We studied the Lagrangian strain-induced colossal magnetism and thermoelectric performance of platinum (Pt) and palladium (Pd) nanowires (NWs) using first-principles density functional calculations. Pt and Pd NWs were found to be dynamically stable for both strain-free and strained situations. Their cohesive energy and magnetic moment showed decrease and increase, respectively, with an increase in tensile Lagrangian strain (2% to 10%) in the (001) plane. Furthermore, we analyzed the thermodynamic properties using the quasi-harmonic approximation (QHA), heat capacity and internal energy of both NWs originating at 0 K, where their internal energy (E) remained high. For the NWs with the (100) and (010) planes, magnetism exist in the strain-free case, whereas it decreases rapidly on increasing the value of strain. Our results predict the excellent stability, colossal magnetism, and thermoelectric properties of the studied NWs; therefore, these NWs can be used as potential thermoelectric materials for device applications.

B–Hb⋯π interaction in borane–graphene complexes: coronene as a case study

N/B/BN doping in graphene enhances adsorption of boranes.

Understanding reactivity, aromaticity and absorption spectra of carbon cluster mimic to graphene: a DFT study

Effect of doping B and/or N on the reactivity, aromaticity and absorption spectra of graphene and functionalized (–OH and –COOH) carbon cluster mimicking graphene is studied using DFT, DFRT and TD-DFT.