Inquest for the interaction of canonical and non-canonical DNA/RNA bases with ternary based 2D Si2BN and doped Si2BN for biosensing applications

Exploring the fascinating interplay of epigenetically modified DNA bases with two dimensional bare and P-doped Si2BN and BN sheets for biosensing applications: A compelling DFT perspective

Detecting epigenetically modified (EM) bases is crucial for disease detection, biosensing, and DNA sequencing. Two-dimensional P-doped Si2BN and BN sheets are used as sensing substrates in density functional theory (DFT) studies. Both the sheets are doped with a phosphorous atom at various atomic sites to examine the sheet's potential in detecting 5-hydroxymethylcytosine (5hmc), 5-methylcytosine (5mc), 7-methylguanine (7mg) and 8-oxoguanine (8oxg) bases. Doping of the P atom in the Si2BN sheet improves the adsorption energy (Ead) of Ab+5hmc (-107.16 kcal/mol) and Ab+5mc (-78.36 kcal/mol), As+7mg (-84.31 kcal/mol) in the gas and aqueous phase Ab+5hmc (-93.28 kcal/mol), An+7mg (-78.92 kcal/mol) and As+5mc (-77.52 kcal/mol) respectively. Standard deviation (θ) indicates that As complexes have high θ values ranging from 4.55 to 37.77, suggesting a high likelihood of distinguishing the bases. The P-doped BN complexes exhibit noticeable work functional shifting (Δϕ%) recommended that they can be used as ϕ-based sensors. Time-dependent DFT results suggest that when EM bases interact with P-doped Si2BN complexes, significant blue shifts (hypsochromic) and red shifts (bathochromic) are observed in the visible and near-infrared spectrum. Hence, the above finding suggests that P-doped Si2BN sheets are highly effective for sensing EM bases and are recommended for DNA/RNA sequencing applications.

Structural and electronic properties of Li-adsorbed single and bilayer porphyrin sheets as an electrode material for energy storage devices - a DFT analysis

In this study, we adopt density functional theory (DFT) to investigate the structural and electronic properties of monolayer and bilayer 2-D porphyrin sheets (PS) of covalent organic frameworks (COFs) upon interaction with Li atoms as an electrode material for Li-ion batteries. Based on their mechanical properties, our systems exhibit remarkable stability. The adsorption of Li at various sites in the monolayer, including over and between the bilayers of PS, is investigated. Our results indicate that Li at site S3 has the highest adsorption energy, and Li is energetically preferred to intercalate within the bilayer rather than monolayers due to its high adsorption energies. Notably, the charge transfer remains consistent for both systems. The density of state distribution, charge density difference plots, spin density and the band structure results show that the PS has high electrical conductivity. Additionally, the reaction potential was carried out, and the negative reaction potential results demonstrate that the system undergoes a reduction reaction. The resultant theoretical capacity and the open circuit voltage highlight that the PS materials of COFs are an important step for use in the next generation high-performance lithium-ion batteries.