Modified Guanines as Constituents of Smart Ligands for Nucleic Acid Quadruplexes

Repetitive guanine‐rich nucleic acid sequences play a crucial role in maintaining genome stability and the cell life cycle and represent potential targets for regulatory drugs. Recently, it has been demonstrated that guanine‐based ligands with a porphyrin core can be used as markers of G‐quadruplex assemblies in cell tissues. Herein, model systems of guanine‐based ligands are explored by DFT methods. The energies of formation of modified guanine tetrads and those of modified tetrads stacked on the top of natural guanine tetrads have been calculated. The interaction energy has been decomposed into contributions from hydrogen bonding, stacking, and ion coordination and a twist–rise potential energy scan has been performed to find the individual local minima. Energy decomposition analysis reveals the impact of various substituents (F, Cl, Br, I, Me, NMe₂) on individual energy terms. In addition, cooperative reinforcement in forming the modified and stacked tetrads, as well as the frontier orbitals participating in the hydrogen‐bonding framework involving the HOMO–LUMO gap between the occupied σ_HOMO on the proton‐accepting C=O and =N? groups and unoccupied σ_LUMO on the N?H groups, has been studied. The investigated systems are demonstrated to have a potential in ligand development, mainly due to stacking enhancement compared with natural guanine, which is used as a reference.     

Locally adaptive bilateral clustering for universal image denoising

This paper presents a novel and efficient locally adaptive denoising method based on clustering of pixels into regions of similar geometric and radiometric structures. Clustering is performed by adaptively segmenting pixels in the local kernel based on their augmented variational series. Then, noise pixels are restored by selectively considering the radiometric and spatial properties of every pixel in the formed clusters. The proposed method is exceedingly robust in conveying reliable local structural information even in the presence of noise. As a result, the proposed method substantially outperforms other state-of-the-art methods in terms of image restoration and computational cost. We support our claims with ample simulated and real data experiments. The relatively fast runtime from extensive simulations also suggests that the proposed method is suitable for a variety of image-based products ?? either embedded in image capturing devices or applied as image enhancement software.     

Amorphous Calcium Phosphates: Solvent-Controlled Growth and Stabilization through the Epoxide Route

Calcium phosphates stand among the most promising nanobiomaterials in key biomedical applications, such as bone repairment, signalling or drug/gene delivery. Their intrinsic properties as crystalline structure, composition, particle shape and size define their successful use. Among these compounds, metastable amorphous calcium phosphate (ACP) is currently gaining particular attention due to its inherently high reactivity in solution, which is crucial in bone development mechanisms. However, the preparation of this highly desired (bio)material with control over its shape, size and phase purity remains as a synthetic challenge. In this work, the epoxide route was adapted for the synthesis of pure and stable ACP colloids. By using biocompatible solvents, such as ethylene glycol and/or glycerine, it was possible to avoid the natural tendency of ACP to maturate into more stable and crystalline apatites. Moreover, this procedure offers size control, ranging from small nanoparticles (60 nm) to micrometric spheroids (>500 nm). The eventual fractalization of the internal mesostructured can be tuned, by simply adjusting the composition of the ethylene glycol:glycerine solvent mixture. These findings introduce the use of green solvents as a new tool to control crystallinity and/or particle size in the synthesis of nanomaterials, avoiding the use of capping agents and preserving the natural chemical reactivity of the pristine surface.     

Optimized K-means (OKM) clustering algorithm for image segmentation

This paper presents the optimized K-means (OKM) algorithm that can homogenously segment an image into regions of interest with the capability of avoiding the dead centre and trapped centre at local minima phenomena. Despite the fact that the previous improvements of the conventional K-means (KM) algorithm could significantly reduce or avoid the former problem, the latter problem could only be avoided by those algorithms, if an appropriate initial value is assigned to all clusters. In this study the modification on the hard membership concept as employed by the conventional KM algorithm is considered. As the process of a pixel is assigned to its associate cluster, if the pixel has equal distance to two or more adjacent cluster centres, the pixel will be assigned to the cluster with null (e. g., no members) or to the cluster with a lower fitness value. The qualitative and quantitative analyses have been performed to investigate the robustness of the proposed algorithm. It is concluded that from the experimental results, the new approach is effective to avoid dead centre and trapped centre at local minima which leads to producing better and more homogenous segmented images.     

The use of molecularly imprinted polymers for the multicomponent determination of endocrine‐disrupting compounds in water and sediment

The method employing molecularly imprinted polymers for the extraction and clean up of endocrine‐disrupting compounds (estrogens, bisphenol A, and alkylphenols) from water and sediment is described. The identical extraction/clean‐up and LC‐MS/MS condition were used for the analysis of both types of samples. The method showed high recoveries ranging from 90 to 99% with excellent precision (intrabatch: 3.6–9.3%; interbatch: 5.6–11.4% for water; intrabatch: 4.3–8.5%; interbatch: 6.1–9.6% for sediment). The LOD was in the range of 0.7–1.9 ng/L and 0.3–0.6 ng/g for water and sediment, respectively. Overall extraction on molecularly imprinted polymers substantially enhanced sample clean‐up. The difference in efficiency of clean‐up was particularly pronounced when a large sample volume/weight was extracted and analyzed. Finally, the method was successfully applied for the analysis of 20 water and sediment samples.     

5-Bromo- and 3,5-dibromo-2-hydroxy-N-phenylbenzamides — inhibitors of photosynthesis

5-Bromo-(Br-PBA) and 3,5-dibromo-2-hydroxy-N-phenylbenzamides (Br₂-PBA) inhibited photosynthetic electron transport (PET) and their inhibitory efficiency depended on the compound lipophilicity as well as on the electronic properties of the R substituent in the N-phenyl moiety. Br-PBA showed higher PET inhibiting activity than Br₂-PBA with the same R substituent. The most effective inhibitors in the tested series were the derivatives with R = 3-F (Br-PBA; IC₅₀ = 4.3 μmol dm^?3) and R = 3-Cl (Br₂-PBA; IC₅₀ = 8.6 μmol dm^?3). Bilinear dependence of the PET inhibiting activity on the lipophilicity of the compounds as well as on the Hammett constant, σ, of the R substituent was observed for both investigated series. Using EPR spectroscopy it was found that the site of action of the tested compounds in the photosynthetic apparatus is situated on the donor side of PS 2, in D^· or in the Z^·/D^· intermediates. Interaction of the studied compounds with chlorophyll a and aromatic amino acids present in the pigment-protein complexes mainly in photosystem 2 was documented by fluorescence spectroscopy.