Identification of elements on GeneX-secA RNA of Escherichia coli required for SecA binding and secA auto-regulation

The protein translocation ATPase of Escherichia coli, SecA protein, auto-regulates its translation by binding to its translation initiation region in geneX-secA mRNA. To analyze this regulation further the secondary structure of this portion of geneX-secA RNA was investigated utilizing structure-specific nucleases and chemical probing approaches. The results of this analysis were consistent with the existence of two adjacent helices, helix I and the lower portion of helix II, whose function in secA activation and repression, respectively, has been demonstrated. Binding of SecA protein to geneX-secA RNA or various mutant derivatives of this RNA was studied by measurement of affinity constants, RNA footprint analysis, and quantitation of auto-repression in vivo. This analysis showed that the SecA-binding site in geneX-secA RNA was remarkably large spanning a region of 96 nucleotides including a 3' portion of helix II, the secA translation initiation region and distal sequences. From the size of the SecA-binding site and the plasticity of its response to mutational alteration, it is suggested that SecA protein contains two distinct RNA-binding sites. Finally, it was shown that SecA binding was not sufficient to promote auto-regulation and that sequences both upstream (helix I) and within the binding site can contribute to auto-regulation without affecting SecA-binding affinity.     

Effect of O2 in O2/Ar Gas Mixture on Morphological and Optical Properties of TiO2 Thin Films Deposited by DC Cylindrical Magnetron Sputtering

TiO₂ films have been deposited on BK7 substrates by DC cylindrical magnetron sputtering setup in ambient temperature. The samples were fabricated at various O₂/Ar reactive gas mixtures. The effects of changing O₂ amount in O₂/Ar reactive gas mixture on structural, morphological and optical properties of films were studied. The thickness of films was measured by surface profile meter. Thickness of films decreases with increasing the O₂ amount in gas mixture. XRD studies shows that the films are amorphous. Atomic Force Microscopy was used to evaluate and compare the surface roughness and morphologies. The optical properties (transmission and reflection) of the samples were measured by UV–Vis–NIR spectrophotometer. Results show that increasing the O₂ amount in O₂/Ar mixture changes the surface morphologies and optical properties of films. All films exhibit a transmittance higher than 65 % in the visible region. The band gap of films was calculated from the optical measurements. The band gap of TiO₂ thin films increases from 3.471 to 3.526 for different O₂/Ar amounts.     

Prediction of metabolic clusters in early-lactation dairy cows using models based on milk biomarkers

The aim of this study was to describe metabolism of early-lactation dairy cows by clustering cows based on glucose, insulin-like growth factor I (IGF-I), free fatty acid, and β-hydroxybutyrate (BHB) using the k-means method. Predictive models for metabolic clusters were created and validated using 3 sets of milk biomarkers (milk metabolites and enzymes, glycans on the immunogamma globulin fraction of milk, and Fourier-transform mid-infrared spectra of milk). Metabolic clusters are used to identify dairy cows with a balanced or imbalanced metabolic profile. Around 14 and 35 d in milk, serum or plasma concentrations of BHB, free fatty acids, glucose, and IGF-I were determined. Cows with a favorable metabolic profile were grouped together in what was referred to as the “balanced” group (n = 43) and were compared with cows in what was referred to as the “other balanced” group (n = 64). Cows with an unfavorable metabolic profile were grouped in what was referred to as the “imbalanced” group (n = 19) and compared with cows in what was referred to as the “other imbalanced” group (n = 88). Glucose and IGF-I were higher in balanced compared with other balanced cows. Free fatty acids and BHB were lower in balanced compared with other balanced cows. Glucose and IGF-I were lower in imbalanced compared with other imbalanced cows. Free fatty acids and BHB were higher in imbalanced cows. Metabolic clusters were related to production parameters. There was a trend for a higher daily increase in fat- and protein-corrected milk yield in balanced cows, whereas that of imbalanced cows was higher. Dry matter intake and the daily increase in dry matter intake were higher in balanced cows and lower in imbalanced cows. Energy balance was continuously higher in balanced cows and lower in imbalanced cows. Weekly or twice-weekly milk samples were taken and milk metabolites and enzymes (milk glucose, glucose-6-phosphate, BHB, lactate dehydrogenase, N-acetyl-β-d-glucosaminidase, isocitrate), immunogamma globulin glycans (19 peaks), and Fourier-transform mid-infrared spectra (1,060 wavelengths reduced to 15 principal components) were determined. Milk biomarkers with or without additional cow information (days in milk, parity, milk yield features) were used to create predictive models for the metabolic clusters. Accuracy for prediction of balanced (80%) and imbalanced (88%) cows was highest using milk metabolites and enzymes combined with days in milk and parity. The results and models of the present study are part of the GplusE project and identify novel milk-based phenotypes that may be used as predictors for metabolic and performance traits in early-lactation dairy cows.     

Catalytic oxidative desulfurization of dibenzothiophene utilizing molybdenum and vanadium oxides supported on MCM-41

As a series of bimetallic nanocatalysts, molybdenum/vanadium oxides supported on the silica (MoO₃/V₂O₅/MCM-41) were prepared by the impregnation. Their catalytic activity in the oxidation of dibenzothiophene was investigated using H₂O₂ as an oxidant. Textures and surface properties of the prepared catalysts were characterized using FT-IR, XRD, FESEM-EDX and N₂ adsorption/desorption techniques. The effects of main process variables including H₂O₂/DBT molar ratio, catalyst dosage, reaction temperature and reaction time were analyzed by employing the response surface methodology (RSM). The effect of the MoO₃/V₂O₅ loading on the catalytic performance of the catalysts was also investigated. The results indicated that the catalytic activity of the catalyst was increased by enhancing the MoO₃/V₂O₅ content. Thus, the catalyst with high MoO₃/V₂O₅ loading (20%MoO₃/20%V₂O₅/60%MCM-41) indicated the highest catalytic activity and could convert 99.06% of dibenzothiophene under the optimum conditions. Mass and FT-IR analysis demonstrated that the major product of dibenzothiophene oxidation was its corresponding sulfone. The catalyst could be recycled five times without any considerable reduction in its catalytic activity. The kinetics of the reaction fitted the pseudo-first-order equation pretty well. Eventually, a reaction mechanism for the catalytic oxidation of DBT in the presence of MoO₃/V₂O₅/MCM-41 was proposed.     

Fast unsupervised feature selection based on the improved binary ant system and mutation strategy

Neural Computing and Applications - The “curse of dimensionality” issue caused by high-dimensional datasets not only imposes high memory and computational costs but also deteriorates...     

Fracture investigation of U‐notch made of tungsten–copper functionally graded materials by means of strain energy density

The averaged strain energy density over a well‐defined control volume was employed to assess the fracture of U‐notched specimens made of tungsten–copper functionally graded materials under prevalent mode II loading. The boundary of control volume was evaluated by using a numerical method. Power law function was employed to describe the mechanical properties (elasticity modulus, Poisson's ratio, fracture toughness and ultimate tensile stress) through the specimen width. The effect of notch tip radius and notch depth on notch stress intensity factors and mode mixity parameter χ were assessed. In addition, a comparison based on fracture load between functionally graded and homogeneous W–Cu was made. Furthermore, in this research, it was shown that the mean value of the strain energy density over the control volume can be accurately determined using coarse meshes for functionally graded materials.     

Phenotypic conversion of drug-resistant bacteria to drug sensitivity

Plasmids that contain synthetic genes coding for small oligoribonucleotides called external guide sequences (EGSs) have been introduced into strains of Escherichia coli harboring antibiotic resistance genes. The EGSs direct RNase P to cleave the mRNAs transcribed from these genes thereby converting the phenotype of drug-resistant cells to drug sensitivity. Increasing the EGS-to-target mRNA ratio by changing gene copy number or the number of EGSs complementary to different target sites enhances the efficiency of the conversion process. We demonstrate a general method for the efficient phenotypic conversion of drug-resistant bacterial cultures.     

Synthesis and characterization of supported heteropolymolybdate nanoparticles between silicate layers of Bentonite with enhanced catalytic activity for epoxidation of alkenes

A new heterogeneous catalyst (PVMo/Bentonite) consisting of vanadium substituted heteropolymolybdate with Keggin-type structure Na₅[PV₂Mo₁₀O₄₀]·14H₂O (PVMo) supported between silicate layers of bentonite has been synthesized by impregnation method and characterized using X-ray diffraction, Fourier-transformed infrared spectroscopy, scanning electron microscopy, UV–vis diffuse reflectance spectroscopy, transmission electron microscopy and elemental analysis. X-ray diffraction and scanning electron microscopy analysis indicated that PVMo was finely dispersed into layers of bentonite as support. The PVMo/Bentonite used as an efficient heterogeneous catalyst for epoxidation of alkenes. Various cyclic and linear alkenes were oxidized into the corresponding epoxides in high yields and selectivity with 30% aqueous H₂O₂. The catalyst was reused several times, without observable loss of activity and selectivity. The obtained results showed that the catalytic activity of the PVMo/Bentonite was higher than that of pure heteropolyanion (PVMo).