Resonant Broadband Field Enhancement in Cylindrical Plasmonic Structure Surrounded by Perovskite Environment

We demonstrate the optical response of metal nanoparticles and their interaction with organic-inorganic perovskite (methyl ammonia lead halide (CH₃NH₃PbI₃)) environment using discrete dipole approximation (DDA) simulation technique. Important optical properties like absorption, scattering, and electric field calculations for metal nanoparticle using different geometry have been analyzed. The metal nanoparticles embedded in the perovskite media strongly support surface plasmon resonances (SPRs). The plasmonic interaction of metal nanoparticles with perovskite matrix is a strong function of MNP’s shape, size, and surrounding environment that can manipulate the optical properties considerably. The cylindrical shape of MNPs embedded in perovskite environment supports the SPR which is highly tunable to subwavelength range of 400–800 nm. Wide range of particle sizes has been selected for Ag, Au, and Al spherical and cylindrical nanostructures surrounded by perovskite matrix for simulation. The chosen hybrid material and anisotropy of structure together make a complex function for resonance shape and width. Among all MNPs, 70-nm spherical silver nanoparticle (NP) and cylindrical Ag NP having diameter of 50 nm and length of 70 nm (aspect ratio 1.4) generate strong electric field intensity that facilitates increased photon absorption. The plasmonic perovskite interaction plays an important role to improve the absorption of photon inside the thin film perovskite environment that may be applicable to photovoltaics and photonics.

     

Effects of temperatures and organic loading rates on biomethanation of acidic petrochemical wastewater using an anaerobic upflow fixed-film reactor

The effect of temperature and organic loading rate on the rate of methane production from acidic petrochemical wastewater without neutralization was investigated by continuously feeding an anaerobic upflow fixed-film reactor. The temperatures selected for the studies were 25, 37, 45 and 55 degrees C. Organic loading rate (OLR) for each temperature was varied from 3.6 to 21.7 kg COD m(-3) d(-1). Best performance with respect to COD and BOD reduction, total gas production and methane yield was obtained with the reactor operating at 37 degrees C. OLR could be increased to a maximum of 21.7 kg COD m(-3) d(-1) with 90-95% COD and BOD reduction and methane yield of 0.450 m3 kg(-1) COD d(-1) added. The reactor operating at 55 degrees C gave the highest methane yield of 0.666 m3 kg(-1) COD d(-1) at an OLR of 6 kg COD m(-3) d(-1). This decreased to 0.110 m3 kg(-1) COD d(-1) when the OLR was increased to 18.1 kg COD m(-3) d(-1). The reactor operating at 45 degrees C gave a maximum methane yield of 0.416 m3 kg(-1) COD d(-1) added at an OLR of 6 kg COD m(-3) d(-1). On further increasing the OLR to 9 kg COD m(-3) d(-1), COD reduction was 89%, however, methane yield decreased to 0.333 m3 kg(-1) COD d(-1) added. The highest methane yield of 0.333 m3 kg(-1) COD d(-1) added at an OLR of 6 kg COD m(-3) d(-1) was obtained with reactors operating at 25 degrees C. These studies indicate potential rates of methane production from acidic petrochemical wastewater under different temperatures. This provides a guideline for various kinetic analyses and economic evaluation of the potential feasibility of fermenting acidic wastewater to methane.     

Suppression of platelet-activating factor generation and modulation of arachidonate metabolism by dietary enrichment with (n-9) eicosatrienoic acid or docosahexaenoic acid in mouse peritoneal cells

Several studies have shown that dietary n-3 polyunsaturated fatty acids (PUFAs) suppress platelet-activating factor (PAF) generation in leukocytes of humans and rodents, which is associated with the antagonism of arachidonic acid metabolism. Dietary eicosatrienoic acid (20:3n-9, ETrA) is also suggested to antagonize arachidonic acid (AA) metabolism, but its effect on PAF generation in leukocytes has not been defined. In the present study, we investigated the effects of an ETrA-rich diet on PAF generation and AA metabolism in mouse peritoneal cells, which were compared with those of a docosahexaenoic acid (DHA)-rich diet. Mice were fed a diet supplemented with a lipid preparation rich in ETrA, a DHA-rich fish oil (FO) or palm oil (PO) for 3 weeks, and peritoneal cells containing more than 80% of monocytes/macrophages were obtained. The peritoneal cells in the DHA and ETrA diet groups generated upon zymosan stimulation a smaller amount of PAF than cells in the PO diet group. In the peritoneal cells of the DHA diet group, AA contents in phosphatidylcholine (PC) and phosphatidylethanolamine (PE) were significantly lower than those in cells of the PO diet group, but those in phosphatidylinositol (PI) were not significantly different between the two dietary groups. A considerable amount of ETrA was incorporated into the peritoneal cells of the ETrA diet group, and AA was reduced as compared with the PO diet group. These changes occurred preferentially in PI but to a less extent in PC and PE. The amount of free AA released by the peritoneal cells upon zymosan stimulation was significantly reduced in the DHA diet group as compared with that in the PO diet group, whereas AA release was similar between the PO and ETrA diet groups. In conclusion, the effects of dietary ETrA on AA content in the phospholipid subclasses and AA release were quite different from those of dietary DHA, although both diets suppressed PAF generation in mouse peritoneal cells to a similar extent.     

Atomic-level insights into metabolite recognition and specificity of the SAM-II riboswitch

Although S-adenosylhomocysteine (SAH), a metabolic by-product of S-adenosylmethionine (SAM), differs from SAM only by a single methyl group and an overall positive charge, SAH binds the SAM-II riboswitch with more than 1000-fold less affinity than SAM. Using atomistic molecular dynamics simulations, we investigated the molecular basis of such high selectivity in ligand recognition by SAM-II riboswitch. The biosynthesis of SAM exclusively generates the (S,S) stereoisomer, and (S,S)-SAM can spontaneously convert to the (R,S) form. We, therefore, also examined the effects of (R,S)-SAM binding to SAM-II and its potential biological function. We find that the unfavorable loss in entropy in SAM-II binding is greater for (S,S)- and (R,S)-SAM than SAH, which is compensated by stabilizing electrostatic interactions with the riboswitch. The positively charged sulfonium moiety on SAM acts as the crucial anchor point responsible for the formation of key ionic interactions as it fits favorably in the negatively charged binding pocket. In contrast, SAH, with its lone pair of electrons on the sulfur, experiences repulsion in the binding pocket of SAM-II and is enthalpically destabilized. In the presence of SAH, similar to the unbound riboswitch, the pseudoknot structure of SAM-II is not completely formed, thus exposing the Shine-Dalgarno sequence. Unlike SAM, this may further facilitate ribosomal assembly and translation initiation. Our analysis of the conformational ensemble sampled by SAM-II in the absence of ligands and when bound to SAM or SAH reveals that ligand binding follows a combination of conformational selection and induced-fit mechanisms.     

Characterization of KCNQ1 atrial fibrillation mutations reveals distinct dependence on KCNE1

The I(Ks) potassium channel, critical to control of heart electrical activity, requires assembly of α (KCNQ1) and β (KCNE1) subunits. Inherited mutations in either I(Ks) channel subunit are associated with cardiac arrhythmia syndromes. Two mutations (S140G and V141M) that cause familial atrial fibrillation (AF) are located on adjacent residues in the first membrane-spanning domain of KCNQ1, S1. These mutations impair the deactivation process, causing channels to appear constitutively open. Previous studies suggest that both mutant phenotypes require the presence of KCNE1. Here we found that despite the proximity of these two mutations in the primary protein structure, they display different functional dependence in the presence of KCNE1. In the absence of KCNE1, the S140G mutation, but not V141M, confers a pronounced slowing of channel deactivation and a hyperpolarizing shift in voltage-dependent activation. When coexpressed with KCNE1, both mutants deactivate significantly slower than wild-type KCNQ1/KCNE1 channels. The differential dependence on KCNE1 can be correlated with the physical proximity between these positions and KCNE1 as shown by disulfide cross-linking studies: V141C forms disulfide bonds with cysteine-substituted KCNE1 residues, whereas S140C does not. These results further our understanding of the structural relationship between KCNE1 and KCNQ1 subunits in the I(Ks) channel, and provide mechanisms for understanding the effects on channel deactivation underlying these two atrial fibrillation mutations.     

Isocytosine-based inhibitors of xanthine oxidase: Design,synthesis, SAR,PK and in vivo efficacy in rat model of hyperuricemia

Structure–activity relationship studies were carried out for lead generation following structure-guided design approach from an isocytosine scaffold identified earlier for xanthine oxidase inhibition. A 470-fold improvement in in vitro IC₅₀ was obtained in the process. Five most potent compounds with nanomolar IC₅₀ values were selected for pharmacokinetics and in vivo experiments. The best compound showed good in vivo activity when administered intraperitoneally but was not active by oral route. The results suggest that improvement in oral exposure could improve the in vivo efficacy of this series.     

Evidence of Glutamatergic Denervation and Possible Abnormal Metabolism in Alzheimer''s Disease

Excitatory dicarboxylic amino acids previously have been ascribed several functions in the brain. Here their total concentration and proposed neurochemical markers of neurotransmitter function have been measured in brain from patients with Alzheimer's disease (AD) and controls. Specimens were obtained antemortem (biopsy) approximately 3 years after emergence of symptoms and promptly (less than 3 h) postmortem some 10 years after onset. Early in the disease a slight elevation in aspartic acid concentration of cerebral cortex was observed in the patients with AD. A reduction in glutamic acid concentration of a similar magnitude was found. It is argued that this, together with a decrease in CSF glutamine content and lack of change in the phosphate-activated brain glutaminase activity of tissue, reflects an early metabolic abnormality. Later in the disease evidence of glutamatergic neurone loss is provided by the finding that in many regions of the cerebral cortex the Na+-dependent uptake of D-[3H]aspartic acid was almost always lowest in AD subjects compared with control when assessed by a method designed to minimise artifacts and epiphenomena. Release of endogenous neurotransmitters from human brain tissue postmortem did not appear to have the characteristics of that from human tissue antemortem and rat brain.     

Intuitive,but not simple: Including explicit water molecules in protein–protein docking simulations improves model quality

Characterizing the nature of interaction between proteins that have not been experimentally cocrystallized requires a computational docking approach that can successfully predict the spatial conformation adopted in the complex. In this work, the Hydropathic INTeractions (HINT) force field model was used for scoring docked models in a data set of 30 high‐resolution crystallographically characterized “dry” protein–protein complexes and was shown to reliably identify native‐like models. However, most current protein–protein docking algorithms fail to explicitly account for water molecules involved in bridging interactions that mediate and stabilize the association of the protein partners, so we used HINT to illuminate the physical and chemical properties of bridging waters and account for their energetic stabilizing contributions. The HINT water Relevance metric identified the “truly” bridging waters at the 30 protein–protein interfaces and we utilized them in “solvated” docking by manually inserting them into the input files for the rigid body ZDOCK program. By accounting for these interfacial waters, a statistically significant improvement of ～24% in the average hit‐count within the top‐10 predictions the protein–protein dataset was seen, compared to standard “dry” docking. The results also show scoring improvement, with medium and high accuracy models ranking much better than incorrect ones. These improvements can be attributed to the physical presence of water molecules that alter surface properties and better represent native shape and hydropathic complementarity between interacting partners, with concomitantly more accurate native‐like structure predictions. Proteins 2014; 82:916–932. © 2013 Wiley Periodicals, Inc.     

Mechanism of decreased insulinogenesis in manganese-deficient rats. Decreased insulin mRNA levels

Manganese-deficient rats exhibited seven-fold lower preproinsulin mRNA levels compared to control, as detected by dot blot hybridization of both total and poly(A)+ RNA using a preproinsulin cDNA probe. No differences in the size of the insulin mRNA were observed. Thus, decreased mRNA levels may be a major contributing factor to the decreased insulinogenesis observed in manganese-deficient rats.