Molecular simulation of CH4 adsorption behavior in slit nanopores: Verification of simulation methods and models

The aim of this study is to select an appropriate method for CH₄ adsorption in organic nanopores for shale-gas development. Molecular dynamics (MD) and grand canonical Monte Carlo (GCMC) simulations were performed. Three comparison studies were included: (i) comparison of the adsorption behavior in kerogen nanopores using different schemes for dispersion correction, (ii) comparison of the adsorption behavior in graphite nanopores using MD and GCMC simulations, and (iii) comparison of the adsorption behavior in kerogen and graphite nanopores using MD simulations. The result was reliable when using a particle-mesh Ewald scheme or a cut-off ≥1.5 nm without dispersion correction. The simulation results were essentially identical for the MD and GCMC simulations. The free-gas CH₄ density inside the nanopores started to deviate from the bulk density at ~2 nm for the graphite model and at ~7–10 nm for the kerogen model, whereas the total CH₄ density deviates from the bulk density at ~20 nm.     

Physical and mechanical properties of municipal solid waste incineration residues with cement and coal fly ash using X-ray Computed Tomography scanners

A significant volume of Municipal Solid Waste incineration bottom ash and fly ash (i.e., incineration residues) are commonly disposed as landfill. Meanwhile, reclamation of landfill sites to create a new land space after their closure becomes an important goal in the current fewer and fewer land availability scenario in many narrow countries. The objective of this study is to reclaim incineration residue materials in the landfill site by using cement and coal fly ash as stabilizers aiming at performing quality check as new developed materials before future construction. Indeed, physical and mechanical properties of these new materials should be initially examined at the micro scale, which is the primary fundamental for construction at larger scale. This research examines quantitative influences of using the combination of cement and coal fly ash at different ratio on the internal structure and ability of strength enhancement of incineration residues when suffering from loading. Couple of industrial and micro-focus X-ray computed tomography (CT) scanners combined with an image analysis technique were utilized to characterize and visualize the behavior and internal structure of the incineration residues-cement-coal fly ash mixture under the series of unconfined compression test and curing period effect. Nine types of cement solidified incineration residues in term of different curing period (i.e., 7, 14, 28 days) and coal fly ash addition content (i.e., 0%, 9%, 18%) were scanned before and after unconfined compression tests. It was shown that incineration residues solidified by cement and coal fly ash showed an increase in compression strength and deformation modulus with curing time and coal fly ash content. Three-dimension computed tomography images observation and analysis confirmed that solidified incineration residues including incineration bottom and fly ash as well as cement and coal fly ash have the deliquescent materials. Then, it was studied that stabilized parts play a more important role than spatial void distribution in increment or reduction of compression strength.     

Inhibition of RuBisCO cloned from Thermosynechococcus vulcanus and expressed in Escherichia coli with compounds predicted by Molecular Operation Environment (MOE)

Ribulose 1,5-bisphosphate carboxylase/oxygenase (RuBisCO) of a thermophilic cyanobacterium, Thermosynechococcus vulcanus, was cloned and expressed in Escherichia coli. The purified enzyme had higher thermostability than RuBisCOs isolated from mesophilic cyanobacteria. Prediction of the tertiary structure was performed using the software Molecular Operating Environment (MOE). The predicted structure did not give any clue about the basis of thermostability. Then, the molecular docking of substrates and inhibitors in the catalytic site were carried out to test analogs for consistency of ribulose 1,5-bisphosphate, a RuBisCO substrate. The analogs were searched in the Kyoto Encyclopedia of Genes and Genomes (KEGG), and 99 compounds were selected for the docking. The mol files from LIGAND Database in KEGG were changed to a three dimensional (3D) structure for use in docking simulation. The docking simulation was performed on ASEDock of MOE, and the SiteFinder command suggested about 20 candidates for the docking site of the compounds. Based on the homology of these candidate sites with the xylulose 1,5-bisphosphate (XBP)-binding site of RuBisCO isolated from Synechococcus PCC 6301, one site was selected for the docking simulation. The 40 compounds with the highest docking energies included synthetic organic substances that had never been demonstrated to be inhibitors of RuBisCO. The total docking energies were -102 kcal/mol, -104 kcal/mol, -94.0 kcal/mol, and -57.7 kcal/mol for ribulose 1,5-bisphosphate (RuBP), etidronate, risedronate, and citrate respectively. Kinetic analysis of RuBisCO revealed a K(m) value of 315 microM for RuBP, and K(i) values of 1.70, 0.93, and 2.04 mM for etidronate, risedronate, and citrate respectively. From these values, the binding energies were estimated to be -4.85, -3.84, -4.20, and -3.73 kcal/mol for RuBP, etidronate, risedronate, and citrate respectively. The differences between the values estimated from experimental data and by simulation may mainly depend on the dissimilarity of the environment for the protein and ligands between the experiments and the simulation. The results obtained here suggested a few new inhibitors, which might be useful as tools for studying the relationship between the structure and the function of RuBisCO.     

Molecular imprinting under molecular crowding conditions: an aid to the synthesis of a high-capacity polymeric sorbent for triazine herbicides

Molecular crowding, an important feature of the molecular environments in biological cells, was applied to the synthesis of antibody-mimic polymers selective for a group of biologically active compounds, the triazine herbicides. Synthesis of these polymers was conducted using molecular imprinting under molecular crowding conditions, whereby atrazine (a template molecule) was complexed with methacrylic acid (a functional monomer) in the presence of a macromolecular crowding agent (either poly(methyl methacrylate) (PMMA) or polystyrene (PS)) followed by cross-linking with ethylene glycol dimethacrylate. After removal of atrazine from the polymer matrix, the retention properties and selectivity of the resultant polymers were assessed by chromatographic tests. The addition of a crowding-inducing agent resulted in polymers with superior retention properties and excellent selectivity for triazine herbicides, as compared to polymers prepared without addition of a crowding-inducing agent. An imprinted polymer prepared in the presence of PS as a crowding agent exhibited a retention factor for atrazine an order of magnitude larger than that of an imprinted polymer prepared in the absence of a crowding agent. NMR results suggest that the crowding agent is capable of promoting hydrogen bond formation between atrazine and methacrylic acid, which could account for the effect of crowding on molecular imprinting.     

Evaluation of the Correlation between Porphyrin Accumulation in Cancer Cells and Functional Porphyrin Positions of the Phenyl Group

Porphyrin selectively shows tumour accumulation and has attracted attention as a carrier molecule for drug delivery systems (DDS). Porphyrin has two functional sites termed the meso- and β-positions. In previous work, meso-porphyrin derivatives with an alkyl group were found to exhibit greater accumulation in human breast cancer cells (MCF-7). To identify the correlation between porphyrin accumulation and functional porphyrin positions of other functional groups, the accumulation of porphyrin derivatives with a phenyl group was investigated. The β-porphyrin derivative with a phenyl group showed higher accumulation in MCF-7 cells and greater affinity for albumin than the meso-porphyrin derivative. The results of density functional theory (DFT) calculations suggest that the β-porphyrin derivative with a phenyl group had higher planarity across the total structure than the meso-porphyrin derivative. It was concluded that the greater planarity of the β-porphyrin derivative with a phenyl group might lead to superior MCF-7 cell accumulation.     

Resistance of sodium polyphosphate-modified fly ash/calcium aluminate blend cements to hot H2SO4 solution

Sodium polyphosphate-modified Class F fly ash/calcium aluminate blend (SFCB) cements were prepared at room temperature and their resistance to hot acid erosion was evaluated by submerging them in H₂SO₄ solution (pH 1.6) at 90°C. Sodium polyphosphate preferentially reacted with calcium aluminate cement (CAC) to form amorphous Ca(HPO₄).xH₂O and Al₂O₃.xH₂O gel, rather than fly ash. These amorphous reaction products, which bound the partially reacted and unreacted CAC and fly ash particles into a coherent mass, were responsible for strengthening and densifying the SFCB specimens at room temperature, playing an essential role in mitigating their acid erosion. In these cements, the extent of acid erosion depended primarily on the ratio of fly ash/CAC; namely, those with a higher ratio underwent a severe erosion. This effect was due to the formation of a porous structure, which allowed acid to permeate the cement easily, diminishing the protective activity of Ca(HPO₄).xH₂O and Al₂O₃.xH₂O gel against H₂SO₄.     

Distribution of Zinc,Copper, and Iron in the Tailings Dam of an Abandoned Mine in Shimokawa,Hokkaido, Japan

Mine Water and the Environment - This paper addresses the mechanism of acid mine drainage generation in tailings from an abandoned mine site and predicts the evolution of zinc (Zn), copper (Cu),...     

Serum sulfatide abnormality is associated with increased oxidative stress in hemodialysis patients

Sulfatides are major glycosphingolipids of lipoproteins that influence atherosclerosis and blood coagulation. Our previous cross‐sectional study of hemodialysis patients showed that serum sulfatide levels decreased markedly with increasing duration of hemodialysis treatment, which may contribute to the development of cardiovascular disease. However, this past study could not demonstrate the time‐dependent change in serum sulfatide levels in each patient, and the underlying mechanism is unknown. To confirm the time‐dependent aggravation of serum sulfatide abnormality, 95 stable hemodialysis outpatients were followed up for 3 years. To show the underlying mechanisms, we statistically analyzed correlations between serum sulfatide levels and clinical factors, including an oxidative stress marker, malondialdehyde. Serum sulfatides were quantified by mass spectrometry after conversion to lysosulfatides. Malondialdehyde was measured using a colorimetric assay. The results showed a time‐dependent decrease in serum sulfatide levels associated with increased malondialdehyde levels, although the absolute level of serum malondialdehyde does not determine the baseline level of serum sulfatides. Multiple linear regression analysis showed a significant correlation only between the time‐dependent change in serum sulfatide levels and the time‐dependent change in serum malondialdehyde levels. This study demonstrated, for the first time, a time‐dependent aggravation of serum sulfatide abnormality in hemodialysis patients, as well as the potential relationship between serum sulfatide abnormality and increasing oxidative stress. These findings suggest that oxidative stress might be an aggravating factor in serum sulfatide abnormality. As continuation of hemodialysis treatment hardly improves abnormal serum sulfatide levels or increased oxidative stress, development of novel therapeutic strategies may be important.