Expanding Lipidome Coverage Using LC-MS/MS Data-Dependent Acquisition with Automated Exclusion List Generation

Untargeted omics analyses aim to comprehensively characterize biomolecules within a biological system. Changes in the presence or quantity of these biomolecules can indicate important biological perturbations, such as those caused by disease. With current technological advancements, the entire genome can now be sequenced; however, in the burgeoning fields of lipidomics, only a subset of lipids can be identified. The recent emergence of high resolution tandem mass spectrometry (HR-MS/MS), in combination with ultra-high performance liquid chromatography, has resulted in an increased coverage of the lipidome. Nevertheless, identifications from MS/MS are generally limited by the number of precursors that can be selected for fragmentation during chromatographic elution. Therefore, we developed the software IE-Omics to automate iterative exclusion (IE), where selected precursors using data-dependent topN analyses are excluded in sequential injections. In each sequential injection, unique precursors are fragmented until HR-MS/MS spectra of all ions above a user-defined intensity threshold are acquired. IE-Omics was applied to lipidomic analyses in Red Cross plasma and substantia nigra tissue. Coverage of the lipidome was drastically improved using IE. When applying IE-Omics to Red Cross plasma and substantia nigra lipid extracts in positive ion mode, 69% and 40% more molecular identifications were obtained, respectively. In addition, applying IE-Omics to a lipidomics workflow increased the coverage of trace species, including odd-chained and short-chained diacylglycerides and oxidized lipid species. By increasing the coverage of the lipidome, applying IE to a lipidomics workflow increases the probability of finding biomarkers and provides additional information for determining etiology of disease.

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The effect of diffusion on nanoaerosol filtration through porous materials with allowance for desorption processes

The effects of the finite residence time of aerosol particles in the bound state and their detachment due to thermal fluctuations on the filtration efficiency of porous and fibrous materials have been investigated with allowance for longitudinal diffusion in a flow. It has been shown that the desorption of particles affects the filtration efficiency even at times shorter than residence time τ_d of the particles in the bound state, while, at t ? τ_d, filtration stops. Allowance for the diffusion of aerosol particles in the flow leads to a decrease in the filtration efficiency as compared with the calculations performed without taking into account the longitudinal diffusion.     

Sulphur content estimation of Venezuelan heavy oil by fast neutron and gamma transmission technique

A compact and modern equipment for implementing the fast neutron and γ-ray transmission technique (FNGT) has been developed in order to estimate the sulphur content of crude oil. FNGT is employed for non- destructive analysis of different kinds of samples. The compact system presented in this work represents an improvement of our previous experimental set-up [1, 2]. It makes use of a ²⁵²Cf source, an EJ-301 liquid scintillator detector (2″ × 2″) with excellent n/γ discrimination capabilities, and modern nuclear electronics based on fast digitizers. The fast neutron and gamma transmission technique was employed to study a system for on-line sulphur concentration measurement in Venezuelan heavy sour oil. The range of sulphur concentrations investigated is between 0.1 and 6.5 wt%. The equipment performances and limitations are compared with those predicted by a Monte Carlo model built in GEANT4 v10.01. The results show the possibility to implement a compact unit for on-line determination of sulphur concentration in crude oil.

     

Chromatographic separation of americium from europium using bis-2,6-(5,6,7,8-tetrahydro-5,9,9-trimethyl-5,8-methano-1,2,4-benzotriazin-3-yl) pyridine

The separation of americium(III) from europium(III) was achieved utilizing a bis-2,6-(5,6,7,8-tetrahydro-5,9,9-trimethyl-5,8-methano-1,2,4-benzotriazin-3-yl) pyridine (CA-BTP) chromatographic resin. The extraction chromatographic materials were prepared using various concentrations of CA-BTP. This new, hydrolytically stable extractant was impregnated on an inert polymeric support at 40% loading. The uptake of Am(III) and Eu(III) by this material from 0.1 to 4.0 M aqueous HNO₃ solutions was measured. The resulting dry weight distribution ratios, D _w , indicated a strong preference for Am(III) with little affinity for Eu(III). These results are similar to recently reported solvent extraction studies indicating a maximum uptake of Am(III) in the 0.5–1.0 M HNO₃ range. The resin preparation, performance, and characterization of the Am/Eu separation are reported herein.

     

On the geometric–arithmetic index by decompositions-CMMSE

The concept of geometric–arithmetic index was introduced in the chemical graph theory recently, but it has shown to be useful. There are many papers studying different kinds of indices (as Wiener, hyper–Wiener, detour, hyper–detour, Szeged, edge–Szeged, PI, vertex–PI and eccentric connectivity indices) under particular cases of decompositions. The main aim of this paper is to show that the computation of the geometric-arithmetic index of a graph G is essentially reduced to the computation of the geometric-arithmetic indices of the so-called primary subgraphs obtained by a general decomposition of G. Furthermore, using these results, we obtain formulas for the geometric-arithmetic indices of bridge graphs and other classes of graphs, like bouquet of graphs and circle graphs. These results are applied to the computation of the geometric-arithmetic index of Spiro chain of hexagons, polyphenylenes and polyethene.     

Polycatenar liquid crystals based on bent-shaped chalcone and cyanopyridine molecules

In this study, the synthesis, structural characterisation and mesomorphic and optical properties of seven new bent-shaped and polycatenar bent-shaped compounds derived from chalcone and cyanopyridine are reported. The mesomorphic behaviour was investigated by differential scanning calorimetry (DSC), polarised optical microscopy (POM) and X-ray diffraction (XRD) and correlated with the molecular structure. Two bent-core hexacatenars molecules (Ic and IIc) presented liquid crystalline properties, showing a hexagonal columnar (Col_h) phases at room temperature, being each disc constituted by two mesogens. Optical studies were also performed for the final molecules, being conducted by ultraviolet-visible and fluorescence spectrometry. The cyanopyridine derivatives show moderate luminescence quantum yields, ranging between 18% and 27%, with emission maxima around 371 nm. It is also shown that while the chalcone central unit favours a calamitic liquid crystalline behaviour in molecules with lower number of aliphatic chains, a polycatenar structure with cyanopyridine as the central unit favours a Col_h arrangement, also providing luminescence properties to the molecule.     

Investigation of Cold Atmospheric Plasma-Activated Water for the Dental Unit Waterline System Contamination and Safety Evaluation in Vitro

The disinfection of the inner surface of a medical device has long been a challenge for the central sterile supply departments. Dental unit waterline system (DUWLs) foster the attachment of microorganisms and development of biofilm, which lead to continuous contamination of the outlet water from dental units; this contamination may be responsible for a potential risk of infection due to the exposure of patients and medical staff. The present study investigated the disinfection effects of cold atmospheric plasma-activated water (CAPAW) on DUWLs using a model of 5-day-old Enterococcus faecalis biofilm. The results showed that the colony-forming unit was reduced from 10⁷ to 0 after 5 min of treatment. The physicochemical properties of CAPAW were evaluated, including the pH value, oxidation reduction potential, and NO radical. The results showed that the inactivation mechanisms were mainly triggered by the reactive oxygen/nitrogen species. Additionally, CAPAW had a metal corrosion rate same as that of deionized water. We conclude that CAPAW can be applied as an appropriate alternative disinfectant against biofilm contamination of DUWLs.     

High-Performance Biogas Upgrading Using a Biotrickling Filter and Hydrogenotrophic Methanogens

This research reports the development of a biotrickling filter (BTF) to upgrade biogas, which is achieved by adding H₂ to reduce CO₂. H₂ and CO₂ (80:20% vol.) were fed to a bench-scale BTF packed with polyurethane foam (PUF) and inoculated with hydrogenotrophic methanogens. Maximum CH₄ production rates recorded were as high as 38 m³ _CH4 m^?3 _reactor day^?1, which is 5–30 times faster than earlier reports with other kinds of bioreactors. The high rates were attributed to the efficient mass transfer and high density of methanogens in the BTF. The removal efficiencies for H₂ and CO₂ were 83 and 96%, respectively. 5-Cyano-2,3-ditolyl tetrazolium chloride/DAPI staining revealed that 67% of cells were alive near the gas entrance port, while only 8.3% were alive at the exit. Furthermore, DNA sequencing showed that only 27% of the biomass was composed of Euryarchaeota, the phylum which includes methanogens. These two observations suggest that optimizing the methanogen density and activity could possibly reach even higher biogas upgrading rates.     

Antimicrobial activity of newly synthesized thienoquinolizidines derivatives: inspired by natural plant alkaloids

The antimicrobial activity of 16 newly prepared quinolizidines derivatives using bacteria (Staphylococcus aureus, Staphylococcus epidermidis, Proteus sp., Escherichia coli) acid fast bacterium Mycobacterium smegmatis, yeasts (Candida albicans, Candida parapsilosis), and filamentous fungi (Fusarium culmorum, Microsporum gypseum, Aspergillus flavus, Botrytis cinerea, Alternaria alternata) was studied in this paper. The best antibacterial properties were demonstrated by derivatives 11Ba, trans10Bb and 11Bb, and the most sensitive microorganism was found to be the gram-positive bacterium S. epidermidis. The derivative 11Bb showed the best antifungal activity, while C. albicans was resistant to all tested derivatives, and C. parapsilosis was fully inhibited in the presence of the derivative 11Ba and 11Bb. Among the filamentous fungi, only the dermatophyte M. gypseum was partially inhibited. Biofilms represent the most prevalent type of microbial growth in nature and are crucial to the development of clinical infections. Newly synthesized derivatives were also added into the medium throughout the biofilm formation. We have observed a significant decrease of biofilm formation in the presence of quinolizidine derivatives, testifying to their significant antimicrobial activity. It seems that the relationship between antimicrobial activity and the structure is based on the alkaline character due to nitrogen, the saturated basic quinolizidine skeleton, and the position of sulfur in the molecule.