EPR Detection of Possible Superparamagnetic Polyiron Nanoparticles and Free Radicals in the Blood Serum of Patients with Homozygous β-Thalassemia

In homozygous β-thalassemia blood transfusions and chelating therapy cannot prevent completely hemochromatosis. Labile ‘free’ iron forms in blood serum and evolves into insoluble inorganic deposits in tissues. Using X-band EPR at 163 K, we detected a new species of polynuclear iron in serum of some thalassemic patients. It showed a broad g < 2 line and an unusually high dynamic magnetic susceptibility due to ordered magnetism, which was detected by a decreased Q factor of the resonant cavity at B = 0. To explain the ordered magnetism and large line, we postulated either ferri- or ferromagnetic nanocrystals with non-zero residual magnetization, or superparamagnetic nanoparticles with antiferromagnetic ordering and incomplete spin compensation—or maybe both. While the results were not sufficient to check the first hypothesis, they are fully consistent with the second. The new species is similar to, but distinct from, ferritin’s mineral core, as it does not correlate with the ferritin concentration. The spectra suggest particles of ~1.7–4.1 nm diameter, plausibly containing ~40–300 Fe(III) ions coupled by oxygen bridges, but further confirmation is needed. The nanoparticles apparently formed a hydrophilic colloidal dispersion, being probably decorated with hydrophilic small organic molecules. They are postulated to form by heterogeneous nucleation around the ‘free’ iron, then aggregate in chains and eventually precipitate in the tissues. Stable free radicals detected in serum were tentatively identified as the hydroxyperoxyl and monodehydroascorbate radicals forming adducts with Cu(II)-ceruloplasmin, and the Hb–porphyrin–Fe(IV)=O oxoferryl radical probably stabilized on haptoglobin. They are consistent with oxy-radicals promoted both by ‘free’ iron and by polyiron nanoparticles. Potential medical applications like early assessment of patient’s evolution trend toward hemochromatosis and monitoring of the transfusional suppression of endogenous erythrocyte synthesis are suggested.     

The solute-solvent system: solvent constraints on the conformational dynamics of acetylcholine

The objective of this study was to determine if and how a solvent influences internal motions in a solute molecule. Acetylcholine was chosen as the object of study given its interesting molecular structure and major biological significance. Molecular dynamics simulations were carried out in the vacuum (10 ns), water (5 ns), methanol (5 ns), and octanol (1.5 ns). Seven clusters of conformers were identified, namely, +g+g, -g-g, +gt, -gt, t+g, t-g, and tt, where the gauche and trans labels refer to the dihedral angles tau(2) and tau(3), respectively. As expected, the relative proportion of these conformational clusters was highly solvent-dependent and corresponded to a progressive loss of conformational freedom with increasing molecular weight of the solvent. More importantly, the conformational clusters were used to calculate instantaneous and median angular velocity (omega and omega(M), respectively) and instantaneous and median angular acceleration (alpha and alpha(M), respectively). Angular velocity and angular acceleration were both found to decrease markedly with increasing molecular weight of the solvent, i.e., vacuum (epsilon = 1) > water > methanol > octanol. The decrease from the vacuum to octanol was approximately 40% for tau(2) and approximately 60% for tau(3). Such solvent-dependent constraints on a solute's internal motions may be biologically and pharmacologically relevant.     

Metastates in Finite-type Mean-field Models: Visibility,Invisibility, and Random Restoration of Symmetry

We consider a general class of disordered mean-field models where both the spin variables and disorder variables η take finitely many values. To investigate the size-dependence in the phase-transition regime we construct the metastate describing the probabilities to find a large system close to a particular convex combination of the pure infinite-volume states. We show that, under a non-degeneracy assumption, only pure states j are seen, with non-random probability weights w _j for which we derive explicit expressions in terms of interactions and distributions of the disorder variables. We provide a geometric construction distinguishing invisible states (having w _j =0) from visible ones. As a further consequence we show that, in the case where precisely two pure states are available, these must necessarily occur with the same weight, even if the model has no obvious symmetry relating the two.     

Combining Different Docking Engines and Consensus Strategies to Design and Validate Optimized Virtual Screening Protocols for the SARS-CoV-2 3CL Protease

The 3CL-Protease appears to be a very promising medicinal target to develop anti-SARS-CoV-2 agents. The availability of resolved structures allows structure-based computational approaches to be carried out even though the lack of known inhibitors prevents a proper validation of the performed simulations. The innovative idea of the study is to exploit known inhibitors of SARS-CoV 3CL-Pro as a training set to perform and validate multiple virtual screening campaigns. Docking simulations using four different programs (Fred, Glide, LiGen, and PLANTS) were performed investigating the role of both multiple binding modes (by binding space) and multiple isomers/states (by developing the corresponding isomeric space). The computed docking scores were used to develop consensus models, which allow an in-depth comparison of the resulting performances. On average, the reached performances revealed the different sensitivity to isomeric differences and multiple binding modes between the four docking engines. In detail, Glide and LiGen are the tools that best benefit from isomeric and binding space, respectively, while Fred is the most insensitive program. The obtained results emphasize the fruitful role of combining various docking tools to optimize the predictive performances. Taken together, the performed simulations allowed the rational development of highly performing virtual screening workflows, which could be further optimized by considering different 3CL-Pro structures and, more importantly, by including true SARS-CoV-2 3CL-Pro inhibitors (as learning set) when available.     

Antioxidant and Antisteatotic Activities of Fucoidan Fractions from Marine and Terrestrial Sources

Fucoidan is a fucose-rich sulfated polysaccharide typically found in the cell wall of marine algae but also recently isolated from terrestrial sources. Due to a variety of biological activities, including antioxidant properties, fucoidan exhibits an attractive therapeutic potential against a wide array of metabolic diseases associated with oxidative stress. We used FTIR, ¹H NMR and ¹³C NMR spectroscopy to investigate the structural features of a fucoidan fraction extracted from the brown alga Cystoseira compressa (CYS). The antioxidant potential of CYS was measured by DPPH, ABTS and FRAP assays, which revealed a radical scavenging capacity that was confirmed in in vitro cellular models of hepatic and endothelial cells. The same antioxidant effects were observed for another fucoidan fraction previously identified in the terrestrial tree Eucalyptus globulus (EUC). Moreover, in hepatic cells, CYS and EUC exhibited a significant antisteatotic action, being able to reduce intracellular triglyceride content through the regulation of key genes of hepatic lipid metabolism. EUC exerted stronger antioxidant and antisteatotic effects as compared to CYS, suggesting that both marine and terrestrial sources should be considered for fucoidan extraction and therapeutic applications.     

Chemoinformatics Analyses of Tau Ligands Reveal Key Molecular Requirements for the Identification of Potential Drug Candidates against Tauopathies

Tau is a highly soluble protein mainly localized at a cytoplasmic level in the neuronal cells, which plays a crucial role in the regulation of microtubule dynamic stability. Recent studies have demonstrated that several factors, such as hyperphosphorylation or alterations of Tau metabolism, may contribute to the pathological accumulation of protein aggregates, which can result in neuronal death and the onset of a number of neurological disorders called Tauopathies. At present, there are no available therapeutic remedies able to reduce Tau aggregation, nor are there any structural clues or guidelines for the rational identification of compounds preventing the accumulation of protein aggregates. To help identify the structural properties required for anti-Tau aggregation activity, we performed extensive chemoinformatics analyses on a dataset of Tau ligands reported in ChEMBL. The performed analyses allowed us to identify a set of molecular properties that are in common between known active ligands. Moreover, extensive analyses of the fragment composition of reported ligands led to the identification of chemical moieties and fragment combinations prevalent in the more active compounds. Interestingly, many of these fragments were arranged in recurring frameworks, some of which were clearly present in compounds currently under clinical investigation. This work represents the first in-depth chemoinformatics study of the molecular properties, constituting fragments and similarity profiles, of known Tau aggregation inhibitors. The datasets of compounds employed for the analyses, the identified molecular fragments and their combinations are made publicly available as supplementary material.     

Effect of Extraction Solvent and Temperature on Polyphenol Profiles,Antioxidant and Anti-Inflammatory Effects of Red Grape Skin By-Product

A fully-detailed LC-MS qualitative profiling of red grape skin, extracted with a mixture of ethanol and water (70:30 v:v) has permitted the identification of 65 compounds which can be classified into the following chemical classes: organic and phenolic acids (14 compounds), stilbenoids (1 compound), flavanols (21 compounds), flavonols (15 compounds) and anthocyanins (14 compounds). The extraction yield obtained with water at different temperatures (100 °C, 70 °C, room temperature) was then evaluated and the overall polyphenol content indicates that EtOH:H₂O solvent is the most efficient and selective for polyphenol extraction. However, by analyzing the recovery yield of each single polyphenol, we found that water extraction under heating conditions is effective (extraction yield similar or even better in respect to the binary solvent) for some polyphenolic classes, such as hydrophilic procyanidins, phenolic acids, flavonol glucosides and stilbenoids. However, according to their lipophilic character, a poor yield was found for the most lipophilic components, such as flavonol aglycones, and in general for anthocyanins. The radical scavenging activity was in accordance with the polyphenol content, and hence, much higher for the extract obtained with the binary solvent in respect to water extraction. All the tested extracts were found to have an anti-inflammatory activity in the R3/1 cell line with NF-kb reporter challenged with 0.01 µg/mL of IL-1α, in a 1 to 250 µg/mL concentration range. An intriguing result was that the EtOH:H₂O extract was found to be superimposable with that obtained using water at 100 °C despite the lower polyphenol content. Taken together, the results show the bioactive potentialities of grape skin extracts and the possibility to exploit this rich industrial waste. Water extraction carried out by heating is an easy, low-cost and environmentally friendly extraction method for some polyphenol classes and may have great potential for extracts with anti-inflammatory activities.     

Aerobic biotransformation of linear alkylbenzene sulphonates under laboratory conditions

Sulphophenyl carboxylates (SPC) derived from the biodegradation of commercial blends of linear alkylbenzene sulphonates (LAS), were recorded during OECD-301E screening tests under aerobic conditions. Both HPLC-FL and GC-MS were employed to determine biotransformation products. Two well defined groups of detectable SPC were generated: transient compounds, i.e. SPC which degrade very quickly, and compounds more persistent than the parent LAS which required an acclimatization period before their mineralization could take place. The biodegradation of a C10-C13 LAS commercial mixture and of two individual homologs (C11-LAS and C12-LAS) led to the identification of the most persistent SPC which were C6-SPC, C7-SPC and C8-SPC. The C6-SPC turned out to be the homolog which biodegrades most slowly, this suggests that odd LAS homologs are more easily biodegradable.     

Individual‐Molecule Perspective Analysis of Chemical Reaction Networks: The Case of a Light‐Driven Supramolecular Pump

The first study in which stochastic simulations of a two‐component molecular machine are performed in the mass‐action regime is presented. This system is an autonomous molecular pump consisting of a photoactive axle that creates a directed flow of rings through it by exploiting light energy away from equilibrium. The investigation demonstrates that the pump can operate in two regimes, both experimentally accessible, in which light‐driven steps can be rate‐determining or not. The number of photons exploited by an individual molecular pump, as well as the precision of cycling and the overall efficiency, critically rely on the operating regime of the machine. This approach provides useful information not only to guide the chemical design of a self‐assembling molecular device with desired features, but also to elucidate the effect of the environment on its performance, thus facilitating its experimental investigation.     

Layer by layer complex architectures based on ammonium polyphosphate,chitosan and silica on polyester-cotton blends: flammability and combustion behaviour

Hybrid organic–inorganic coatings containing ammonium polyphosphate (APP), chitosan and silica have been deposited on polyester-cotton blends (PET-CO), exploiting the layer by layer assembly. To this aim, two different complex architectures (namely, chitosan/APP bilayers plus silica/silica bilayers or silica/silica/chitosan/APP quadlayers) have been thoroughly investigated. The effect of their morphologies on the flame retardancy properties of the fabrics (flammability and combustion behaviour) has been assessed. More specifically, some of the above complex architectures exhibited significant enhancements concerning flammability (i.e. the suppression of afterglow, together with a considerable final residue increase) and combustion behaviour as evidenced by cone calorimeter tests. A close relationship between the overall flame retardancy properties of the blends and the level of dishomogeneity of the LbL architectures has been shown.