ML241 Antagonizes ERK 1/2 Activation and Inhibits Rotavirus Proliferation.

Rotavirus (RV) is the main pathogen that causes severe diarrhea in infants and children under 5 years of age. No specific antiviral therapies or licensed anti-rotavirus drugs are available. It is crucial to develop effective and low-toxicity anti-rotavirus small-molecule drugs that act on novel host targets. In this study, a new anti-rotavirus compound was selected by ELISA, and cell activity was detected from 453 small-molecule compounds. The anti-RV effects and underlying mechanisms of the screened compounds were explored. In vitro experimental results showed that the small-molecule compound ML241 has a good effect on inhibiting rotavirus proliferation and has low cytotoxicity during the virus adsorption, cell entry, and replication stages. In addition to its in vitro effects, ML241 also exerted anti-RV effects in a suckling mouse model. Transcriptome sequencing was performed after adding ML241 to cells infected with RV. The results showed that ML241 inhibited the phosphorylation of ERK1/2 in the MAPK signaling pathway, thereby inhibiting IκBα, activating the NF-κB signaling pathway, and playing an anti-RV role. These results provide an experimental basis for specific anti-RV small-molecule compounds or compound combinations, which is beneficial for the development of anti-RV drugs.

Safety, Immunogenicity, and Mechanism of a Rotavirus mRNA-LNP Vaccine in Mice.

Rotaviruses (RVs) are a major cause of diarrhea in young children worldwide. The currently available and licensed vaccines contain live attenuated RVs. Optimization of live attenuated RV vaccines or developing non-replicating RV (e.g., mRNA) vaccines is crucial for reducing the morbidity and mortality from RV infections. Herein, a nucleoside-modified mRNA vaccine encapsulated in lipid nanoparticles (LNP) and encoding the VP7 protein from the G1 type of RV was developed. The 5' untranslated region of an isolated human RV was utilized for the mRNA vaccine. After undergoing quality inspection, the VP7-mRNA vaccine was injected by subcutaneous or intramuscular routes into mice. Mice received three injections in 21 d intervals. IgG antibodies, neutralizing antibodies, cellular immunity, and gene expression from peripheral blood mononuclear cells were evaluated. Significant differences in levels of IgG antibodies were not observed in groups with adjuvant but were observed in groups without adjuvant. The vaccine without adjuvant induced the highest antibody titers after intramuscular injection. The vaccine elicited a potent antiviral immune response characterized by antiviral clusters of differentiation CD8+ T cells. VP7-mRNA induced interferon-γ secretion to mediate cellular immune responses. Chemokine-mediated signaling pathways and immune response were activated by VP7-mRNA vaccine injection. The mRNA LNP vaccine will require testing for protective efficacy, and it is an option for preventing rotavirus infection.

Molecular dynamics simulations of aggregation and viscosity properties of model asphaltene molecules containing a polycyclic hydrocarbon nucleus with toluene additive under shear interactions.

Reducing the viscosity of heavy oil is beneficial to the process of oil recovery, so it is of great significance to explore the influence of different factors on the viscosity of heavy oil. In this study, molecular dynamics (MD) simulations were carried out to study the viscosity properties of 15 structurally homologous model polycyclic molecules under shear conditions and with a toluene additive with different concentrations. Over 50 sets of simulation systems were constructed and simulated in this work. The molecular structure effect including the phenyl ring arrangements, alkyl side chain decorations, and heteroatoms, as well as the solvent effect such as the concentration of the toluene additive was comprehensively studied. It was found that under the shear conditions, the more branched the benzene ring in the polycyclic hydrocarbon nucleus, the greater the molecular steric hindrance generated, resulting in higher viscosity compared to O-shaped polycyclic hydrocarbon nucleus molecules. The introduction of alkyl side chains and heteroatoms leads to increased intermolecular interactions and more face-to-face stacking configurations, resulting in an increase in viscosity. However, in comparison, the heteroatoms effect is more pronounced in intermolecular interactions and increases in viscosity. Molecular trajectory analysis further indicates the molecular aggregates undergo continuous fracture and recombination under shear interaction, which is related to the trend of changes in viscosity properties. The current research provides new atomic-level insights into the molecular motion of heavy oil components under shear interaction in the presence of a toluene additive.

aRDG Analysis of Asphaltene Molecular Viscosity and Molecular Interaction Based on Non-Equilibrium Molecular Dynamics Simulation.

Understanding the noncovalent (weak) interactions between asphaltene molecules is crucial to further comprehending the viscosity and aggregation behavior of asphaltenes. In the past, intermolecular interactions were characterized indirectly by calculating the radial distribution function and the numerical distribution of distances/angles between atoms, which are far less intuitive than the average reduced density gradient (aRDG) method. This study selected three representative asphaltene molecules (AsphalteneO, AsphalteneT, and AsphalteneY) to investigate the relationship between viscosity and weak intermolecular interactions. Firstly, a non-equilibrium molecular dynamics (NEMD) simulation was employed to calculate the shear viscosities of these molecules and analyze their aggregation behaviors. In addition, the types of weak intermolecular interactions of asphaltene were visualized by the aRDG method. Finally, the stability of the weak intermolecular interactions was analyzed by the thermal fluctuation index (TFI). The results indicate that AsphalteneY has the highest viscosity. The aggregation behavior of AsphalteneO is mainly face-face stacking, while AsphalteneT and AsphalteneY associate mainly via offset stacking and T-shaped stacking. According to the aRDG analysis, the weak interactions between AshalteneT molecules are similar to those between AshalteneO molecules, mainly due to van der Waals interactions and steric hindrance effects. At the same time, there is a strong attraction between AsphalteneY molecules. Additionally, the results of the TFI analysis show that the weak intermolecular interactions of the three types of asphaltene molecules are relatively stable and not significantly affected by thermal motion. Our results provide a new method for better understanding asphaltene molecules' viscosity and aggregation behavior.

Nanomechanical-atomistic insights on interface interactions in asphalt mixtures with various chloride ion erosion statuses.

Coastal asphalt pavements are highly susceptible to sea salt erosion, which leads to a significant decrease in road performance and durability. However, the interface micro-adhesion mechanism of the asphalt-aggregate composites under chloride ion erosion is still not fully understood. Herein, using the silica microsphere Atomic Force Microscopy (AFM) modified tip and asphalt sample with chloride ions as a surface, we report the effect mechanism of chloride ion erosion on the interface adhesion behavior of asphalt-silica composites by AFM from the atomistic scale. The chloride ion erosion mechanism was further supported by molecular dynamics (MD) simulations. Due to the erosion effect of chloride ions, the structure evolution of the asphalt film surface will occur, and the weak adhesion gradient zone will be formed on the surface of the asphalt film. The concentration effect of chloride ions accelerates the formation of adhesion gradient zones, which are unstable and evolve over erosion time. Due to the presence of these adhesion gradient zones, water molecules will more easily penetrate the asphalt membrane and enter the asphalt-silica interface through adsorption and diffusion, thereby weakening the interface adhesion ability between the asphalt and the aggregate. Furthermore, the distribution and diffusion of asphalt fractions on the aggregate surface also affect the adhesion behavior evolution of asphalt-silica composites induced by chloride ion erosion. The evolution in the spatial distribution of fractions may be related to the formation of interfacial adhesion gradient zones. This study outcome has important theoretical significance for promoting the sustainability of asphalt pavements and for guiding pavement deicing.

Structural evolution of Si-based anode materials during the lithiation reaction.

Si-based materials have been intensively investigated as anode materials for Li-ion batteries. However, the structural evolution of the materials during the lithiation reaction is still unrevealed. In this paper, the structural parameters and mechanical properties of Si, SiOx(0 < x < 2) and SiO2during the lithiation reaction are studied by first-principle calculation based on density functional theory. The relationship between the Li number and expansion coefficient, elastic constant, modulus, and Poisson's ratio is systematically calculated.

Effect of strain engineering on superlubricity in a double-walled carbon nanotube.

Double-walled carbon nanotubes (DWCNTs) have received a great deal of attention due to their great potential in the field of superlubricity. However, this superlubricity is susceptible to failure in practical applications due to the introduction of various defects. Here, a novel method based on strain engineering is employed for achieving superlubricity in the DWCNT using molecular dynamics simulations. The DWCNT exhibits a superlow friction force when an inner tube slides against a stretched outer tube even with a low content of defects. However, strain engineering shows its limitation on superlubricity in the case of a large magnitude of strain or a high content of point defects. The mechanism of superlubricity in the DWCNT could be explained by the analysis of the energy barrier.

Revealing compatibility mechanism of nanosilica in asphalt through molecular dynamics simulation.

The compatibility between asphalt and nanosilica (nano-SiO2) is critical to determine the performance of nano-SiO2-modified asphalt. However, a comprehensive understanding of the compatibility behavior and mechanism of asphalt components and nano-SiO2 in the modified asphalt is still limited. In this study, the compatibility was revealed through molecular dynamics (MD) simulation. Virgin asphalt, nano-SiO2-modified asphalt, and oxidation aged asphalt models produced with the COMPASS force field; meanwhile, the proposed models were validated by comparisons with reference data. The compatibility of asphalt and nano-SiO2 was analyzed by solubility and the Flory-Huggins parameters and interaction energy. Results show that the solubility parameters decreased with the increase of system temperature while increased with the asphalt's oxidation level increase. Meanwhile, the compatibility of the asphaltene, resin, and aromatic components in asphalt is better than the compatibility with saturates, which may be due to saturates being volatile; however, the compatibility of the nano-SiO2 and saturates is much better than those with asphaltene, resin, and aromatic components. The incorporation of nano-SiO2 alleviates the volatilization of saturates. The present results provide insights into the understanding of the compatibility behavior and mechanism of nano-SiO2 and asphalt components.

Molecular Dynamics Simulation of Surfactant Flooding Driven Oil-Detachment in Nano-Silica Channels.

Recovery of crude oil in rock nanopores plays an important role in the petroleum industry. In this work, we carried out molecular dynamics (MD) simulations to study the process of ionic surfactant solution driven oil-detachment in model silica (SiO2) nanochannels. Our MD simulation results revealed that the oil-detachment induced by the ionic surfactant flooding can be described by a three-stage process including the formation and delivery of surfactant micelles, the surfactant micelle disintegration-spread and migration on the oil-aggregate surface, and oil molecular aggregate deformation-to-detachment. A flooding from rear (FFR) phenomenon is revealed that the surfactant molecules tend to migrate to the rear bottom of the oil molecular aggregate caused by the water flow effect and hydration of polar head groups of surfactants, which facilitate the penetration of water molecules into the oil-rock interface, and the oil molecule detachment occurs at the rear bottom of the oil molecular aggregate. The present MD simulation results also indicate that the dodecyl benzenesulfonate (SDBS) has higher oil-driven efficiency than that of dodecyl trimethylammonium bromide (DTAB). The difference of oil displacement efficiency between the two surfactants is attributed to the hydration property of the polar head groups. Compared with the -N(CH3)3+ headgroup in DTAB, the bare O atom in the -SO3- group has a stronger H bond interaction with the surrounding water molecules. The stronger interaction between the headgroup of SDBS and the adjacent water molecule results in the surfactant migrating to the rear bottom of the oil molecules more quickly, thus accelerating the detachment of oil molecules.

Molecular Dynamics Simulations of the Oil-Detachment from the Hydroxylated Silica Surface: Effects of Surfactants, Electrostatic Interactions, and Water Flows on the Water Molecular Channel Formation.

The detachment process of an oil molecular layer situated above a horizontal substrate was often described by a three-stage process. In this mechanism, the penetration and diffusion of water molecules between the oil phase and the substrate was proposed to be a crucial step to aid in removal of oil layer/drops from substrate. In this work, the detachment process of a two-dimensional alkane molecule layer from a silica surface in aqueous surfactant solutions is studied by means of molecular dynamics (MD) simulations. By tuning the polarity of model silica surfaces, as well as considering the different types of surfactant molecules and the water flow effects, more details about the formation of water molecular channel and the expansion processes are elucidated. It is found that for both ionic and nonionic type surfactant solutions, the perturbation of surfactant molecules on the two-dimensional oil molecule layer facilitates the injection and diffusion of water molecules between the oil layer and silica substrate. However, the water channel formation and expansion speed is strongly affected by the substrate polarity and properties of surfactant molecules. First, only for the silica surface with relative stronger polarity, the formation of water molecular channel is observed. Second, the expansion speed of the water molecular channel upon the ionic surfactant (dodecyl trimethylammonium bromide, DTAB and sodium dodecyl benzenesulfonate, SDBS) flooding is more rapidly than the nonionic surfactant system (octylphenol polyoxyethylene(10) ether, OP-10). Third, the water flow speed may also affect the injection and diffusion of water molecules. These simulation results indicate that the water molecular channel formation process is affected by multiple factors. The synergistic effects of perturbation of surfactant molecules and the electrostatic interactions between silica substrate and water molecules are two key factors aiding in the injection and diffusion of water molecules and helpful for the oil detachment from silica substrate.

Designable and dynamic single-walled stiff nanotubes assembled from sequence-defined peptoids.

Despite recent advances in the assembly of organic nanotubes, conferral of sequence-defined engineering and dynamic response characteristics to the tubules remains a challenge. Here we report a new family of highly designable and dynamic nanotubes assembled from sequence-defined peptoids through a unique "rolling-up and closure of nanosheet" mechanism. During the assembly process, amorphous spherical particles of amphiphilic peptoid oligomers crystallize to form well-defined nanosheets before folding to form single-walled nanotubes. These nanotubes undergo a pH-triggered, reversible contraction-expansion motion. By varying the number of hydrophobic residues of peptoids, we demonstrate tuning of nanotube wall thickness, diameter, and mechanical properties. Atomic force microscopy-based mechanical measurements show peptoid nanotubes are highly stiff (Young's Modulus ~13-17 GPa). We further demonstrate the precise incorporation of functional groups within nanotubes and their applications in water decontamination and cellular adhesion and uptake. These nanotubes provide a robust platform for developing biomimetic materials tailored to specific applications.

Molecular dynamics simulations of the self-organization of side-chain decorated polyaromatic conjugation molecules: phase separated lamellar and columnar structures and dispersion behaviors in toluene solvent.

The self-organization of five model side-chain decorated polyaromatic asphaltene molecules with or without toluene solvent was investigated by means of atomistic molecular dynamic (MD) simulations. It was found that the organizational structure of polycyclic asphaltene molecules is significantly affected by the position and length of side chains. In the present study, two types of phase-separated stacking configurations, including the phase separated lamellar structure (PSLS) and the phase separated columnar structure (PSCS), were found. The PSLS and PSCS were also maintained in the presence of a small amount of toluene additive (30% wt fraction). When adding excess toluene molecules, the asphaltene molecules formed highly dispersed nanoaggregates. The dynamic properties of the π-π stacking structures in the PSLS and PSCS, as well as the nanoaggregates, were probed. It was found that the number and size of alkyl side chains significantly impacted the size and number of π-π stacking structures in the aggregates. Through tracking the structural evolution of the nanoaggregates, a possible dissociation mechanism of nanoaggregates is also suggested.

Strain engineering on transmission carriers of monolayer phosphorene.

The effects of uniaxial strain on the structure, band gap and transmission carriers of monolayer phosphorene were investigated by first-principles calculations. The strain induced semiconductor-metal as well as direct-indirect transitions were studied in monolayer phosphorene. The position of CBM which belonged to indirect gap shifts along the direction of the applied strain. We have concluded the change rules of the carrier effective mass when plane strains are applied. In band structure, the sudden decrease of band gap or the new formation of CBM (VBM) causes the unexpected change in carrier effective mass. The effects of zigzag and armchair strain on the effective electron mass in phosphorene are different. The strain along zigzag direction has effects on the electrons effective mass along both zigzag and armchair direction. By contrast, armchair-direction strain seems to affect only on the free electron mass along zigzag direction. For the holes, the effective masses along zigzag direction are largely affected by plane strains while the effective mass along armchair direction exhibits independence in strain processing. The carrier density of monolayer phosphorene at 300 K is calculated about [Formula: see text] cm-2, which is greatly influenced by the temperature and strain. Strain engineering is an efficient method to improve the carrier density in phosphorene.

New Structure Model of Au22(SR)18: Bitetrahederon Golden Kernel Enclosed by [Au6(SR)6] Au(I) Complex.

The study of atomic structure of thiolate-protected gold with decreased core size is important to explore the structural evolution from Au(I) complex to Au nanoclusters. In this work, we theoretically predicted the structure of recently synthesized four valence electron (4e) Au22(SR)18 cluster. The Au22(SR)18 cluster is proposed to possess a bitetrahedron Au7 kernel that is surrounded by a unique [Au6(SR)6] Au(I) complex and three Au3(SR)4 staple motifs. More interestingly, the Au22(SR)18 exhibits structural connections with Au24(SR)20 and Au20(SR)16. The stability of Au22(SR)18 can be understood from the superatom electronic configuration of the Au kernel as well as the formation of superatomic network. The present study can offer new insight into the structural evolution as well as electronic structure of thiolate-protected Au nanoclusters.