Finback: a web-based data collection system at SSRF biological macromolecular crystallography beamlines.

An integrated computer software system for macromolecular crystallography (MX) data collection at the BL02U1 and BL10U2 beamlines of the Shanghai Synchrotron Radiation Facility is described. The system, Finback, implements a set of features designed for the automated MX beamlines, and is marked with a user-friendly web-based graphical user interface (GUI) for interactive data collection. The Finback client GUI can run on modern browsers and has been developed using several modern web technologies including WebSocket, WebGL, WebWorker and WebAssembly. Finback supports multiple concurrent sessions, so on-site and remote users can access the beamline simultaneously. Finback also cooperates with the deployed experimental data and information management system, the relevant experimental parameters and results are automatically deposited to a database.

Effects of Nanobubbles on Photochemical Processes of Levofloxacin Photosensitizer.

Photodynamic therapy (PDT) stands as an efficacious modality for the treatment of cancer and various diseases, in which optimization of the electron transfer and augmentation of the production of lethal reactive oxygen species (ROS) represent pivotal challenges to enhance its therapeutic efficacy. Empirical investigations have established that the spontaneous initiation of redox reactions associated with electron transfer is feasible and is located in the gas-liquid interfaces. Meanwhile, nanobubbles (NBs) are emerging as entities capable of furnishing a plethora of such interfaces, attributed to their stability and large surface/volume ratio in bulk water. Thus, NBs provide a chance to expedite the electron-transfer kinetics within the context of PDT in an ambient environment. In this paper, we present a pioneering exploration into the impact of nitrogen nanobubbles (N2-NBs) on the electron transfer of the photosensitizer levofloxacin (LEV). Transient absorption spectra and time-resolved decay spectra, as determined through laser flash photolysis, unequivocally reveal that N2-NBs exhibit a mitigating effect on the decay of the LEV excitation triplet state, thereby facilitating subsequent processes. Of paramount significance is the observation that the presence of N2-NBs markedly accelerates the electron transfer of LEV, albeit with a marginal inhibitory influence on its energy-transfer reaction. This observation is corroborated through absorbance measurements and offers compelling evidence substantiating the role of NBs in expediting electron transfer within the ambit of PDT. The mechanism elucidated herein sheds light on how N2-NBs intricately influence both electron-transfer and energy-transfer reactions in the photosensitizer LEV. These findings not only contribute to a nuanced understanding of the underlying processes but also furnish novel insights that may inform the application of NBs in the realm of photodynamic therapy.

Fluorocarbon Nanodroplets: Their Formation and Stability in Complex Solution Systems.

Perfluorocarbon (PFC) nanodroplets (NDs) are expanding in a wide range of applications in biotechnology and nanotechnology. Their efficacy in biological systems is significantly influenced by their size uniformity and stability within bioelectrolyte contexts. Presently, methods for creating monodisperse, highly concentrated, and well-stabilized PFC NDs under harsh conditions using low energy consumption methods have not been thoroughly developed, and their stability has not been sufficiently explored. This gap restricts their applicability for advanced medical interventions in tissues with high pH levels and various electrolytic conditions. To tackle these challenges and to circumvent potential toxicity from surface stabilizers, we have conducted an in-depth investigation into the formation and stability of uncoated perfluorohexane (PFH) NDs, which were synthesized by using a low-energy consumption solvent exchange technique, across complex electrolyte compositions or a broad spectrum of pH levels. The results indicated that low concentrations of low-valent electrolyte ions facilitate the nucleation of NDs and consistently accelerate Ostwald ripening over an extended period. Conversely, high concentrations of highly valent electrolyte ions inhibit nucleation and decelerate the ripening process over time. Given the similarities between the properties of NDs and nanobubbles, we propose a potential stabilization mechanism. Electrolytes influence the Ostwald ripening of NDs by adjusting the adsorption and distribution of ions on the NDs' surface, modifying the thickness of the electric double layer, and fine-tuning the energy barrier between droplets. These insights enable precise control over the stability of PFC NDs through the meticulous adjustment of the surrounding electrolyte composition. This offers an effective preparation method and a theoretical foundation for employing bare PFC NDs in physiological settings.

Genome-wide SNPs reveal the fine-scale population structure of Laodelphax striatellus in China using double-digest restriction site-associated DNA sequencing.

The small brown planthopper (SBPH), Laodelphax striatellus (Fallén) is one of the most destructive rice pests and has caused serious economic losses in China. To clarify the genetic differentiation and population genetic structure of this insect pest, we investigated the genomic polymorphisms, genetic differentiation, and phylogeography of 31 SBPH populations from 28 sampling sites from three climatic zones of China using double-digest restriction site-associated DNA sequencing (ddRADseq). In total, 2,813,221,369 high-quality paired-end reads from 306 individuals and 1925 single nucleotide polymorphisms (SNPs) were obtained. Low levels of genetic diversity and significant genetic differentiation were observed among the SBPH populations, and three genetic clusters were detected in China. Neutrality tests and bottleneck analysis provided strong evidence for recent rapid expansion with a severe bottleneck in most populations. Our work provides new insights into the genetics of the SBPH and will contribute to the development of effective management strategies for this pest.

Formation of Bulk Nanobubbles Induced by Accelerated Electrons Irradiation: Dependences on Dose Rates and Doses of Irradiation.

Radiation on aqueous solutions can induce water radiolysis with products of radicals, H2, H2O2, and so on, and their consequent biological effects have long been interested in radiation chemistry. Unlike the decomposition of water by electric current that produces a significant number of bubbles, the gas products from the radiolysis of water are normally invisible by bare eyes, little is known on whether nanosized bubbles can be produced and what their dynamics are upon irradiation. Here, we first presented the formation of nanoscale bulk bubbles by irradiating pure water with accelerated electrons and their concentration and size distribution changes with the dose and rate of irradiation. The nanoparticle tracking analysis showed that irradiation can actually produce a certain amount of bulk nanobubbles in pure water. They exhibited a dependence on the irradiation dose rates and irradiation doses. The results indicated that the concentration of formed bulk nanobubbles increased as the irradiation dose rates increased, but it will increase and then decrease with the increased irradiation doses. The formed bulk nanobubbles could maintain stability for several hours. Our findings will provide a new angle of view for the radiation chemistry of water, and the formed nanobubbles may help elucidate the biological effects of irradiated solutions.

Collective Dynamics of Bulk Nanobubbles with Size-Dependent Surface Tension.

It has been suggested that irreversible adsorption at the gas/liquid interface of bulk nanobubbles will reduce the Laplace pressure, leading to their stability. However, most previous studies have focused on the stability of individual nanobubbles. Bulk nanobubbles are polydispersed suspensions, and gas molecules can diffuse between bubbles, leading to their collective dynamics, which may be crucial to understanding their formation process and stability. In this study, we proposed a mean-field theory for computing the evolution of the size-distribution function of bulk nanobubbles with size-dependent surface tension. We applied this theory to investigate the evolution of bulk nanobubbles with insoluble surfactants pinned at their gas/water interface. The results show that Ostwald ripening can be suppressed when enough surfactants are adsorbed. Bulk nanobubbles can be produced by the shrinkage of microbubbles in an air-saturated solution. The mean stable size is controlled by the amount of surfactants and the initial microbubble concentration; these predictions are qualitatively consistent with the experimental results of micro/nanobubbles produced using the microfluidic method.

Ultrahigh Density of Gas Molecules Confined in Surface Nanobubbles in Ambient Water.

To understand the unexpected and puzzling long-term stability of nanoscale gas bubbles, it is crucial to probe their nature and intrinsic properties. We report herein synchrotron-based scanning transmission X-ray microscopy (STXM) evidence of highly condensed oxygen gas molecules trapped as surface nanobubbles. Remarkably, the analysis of absorption spectra of a single nanobubble revealed that the oxygen density inside was 1-2 orders of magnitude higher than that in atmospheric pressure, and these bubbles were found in a highly saturated liquid environment with the estimated oxygen concentration to be hundreds of times higher than the known oxygen solubility in equilibrium. Molecular dynamics simulations were performed to investigate the stability of surface nanobubbles on a heterogeneous substrate in gas-oversaturated water. These results indicated that gas molecules within confinement such as the nanobubbles could maintain a dense state instead of the ideal gas state, as long as their surrounding liquid is supersaturated. Our findings should help explain the surprisingly long lifetime of the nanobubbles and shed light on nanoscale gas aggregation behaviors.

Formation and Stability of Bulk Nanobubbles by Vibration.

Vibration is a very common process in nature, industry, biology, etc. Thus, whether vibration could induce the formation of nanoscale bubbles in water or not is very important for some chemical or biological reactions. In this paper, we designed a control experiment to simulate the vibration process to explore the production and stability of bulk nanobubbles. Experimental results showed that the vibration could indeed induce the formation of a certain number of bulk nanobubbles in water. In addition, the formation of bulk nanobubbles depended on the frequency and time of vibration. The existence of gas-liquid interface played an important role for the bulk nanobubbles formation because that external air is a possible important gas source. Our findings would be helpful to explore the mystical behavior of nanobubbles in natural processes.

Influence of Krypton Gas Nanobubbles on the Activity of Pepsin.

The fact that biologically inert gases can significantly affect the biological function of proteins still lacks a full understanding because they are usually chemically stable and weakly absorbed by biological molecules. Recently, nanobubbles were proposed to play an important role in the activity of a protein (Scientific reports 2013, 3; Scientific reports 2017, 7, 10176). In this study, we developed a controllable method to produce high-concentration krypton (Kr) gas nanobubbles in pure water and measured the concentration influence of those Kr nanobubbles on pepsin protein activity. By combining high-sensitivity synchrotron radiation X-ray fluorescence techniques with a nanoparticle tracking analysis technology, we provided strong evidence that the observed "nanoparticles" were indeed Kr nanobubbles. Activity measurements showed that the activity would be inhibited by the existence of Kr nanobubbles and could be recovered by degassing. More importantly, the inhibition extent of pepsin activity was dominated by the number of nanobubbles in solution. More nanobubbles would cause more inhibition of pepsin activity. Furthermore, the structures of pepsin could be changed by nanobubbles, which might be the reason for inhabitation of activity. Our results would provide a further understanding of the mechanisms of the biological effects of inert gases.

Zn4B6O13: Efficient Borate Photocatalyst with Fast Carrier Separation for Photodegradation of Tetracycline.

There is a need for photocatalysts with efficient photocarrier separation to address issues with environmental pollution. Photocarrier separation is largely determined by the orbital composition near the band edge. Here, we investigate Zn4B6O13 as an efficient photocatalyst for photodegradation of tetracycline. Theoretical calculations of Zn4B6O13 show that the valence band near the Fermi level is composed of d and p orbitals whereas the bottom of the conduction band is composed of s and p orbitals; thus, a large value of mh*/me* is derived from the band dispersion. The characteristics of this orbital composition promote separation of photoexcited carriers, leading to a high transfer efficiency of the catalyst. Moreover, photodegradation experiments demonstrate that the photocatalytic activity of Zn4B6O13 is approximately 5.2 times as high as that of SnO2. This study provides insights that might aid the development of novel borate-based environmental photocatalysts with superior performance.

Force Spectroscopy Revealed a High-Gas-Density State near the Graphite Substrate inside Surface Nanobubbles.

The absorption of gas molecules at hydrophobic surfaces may have a special state and play an important role in many processes in interfacial physics, which has been rarely considered in previous theory. In this paper, force spectroscopic experiments were performed by a nanosized AFM probe penetrated into individual surface nanobubbles and contacted with a highly ordered pyrolytic graphite (HOPG) substrate. The results showed that the adhesion force at the gas/solid interface was much smaller than that in air measured with the same AFM probe. The adhesion data were further analyzed by the van der Waals force theory, and the result implied that the gas density near the substrate inside the surface nanobubbles was about 3 orders of magnitude higher than that under the standard pressure and temperature (STP). Our MD simulation indicated that the gas layers near the substrate exhibited a high-density state inside the surface nanobubbles. This high-density state may provide new insight into the understanding of the abnormal stability and contact angle of nanobubbles on hydrophobic surfaces, and have significant impact on their applications.

Mechanical Properties of Sub-Microbubbles with a Nanoparticle-Decorated Polymer Shell.

Nanoparticle-decorated polymer-coated sub-microbubbles (NP-P-coated SMBs), as proved, have shown promising application prospects in ultrasound imaging, magnetic resonance imaging, drug delivery, and so forth. However, the quantitative evaluation of the stability and mechanical properties of single NP-P-coated SMB is absent. Here, we first reported the stiffness and Young's modulus of single NP-P-coated SMB obtained by the PeakForce mode of atomic force microscopy. Such NP-P-coated SMBs could maintain perfect spherical shapes and have a thinner shell thickness (about 10 nm), as determined by characterization using a transmission electron microscope. Young's modulus of NP-P-coated SMBs is about 4.6 ± 1.2 GPa, and their stiffness is about 15.0 ± 3.1 N/m. Both modulus and stiffness are obtained from the linear region in the force-deformation curve and are nearly independent of their sizes. These results should be very useful to evaluate their stability, which plays a key role in maintaining the shell drug loading and acoustic capabilities.

Dual Effects of Metformin on Adipogenic Differentiation of 3T3-L1 Preadipocyte in AMPK-Dependent and Independent Manners.

Metformin has been reported to have body weight lowering effects while treating type 2 diabetes. However, limited studies examined the effects of metformin on adipogenesis in vitro, and available data are inconclusive and contradictory. In this study, we examined the effects of a variety of concentrations of metformin on adipocyte differentiation of 3T3-L1 preadipocytes and found metformin exhibits a dual effect on adipogenesis. Metformin at lower concentrations (1.25⁻2.5 mM) significantly induced adipogenesis while at higher concentrations (5⁻10 mM) metformin significantly inhibited adipogenesis in 3T3-L1 cells. The biphasic effect of different doses of metformin on adipogenesis was accompanied by increasing or decreasing the expression of adipogenic and lipogenic genes including peroxisome proliferator-activated receptor (PPARγ), CCAAT/enhancer binding protein α (C/EBPα), and fatty acid synthase (FASN) at both messenger RNA (mRNA) and protein levels. Furthermore, only the higher concentrations of metformin induced the phosphorylation of adenosine 5'-monophosphate (AMP)-activated protein kinase (AMPK), p38, and c-Jun N-terminal kinase (JNK) and reduced the phosphorylation of extracellular regulated protein kinases (ERK) and Akt. Pretreatment with compound C, a specific AMPK inhibitor, significantly countered high concentration of metformin-induced inhibition of adipogenesis. Taken together, these findings demonstrate that the effect of metformin on adipocyte differentiation is biphasic and dose-dependent. Lower concentrations of metformin induce adipogenesis, which could be mediated in an AMPK-independent manner, while higher concentrations of metformin inhibit adipogenesis via AMPK activation.

[Effect of traditional Chinese medicine in inhibiting obesity and inflammatory diseases by regulating gut microbiota].

Traditional Chinese medicine(TCM) has been increasingly used in the prevention and treatment of obesity and obesity-related diseases. However, its mechanism of action is not yet clear. In recent years, with the development of high-throughput sequencing technology, scientific researches have found that the disorder of gut microbiota is associated with obesity and other diseases. Furthermore, it has been found that TCM can improve the structure of gut microbiota by increasing probiotics and reducing pathogens, which play an importent role in preventing the development and progression of obesity and other diseases. This article first explores the possible association between intestinal microbiota and obesity. Then, it reviews the traditional Chinese medicine and its role in regulating intestinal microbiota for the prevention and treatment of diseases, including obesity and inflammation, insulin resistance, type 2 diabetes, non-alcoholic fatty liver disease, inflammatory bowel disease and other diseases, in theexpectation of new strategies and research direction for treating obesity and relevant diseases, and providing important guidance for further studies in this field in the future.

Formation and Stability of Bulk Nanobubbles Generated by Ethanol-Water Exchange.

Bulk nanobubbles have unique properties and find potential applications in many important processes. However, their stability or long lifetime still needs to be understood and has attracted much attention from researchers. Bulk nanobubbles are generated based on ethanol-water exchange, a method that is generally used in the study of surface nanobubbles. Their formation and stability is further studied by using a new type of dynamic light scattering known as NanoSight. The results show that the concentration of the bulk nanobubbles produced by this method is about five times greater than that in the degassed group, which indicates the existence of bulk gas nanobubbles. The effects of ethanol/water ratios and temperature on the stability of the bulk nanobubbles have also been studied and their numbers reach a maximum at a ratio of about 1:10 (v/v).

Interfacial gas nanobubbles or oil nanodroplets?

The existence of nanobubbles at a solid-liquid interface with high stability has been confirmed by myriad experimental studies, and their gaseous nature has also been extensively verified. However, nanodroplets of polydimethylsiloxane (PDMS) recently observed in the atomic force microscopy (AFM) measurement of nanobubbles plague the nanobubble community. It may easily lead to wrong interpretations of the AFM results and thus hinders further application of the already widely used AFM in nanobubble studies. Therefore, finding a direct experimental solution to distinguish nanobubbles from nanodroplets in AFM measurements is a matter of great urgency. Herein, we first developed an effective and reproducible method to produce PDMS nanodroplets at the highly ordered pyrolytic graphite (HOPG)/water interface. From their size, contact angle, and stiffness, the formed PDMS nanodroplets are not distinguishable from nanobubbles. However, the force curves on these two objects are strikingly different from each other, i.e., a peculiar plateau in both the approach and retraction curves was found on nanobubbles whereas they changed linearly between the jump-in and jump-off point on PDMS nanodroplets. Thus, the present study not only provided a simple and effective procedure to generate PDMS nanodroplets but also paved a simple practical and in situ way to discriminate nanobubbles from the PDMS nanodroplets by direct AFM force measurements.

Size-Dependent Stiffness of Nanodroplets: A Quantitative Analysis of the Interaction between an AFM Probe and Nanodroplets.

The interfacial properties of nanodroplets are very significant for the exploration of the basic law governing the fluid behavior at the nanoscale and also the applications in some important processes in novel materials fabrication by forming a special and local reaction environment. However, many basic factors such as the interfacial tension or stiffness of nanodroplets are still lacking, partially because of the difficulty of making quantitative measurements of the interfacial interactions at the nanometer scale. Here, we used a novel atomic force microscopy (AFM) mode, PeakForce mode, to control the interaction between an AFM probe and nanodroplets, by which we could obtain the morphology and stiffness of nanodroplets simultaneously. The change in the stiffness with the size of the nanodroplets was observed where the smaller nanodroplets usually had a larger stiffness. To explain this phenomenon, we then established a theoretical model based on the Young-Laplace equation in which the deformation and size-dependent stiffness could be described quantitatively and the experimental observations could be explained with our numerical calculations very well. The general methodology presented here could also be extended to analyze the relevant behavior of nanobubbles and other wetting phenomena at the nanoscale.

In situ measurement of contact angles and surface tensions of interfacial nanobubbles in ethanol aqueous solutions.

The astonishing long lifetime and large contact angles of interfacial nanobubbles are still in hot debate despite numerous experimental and theoretical studies. One hypothesis to reconcile the two abnormalities of interfacial nanobubbles is that they have low surface tensions. However, few studies have been reported to measure the surface tensions of nanobubbles due to the lack of effective measurements. Herein, we investigate the in situ contact angles and surface tensions of individual interfacial nanobubbles immersed in different ethanol aqueous solutions using quantitative nanomechanical atomic force microscopy (AFM). The results showed that the contact angles of nanobubbles in the studied ethanol solutions were also much larger than the corresponding macroscopic counterparts on the same substrate, and they decreased with increasing ethanol concentrations. More significantly, the surface tensions calculated were much lower than those of the gas-liquid interfaces of the solutions at the macroscopic scale but have similar tendencies with increasing ethanol concentrations. Those results are expected to be helpful in further understanding the stability of interfacial nanobubbles in complex solutions.

Interfacial nanobubbles on atomically flat substrates with different hydrophobicities.

The dependence of the morphology of interfacial nanobubbles on atomically flat substrates with different wettability ranges was investigated by using PeakForce quantitative nanomechanics. Interfacial nanobubbles were formed and imaged on silicon nitride (Si3N4), mica, and highly ordered pyrolytic graphite (HOPG) substrates that were partly covered by reduced graphene oxide (rGO). The contact angles and sizes of those nanobubbles were measured under the same conditions. Nanobubbles with the same lateral width exhibited different heights on the different substrates, with the order Si3N4≈mica>rGO>HOPG, which is consistent with the trend of the hydrophobicity of the substrates.