Structural studies of a bacterial condensin complex reveal ATP-dependent disruption of intersubunit interactions.

Condensins are key mediators of chromosome condensation across organisms. Like other condensins, the bacterial MukBEF condensin complex consists of an SMC family protein dimer containing two ATPase head domains, MukB, and two interacting subunits, MukE and MukF. We report complete structural views of the intersubunit interactions of this condensin along with ensuing studies that reveal a role for the ATPase activity of MukB. MukE and MukF together form an elongated dimeric frame, and MukF's C-terminal winged-helix domains (C-WHDs) bind MukB heads to constitute closed ring-like structures. Surprisingly, one of the two bound C-WHDs is forced to detach upon ATP-mediated engagement of MukB heads. This detachment reaction depends on the linker segment preceding the C-WHD, and mutations on the linker restrict cell growth. Thus ATP-dependent transient disruption of the MukB-MukF interaction, which creates openings in condensin ring structures, is likely to be a critical feature of the functional mechanism of condensins.

Four-Dimensional Visualization of Microscale Dynamics of Membrane Oil Fouling via Synchrotron Radiation Microcomputed Tomography.

Although oil-water separation technology via wettability-controlled membranes has emerged as a promising technology to treat oily wastewater, membrane fouling by faulents such as sludge flocs and colloids, and the consequent clogging of pores, severely degrades the efficiency of filtration systems. One of the main promotors of fouling by faulents is oil fouling, which is also a form of fouling itself. Despite considerable practical and academic interest in the analysis of oil-fouled membranes, direct visualization of the entire process of oil infiltration into hydrophilic membranes is still preliminary owing to (i) the similar optical contrast and physical density between oil and water, (ii) the low penetration depth of imaging methods, and (iii) the lack of 3D segmentation capability. In this study, microcomputed X-ray tomography using tunable synchrotron radiation provided direct high-speed 3D visualization of the microscale dynamics of the oil infiltration of a prewetted hydrophilic filter membrane over time. Direct visualization of the interfacial dynamics of oil infiltration opens a window into the complex liquid (water/oil)-gas-solid interface and thus helps furnish an in-depth understanding of oil fouling in the prewetted membrane.

Pore-Scale Investigation of Dynamic Immiscible Displacement in Layered Media using Synchrotron X-ray Microtomography.

Understanding the dynamics of immiscible fluid in a porous media is critical in many chemical and environmental engineering processes. However, the geological heterogeneity effect on multiphase flow behavior remains unclear. Here, the dynamics of immiscible fluid displacement and entrapment were experimentally demonstrated at pore-level using time-lapse synchrotron X-ray microtomography. A drainage-imbibition experiment was designed using an unconsolidated layered sand pack that comprised coarse sand and fine sand zones. There were significant differences between the two zones, with regard to the temporal variations in fluid saturation and morphological evolution of nonwetting fluid (oil) during imbibition. Highly connected oil clusters in the coarse zone broke up into many small fragments, whereas the cluster in the fine zone remained connected while spanning multiple pores. To further understand the impacts of pore size and connectivity on multiphase fluid dynamics, a new approach that tracks the temporal variation of immiscible fluid in individual pores was conducted. The surface area at the oil-water interface increased during imbibition, which is expected to facilitate mass transfer and surface interactions. Understanding immiscible fluid displacement in layered porous media at the pore-level could lead to more effective environmental remediation.

Coordination of multiple dual oxidase-regulatory pathways in responses to commensal and infectious microbes in drosophila gut.

All metazoan guts are in permanent contact with the microbial realm. However, understanding of the exact mechanisms by which the strength of gut immune responses is regulated to achieve gut-microbe mutualism is far from complete. Here we identify a signaling network composed of complex positive and negative mechanisms that controlled the expression and activity of dual oxidase (DUOX), which 'fine tuned' the production of microbicidal reactive oxygen species depending on whether the gut encountered infectious or commensal microbes. Genetic analyses demonstrated that negative and positive regulation of DUOX was required for normal host survival in response to colonization with commensal and infectious microbes, respectively. Thus, the coordinated regulation of DUOX enables the host to achieve gut-microbe homeostasis by efficiently combating infection while tolerating commensal microbes.

Direct Measurement of Contact Angle Change in Capillary Rise.

Capillary rise is important in many aspects of physical phenomena from transport in porous media to biotechnology. It is typically described by the Lucas-Washburn-Rideal equation (LWRE), but discrepancy between some experiments and the model still remains elusive. In this paper, we show that the discrepancy is simply from the contact angle change during the capillary rise with no help of any specific models, such as dynamic contact angle (DCA) models. To demonstrate this, we directly measure the contact angle change in the capillary rise for glycerol and carboxymethyl cellulose solutions as examples of Newtonian and non-Newtonian liquids. Unlike previous studies that used DCA models to explain the discrepancy, when the contact angle change is directly applied to the LWRE for all four tested fluids, the model agrees well with experimental data. The estimated contact angle from the capillary rise as a function of time is in good agreement with the directly measured contact angle within a narrow margin of error. To pinpoint the conditions for the discrepancy, we propose a new time scale when contact angle dynamics dominates. The contact angle dynamics that can be obtained from the macroscopic capillary rise may provide useful information for capillary flow in a more complicated geometry such as porous media.

Peptide-Peptide Co-Assembly: A Design Strategy for Functional Detection of C-peptide, A Biomarker of Diabetic Neuropathy.

Diabetes-related neuropathy is a debilitating condition that may be averted if it can be detected early. One possible way this can be achieved at low cost is to utilise peptides to detect C-peptide, a biomarker of diabetic neuropathy. This depends on peptide-peptide co-assembly, which is currently in a nascent stage of intense study. Instead, we propose a bead-based triple-overlay combinatorial strategy that can preserve inter-residue information during the screening process for a suitable complementary peptide to co-assemble with C-peptide. The screening process commenced with a pentapeptide general library, which revealed histidine to be an essential residue. Further screening with seven tetrapeptide focused libraries led to a table of self-consistent peptide sequences that included tryptophan and lysine at high frequencies. Three complementary nonapeptides (9mer com-peptides), wpkkhfwgq (Trp-D), kwkkhfwgq (Lys-D), and KWKKHFWGQ (Lys-L) (as a negative control) were picked from this table for co-assembly studies with C-peptide. Attenuated total reflectance Fourier transform infrared (ATR-FTIR) and circular dichroism (CD) spectroscopies were utilized to study inter-peptide interactions and changes in secondary structures respectively. ATR-FTIR studies showed that there is indeed inter-peptide interaction between C-peptide and the tryptophan residues of the 9mer com-peptides. CD studies of unaggregated and colloidal C-peptide with the 9mer com-peptides suggest that the extent of co-assembly of C-peptide with Trp-D is greatest, followed by Lys-D and Lys-L. These results are promising and indicate that the presented strategy is viable for designing and evaluating longer complementary peptides, as well as complementary peptides for co-assembly with other polypeptides of interest and importance. We discuss the possibility of designing complementary peptides to inhibit toxic amyloidosis with this approach.

High-Throughput Analysis of New Bone Formation and Bone Substitutes After Maxillary Sinus Floor Elevation Using Synchrotron Radiation Micro-Computed Tomography.

This study addresses the usability of synchrotron radiation micro-computed tomography (SR-µCT) for the high-throughput examination of bone biopsy specimens harvested from maxillary sinus floor elevation (MSFE) patients. The experimental procedure devised for efficient data acquisition and volume analysis of bone biopsy specimens of sinus lift using SR-µCT is presented. The measuring was done in approximately one minute per field of view; 3D image visualization and volume analysis could be performed in one hour. Six months after the sinus floor augmentation procedure, bone biopsy specimens were collected. Six specimens were studied. The percentages of bone measured by 3D volumetric analysis using SR-µCT and 2D area analysis using conventional histomorphometry were compared. A specimen was measured in any cross section, and the analysis was readily extended to the entire volume of the specimen. Significant differences between the 2D and the 3D measurement results were revealed. Based on our observations, we report structural inhomogeneity in the grafted volume of the MSFE site. The new bone volume assessed by SR-µCT correlates with the percentage of bone as assessed by conventional 2D histologic photomicrographs. SR-µCT is thus a reliable technique to determine the volume of newly formed bone at the MSFE.

Comparative Evaluation of Recombinant Human Bone Morphogenetic Protein-2/Hydroxyapatite and Bovine Bone for New Bone Formation in Alveolar Ridge Preservation.

PURPOSE: Hydroxyapatite treated with recombinant human bone morphogenetic protein-2/Hydroxyapatite (rhBMP-2/HA) or bovine bone was applied on extraction sockets for alveolar ridge preservation, and the results were compared with respect to clinical and histological bone formation. MATERIALS AND METHODS: This was a prospective, randomized controlled clinical trial performed on 20 implant placement sites (10 in the experimental and 10 in the control group). rhBMP-2/HA was applied on extraction sockets in the experimental group and bovine bone on those of the control group. The bone at the corresponding sites was biopsied 3 months later, and clinical, histological, and histomorphometric analyses were performed. RESULTS: The alveolar bone height was well preserved in both groups with relatively less change in width in the experimental group compared with the control group. The percentage of new bone was 25.37% ± 17.23% in the experimental group and 6.13% ± 4.32% in the control group; the difference was statistically significant. CONCLUSIONS: The alveolar ridge was preserved clinically and histologically in both groups. rhBMP-2/HA resulted in greater new bone formation than bovine bone 3 months after the surgery.

Effects of Enhanced Hydrophilic Titanium Dioxide-Coated Hydroxyapatite on Bone Regeneration in Rabbit Calvarial Defects.

The regeneration of bone defects caused by periodontal disease or trauma is an important goal. Porous hydroxyapatite (HA) is an osteoconductive graft material. However, the hydrophobic properties of HA can be a disadvantage in the initial healing process. HA can be coated with TiO2 to improve its hydrophilicity, and ultraviolet irradiation (UV) can further increase the hydrophilicity by photofunctionalization. This study was designed to evaluate the effect of 5% TiO2-coated HA on rabbit calvarial defects and compare it with that of photofunctionalization on new bone in the early stage. The following four study groups were established, negative control, HA, TiO2-coated HA, and TiO2-coated HA with UV. The animals were sacrificed and the defects were assessed by radiography as well as histologic and histomorphometric analyses. At 2 and 8 weeks postoperatively, the TiO2-coated HA with UV group and TiO2-coated HA group showed significantly higher percentages of new bone than the control group (p < 0.05). UV irradiation increased the extent of new bone formation, and there was a significant difference between the TiO2-coated HA group and TiO2-coated HA with UV group. The combination of TiO2/HA and UV irradiation in bone regeneration appears to induce a favorable response.

An efficient strategy to enhance binding affinity and specificity of a known isozyme inhibitor.

The binding profile of a known inhibitor, benzenesulfonamide, against a family of carbonic anhydrase isozymes was efficiently enhanced via high-throughput screening of customized combinatorial one-bead-one-compound peptide libraries modified with the inhibitor molecule. The screening of the conjugate libraries recognized subtle variations in the microenvironments of the target enzyme and thus facilitated the identification of short peptide sequences that bind selectively to a close proximity of the active site. The identified peptide portions contributed significantly to the overall binding of the conjugate peptides with greatly enhanced affinity as well as improved specificity towards the target isozyme. The interactions between the inhibitors and the isozymes were validated by surface plasmon resonance (SPR), pull-down assay and enzymatic activity measurement. This high-throughput approach proved useful and efficient to enhance the binding profile of known inhibitors and may apply to developing effective inhibitors for a wide range of isozyme families.

Elucidating pH-dependent collagen triple helix formation through interstrand hydroxyproline-glutamic acid interactions.

Here, we describe systematic explorations into the molecular basis underlying hydroxyproline-mediated interstrand interactions on the triple-helical stability of collagen-mimetic peptides containing glutamic acid residues. Our studies reveal that the triple-helical stability of these peptides relies on the existence of interstrand interactions between hydroxyprolines and glutamic acid residues that are pH dependent. These unique interactions have been used to engineer collagen peptides that form triple helices on demand through pH control.

Thermochemical hydrogen sensor based on chalcogenide nanowire arrays.

The hydrogen gas-sensing properties have been investigated of two types of thermochemical hydrogen (TCH) sensors composed of thermoelectric layers based on chalcogenide nanowire arrays and anodic aluminum oxide (AAO) templates. The monomorphic-type TCH sensor, which had only Bi2Te3 nanowire arrays, showed an output signal of 23.7 µV in response to 5 vol% hydrogen gas at room temperature, whereas an output signal of 215 µV was obtained from an n-p junction-type TCH sensor made of connected Bi2Te3 and Sb2Te3 nanowire arrays in an AAO template. Despite its small deposition area, the output signal of the n-p sensor was more than nine times that of the monomorphic sensor. This observation can be explained by the difference in electrical connections (parallel and serial conversions) in the TCH sensor between each type of nanowire array. Also, our n-p sensor had a wide detection range for hydrogen gas (from 400 ppm to 45 vol%) and a fast response time of 1.3 s at room temperature without requiring external power.

Fabrication and characterization of hybrid thermoelectric materials based on aligned nanowires.

This study introduces the synthesis of a hybrid thermoelectric material with enhanced conductivity and a high Seebeck coefficient, leveraging the properties of Te nanowires (NWs) and the conductive polymer PEDOT:PSS. Te NWs were synthesized using the galvanic displacement reaction. To further enhance conductivity, Ag-Te NWs were synthesized under optimized conditions via the Ag topotactic reaction, achieving desired results within 7 min using ethylene glycol and AgNO3. This hybrid material exhibited an electrical conductivity of 463 S/cm, a Seebeck coefficient of 69.5 µV/K at 300 K, and a power factor of 260 µW/mK2. These metrics surpassed those of conventional Te/PEDOT:PSS hybrids by a factor of 3.6, highlighting the superior performance of our approach. This study represents a significant advancement in thermoelectric materials, improving both conductivity and efficiency.

Effects of Raman Labeling Compounds on the Stability and Surface-Enhanced Raman Spectroscopy Performance of Ag Nanoparticle-Embedded Silica Nanoparticles as Tagging Materials.

Surface-enhanced Raman spectroscopy (SERS) tagging using silica(SiO2)@Ag nanoparticles (NPs) is easy to handle and is being studied in various fields, including SERS imaging and immunoassays. This is primarily due to its structural advantages, characterized by high SERS activity. However, the Ag NPs introduced onto the SiO2 surface may undergo structural transformation owing to the Ostwald ripening phenomenon under various conditions. As a result, the consistency of the SERS signal decreases, reducing their usability as SERS substrates. Until recently, research has been actively conducted to improve the stability of single Ag NPs. However, research on SiO2@Ag NPs used as a SERS-tagging material is still lacking. In this study, we utilized a Raman labeling compound (RLC) to prevent the structural deformation of SiO2@Ag NPs under various conditions and proposed excellent SiO2@Ag@RLC-Pre NPs as a SERS-tagging material. Using various RLCs, we confirmed that 4-mercaptobenzoic acid (4-MBA) is the RLC that maintains the highest stability for 2 months. These results were also observed for the SiO2@Ag NPs, which were unstable under various pH and temperature conditions. We believe that SERS tags using SiO2@Ag NPs and 4-MBA can be utilized in various applications on based SERS because of the high stability and consistency of the resulting SERS signal.

Gold-Nanolayer-Derived Zincophilicity Suppressing Metallic Zinc Dendrites and Its Efficacy in Improving Electrochemical Stability of Aqueous Zinc-Ion Batteries.

Herein, an Au-coating layer adjusted on the surface of a Zn metal electrode that effectively suppresses the dendrite growth as well as the mechanisms underlying the dendrite suppression as a result of the zincophilic character of Au is introduced. For the Au-coated Zn metal symmetric cell, uniform deposition of Zn-derived compounds was revealed by operando synchrotron tomography. Microscopic studies demonstrate that the Au-coating layer is induced to form a new Zn-Au alloy during the initial Zn deposition, resulting in stabilized long-term stripping/plating of Zn via the 'embracing effect' that intimately accommodates Zn deposition for further cycles. This property supports the successful operation of symmetrical cells up to 50 mA cm-2 . According to Zn electrodeposition simulation, it is verified that the suppression of dendrite growth is responsible for the electro-conducting Au nanolayer that uniformly distributes the electric field and protects the Zn electrode from corrosion, ultimately promoting uniform Zn growth. The compatibility of the Au-coating layer for full cell configuration is verified using NaV3 O8 as a cathode material over 1 000 cycles. This finding provides a new pathway for the enhancement of the electrochemical performance of ZIBs by suppressing the dendritic growth of Zn by means of a zincophilic Au nanolayer.

Understanding the electrochemical processes of SeS2 positive electrodes for developing high-performance non-aqueous lithium sulfur batteries.

SeS2 positive electrodes are promising components for the development of high-energy, non-aqueous lithium sulfur batteries. However, the (electro)chemical and structural evolution of this class of positive electrodes is not yet fully understood. Here, we use operando physicochemical measurements to elucidate the dissolution and deposition processes in the SeS2 positive electrodes during lithium sulfur cell charge and discharge. Our analysis of real-time imaging reveals the pivotal role of Se in the SeS2 nucleation process, while S enables selective depositions. During the initial discharge, SeS2 converts into Se and S separately, with the dissolved Se acting as nucleation sites due to their lower nucleation potential. The Se effectively catalyzes the growth of S particles, resulting in improved lithium sulfur battery performance compared to cells using positive electrodes containing only Se or S as active materials. By adjusting the Se-to-S ratio, we demonstrate that a low concentration of Se enables uniform catalytic sites, promotes the homogeneous distribution of S and favours improved lithium sulfur battery performance.

Dynamic mucus secretion in ventral surfaces of toe pads of the tree frog (Dryophytes japonica).

The tree frog is a prominent amphibian among terrestrial vertebrates known for its ability to adhere to various surfaces through the capillary forces of water in the microchannels between micropillars on its disc-shaped toe pads, a phenomenon known as wet adhesion. However, the secretion pattern of mucus on the attachment surface of living tree frog toe pads and the distribution of active mucus pores (AMPs) have not yet been fully elucidated. In this study, we utilized synchrotron X-ray micro-computed tomography and interference reflection microscopy to obtain the spatial distribution of the entire population of ventral mucus glands on the toe pads of living tree frogs and the real-time mucus secretion patterns from the ventral mucus pores on the contact surface under different environmental conditions. We observed that the number and secretion frequency of AMPs on the toe pad are regulated according to environmental conditions. Such dynamic mucus secretion on the tree frog's toe pad could contribute to the understanding of capillary force regulation for wet adhesion and the development of adhesive surfaces by mimicking the mucus-secreting toe pad.

Highly selective macrocycle formations by metathesis catalysts fixated in nanopores.

Ruthenium-based metathesis catalysts immobilized on mesocellular siliceous foam (MCF) bearing large nanopores proved highly efficient and selective for macrocyclic ring-closing metathesis (RCM). Kinetic studies revealed that the homogeneous counterpart exhibited far higher activity that accounted for more oligomerization pathways and resulted in less macrocyclization products. Meanwhile, the immobilized catalysts showed lower conversion rates leading to higher yields of macrocyclic products in a given reaction time, with conversion rates and yields dependent upon pore size, catalyst loading density, and linker length. The macrocycle formations via RCM were accelerated by increasing the pore size and decreasing the catalyst loading density while retaining the comparably high yield. The catalysts immobilized on MCF, of which silica surface is rigid and pores are relatively large, showed high conversion rates and yields compared with an analogue immobilized on TentaGel resins, of which backbone becomes flexible upon swelling in the reaction medium. It is noteworthy that the selectivity for the macrocyclic RCM can be significantly improved by tuning the catalyst initiation rates via immobilization onto the support materials in which well-defined three-dimentional network of large nanopores are deployed.

Metal nanoparticles and DNA co-functionalized single-walled carbon nanotube gas sensors.

Metal/DNA/SWNT hybrid nanostructure-based gas sensor arrays were fabricated by means of ink jet printing of metal ion chelated DNA/SWNTs on microfabricated electrodes, followed by electroless deposition to reduce metal ions to metal. DNA served as a dispersing agent to effectively solubilize pristine SWNTs in water and as metal ion chelating centers for the formation of nanoparticles. Noble metals including palladium, platinum, and gold were used because the high binding affinity toward specific analytes enhances the selectivity and sensitivity. The sensitivity and selectivity of the gas sensors toward various gases such as H2, H2S, NH3, and NO2 were determined at room temperature. Sensing results indicated the enhancement of the sensitivity and selectivity toward certain analytes by functionalizing with different metal nanoparticles (e.g., Pd/DNA/SWNTs for H2 and H2S). The combined responses give a unique pattern or signature for each analyte by which the system can identify and quantify an individual gas.

Large-Area Mapping of Voids and Dislocations in Basal-Faceted Sapphire Ribbons by Synchrotron Radiation Imaging.

The understanding of structural defects in basal-faceted sapphire ribbons was improved through X-ray imaging at a synchrotron source. The combination of phase contrast and X-ray diffraction makes it possible to visualize and characterize both gas voids and dislocations in the bulk of the ribbons grown by the Stepanov-LaBelle technology. Dislocations were directly related to gas voids. X-ray diffraction topography was employed to investigate the distribution, configurations, and character of the dislocations. The formation of voids of irregular shapes was detected by large-area mapping with spatial resolution in the µm range. Computer simulations of the experimental phase contrast images of microvoids were performed. The sizes of the spherical microvoids were determined. The results are discussed with reference to the available data on the emission of dislocations from the voids. The evolution of the shape, size, and arrangement of the voids during growth provides clues on the formation of block structure in basal-faceted sapphire ribbons.