Probes Of Different Sizes Research Articles

Connection between the time distribution and length scale of dynamic heterogeneity explored by probe reorientations of different sizes.

The rotational dynamics of fluorescent probes of different sizes in glass-forming materials were examined to correlate the time distribution and length scale of the dynamic heterogeneity (ξhet). As the size of the probe increased, the temperature dependence of the rotation correlation time (τc) shifted to longer times, and from this shift, the length scale associated with the glass transition (ξα) was estimated through the Debye-Stokes-Einstein (DSE) relationship and the length scale of the probe (ξsDFT) estimated from quantum mechanical calculations. The estimated ξα values roughly matched with ξhet obtained from calorimetric analysis but were considerably smaller than those deduced from 4D NMR, boson peak, and four-point dynamic susceptibility measurements but with a similar trend of decrease in the length scale upon the increase in the stretching exponent (β) of the system. Because β of the glass formers represents the time distribution of the system, and τc is related to the weighted average of the distribution, the length-scale distribution of the glass transition can be deduced by adopting the DSE relationship and assuming ξα is the weighted average of this distribution at the glass transition temperature. In such a case, the upper bound of the length scale and trend matches the experimentally obtained ξhet from 4D NMR, boson peak, and four-point dynamic susceptibility measurements. Furthermore, at a given temperature, as the probe size increased, the β value reported by the probe increased, whereas the temperature dependence of β, which strongly correlates with the fragility of the system, was independent of the probe size.

Linear viscoelasticity of nanocolloidal suspensions from probe rheology molecular simulations

We use molecular dynamics (MD) simulations in conjunction with the probe rheology technique to investigate the linear viscoelasticity of nanocolloidal suspensions. A particulate model of the solvent is used in which the hydrodynamics is governed by interparticle interactions. Active and passive probe rheology molecular simulations are performed on the colloidal suspensions of different volume fractions ranging from 0.30 to 0.45 to determine the linear viscoelastic properties of these systems. The viscoelastic modulus of the suspensions is obtained by analyzing the probe motion using continuum mechanics. In active rheology, the distribution of colloid particles around the probe is observed to be symmetric indicating that the system is in the linear regime at all conditions investigated. In passive rheology, the mean-squared displacement of the probe covers the range of motion from ballistic to diffusive regimes. The dynamic modulus and the reduced complex viscosity values obtained from probe rheology simulations are in good agreement with the results from the oscillatory nonequilibrium MD (NEMD) simulations and the literature theoretical predictions. At low frequency values, accounting for artificial hydrodynamic interactions between the probe and its periodic images improves the quantitative accuracy of the modulus values obtained from simulations. Simulations carried out using probes of different sizes indicate that only the probes that are larger than the colloids yield viscoelastic modulus values that are in good agreement with the NEMD values at all volume fractions investigated.

Catalytic characterization in plasma wind tunnels under the influence of gaseous recombination

The catalytic properties of materials used in re-usable thermal protection systems (TPSs) of re-entry vehicles are mainly characterized in plasma wind tunnels. These facilities are adequate to reproduce the thermo-chemical environment found in hypersonic flights. Catalytic recombination coefficients (W) determined empirically for the TPS design process are used to validate catalytic models. Recent experiments in plasma wind tunnels present some contradictions with current catalytic models used in computational fluid dynamics simulations. This work explores the coupling between homogeneous and heterogeneous reactions and its influence on the heat flux measurements, in order to explain such contradictions. For that, three copper calorimeters (at 350 K) are inserted in probes of different sizes, and they are tested in the Plasmatron facility at the von Karman Institute under different chemical regimes, which are modified by the probe diameter. A dimensional analysis of the acquired data based on previous non-equilibrium boundary formulations shows that an empirical recombination coefficient can be falsified by the presence of homogeneous reactions. Then, in the framework for the post-flight analysis of the European Space Agency's intermediate experimental vehicle, the local heat transfer simulations methodology is applied under peak heating conditions. A new probe is designed, manufactured, and tested in the Plasmatron to measure the recombination coefficient on C/SiC under the closest flow conditions with respect to the flight.

Dual energy X-ray beam ptycho-fluorescence imaging.

X-ray ptychography and X-ray fluorescence are complementary nanoscale imaging techniques, providing structural and elemental information, respectively. Both methods acquire data by scanning a localized beam across the sample. X-ray ptychography processes the transmission signal of a coherent illumination interacting with the sample, to produce images with a resolution finer than the illumination spot and step size. By enlarging both the spot and the step size, the technique can cover extended regions efficiently. X-ray fluorescence records the emitted spectra as the sample is scanned through the localized beam and its spatial resolution is limited by the spot and step size. The requisites for fast ptychography and high-resolution fluorescence appear incompatible. Here, a novel scheme that mitigates the difference in requirements is proposed. The method makes use of two probes of different sizes at the sample, generated by using two different energies for the probes and chromatic focusing optics. The different probe sizes allow to reduce the number of acquisition steps for the joint fluorescence-ptychography scan compared with a standard single beam scan, while imaging the same field of view. The new method is demonstrated experimentally using two undulator harmonics, a Fresnel zone plate and an energy discriminating photon counting detector.

Enhanced Eddy Current Techniques for Detection of Surface-Breaking Cracks in Aircraft Structures

Abstract Well-timed detection of the defects (e.g., fatigue cracks and corrosive damages) in aircraft structures is the question of vital importance. Periodic in-service non-destructive inspection (NDI) is necessary to prevent expensive aircraft breakdowns during in-service life. Eddy current (EC) NDI method have many advantages for in-service aircraft inspection due to high mobility and the possibility to detect fatigue cracks without direct contact with the inspected surface (even through a protective coating without removal). Last decades some enhanced EC techniques were developed for aircraft in-service inspection in the Karpenko Physico-Mechanical Institute of National Academy of Sciences (Lviv) in collaboration with Ukrainian and foreign aircraft companies. Proposed earlier EC efficiency coefficient was applied for the selection of the ferrite-core EC probe parameters. Investigations concerned with the crack detectability for single-coil EC probes of different sizes were carried out to improve the inspection procedures. The sensitivity of the developed single-coil EC probe was experimentally investigated. The possibility to distinguish the signals associated with detected defect and lift-off was shown. The new inspection procedure was proposed for full suppression of the noise concerned with the rivet edge influence. The high-frequency EC flaw detector of Leotest VD 3.03 type based on self-generator mode and miniature single-coil EC probes application was developed for detection of the surface-breaking fatigue cracks. The original scheme of double-circuit self-generator with intermittent oscillations was invented and investigated. The pulse-repetition frequency of high-frequency oscillations was used as an informative parameter. The important feature of the developed self-generating scheme is the effective suppression of the lift-off influence (the changes of the clearance between the EC probe and the inspected object surface during the scanning). Developed EC flaw detectors of Leotest VD 3.03 type and inspection procedures were successfully implemented into the maintenance practice for detection of the fatigue cracks initiated in the wing and the fuselage structures and aviation engines in many companies such as ANTONOV AIRCRAFT, Lviv State Aircraft Repair Plant, Konotop aircraft repair plant «AVIAKON», Ukrainian International Airlines, MOTOR-SICH, State Enterprise “IVCHENKO-PROGRESS”, etc.

Simulation by COMSOL of Effects of Probe on Inductively Coupled Argon Plasma

A new system is simulated to find the effects of the presence of any impurities or different devices, such as different probes along the plasma path in the torque, on plasma parameters such as electron density, electric potential, pressure, and temperature. A torque with two coils of equal size and a probe between them is simulated by the inductively coupled plasma (ICP) module in the COMSOL simulation program. Two modes are considered in the tunnel, the most important is the presence and absence of probe between the two coils. The results and measurements are compared and presented as figures and diagrams. The main outcomes reveal that the presence of any probe, even with the slightest penetration of the plasma edge, can affect the properties of the plasma. Software simulation is one of the fastest ways to get results at the least cost. In more advanced work in the future, it is possible to investigate the existence of several probes of different sizes as well as the effect of temperature fluctuations on the plasma.

Comparison of Experimental STEM Conditions for Fluctuation Electron Microscopy.

Variable-resolution fluctuation electron microscopy (VR-FEM) data from measurements on amorphous silicon and PdNiP have been obtained at varying experimental conditions. Measurements have been conducted at identical total electron dose and with an identical electron dose normalized to the respective probe size. STEM probes of different sizes have been created by variation of the semi-convergence angle or by defocus. The results show that defocus yields a reduced normalized variance compared to data from probes created by convergence angle variation. Moreover, the trend of the normalized variance upon probe size variation differs between the two methods. Beam coherence, which affects FEM data, has been analyzed theoretically using geometrical optics on a multi-lens setup and linked to the illumination conditions. Fits to several experimental beam profiles support our geometrical optics theory regarding probe coherence. The normalized variance can be further optimized if one determines the optimal exposure time for the nanobeam diffraction patterns.

АНАЛІЗ ВПЛИВУ ГЕОЛОГІЧНИХ ЧИННИКІВ НА ГЛИБИНУ ЗОНИ ПРОНИКНЕННЯ ФІЛЬТРАТУ ПРИ ПЕРВИННОМУ РОЗКРИТТІ ГРАНУЛЯРНИХ КОЛЕКТОРІВ ЗА ДАНИМИ ГДС

Possibilities of using the well-logging data for revealing the factors of the geological nature that influence the formation of invaded zone of a drilling mud filtrate at oil and gas wells drilling are considered. Electrical logging data were used with probes of different sizes and different types for adequate calculation of the relative diameter of the invaded zone. 5 wells from the gas condensate field were selected for analysis. The terrigenous section of the wells is represented by the alternation of argillites, siltstones and sandstones. Rocks reservoirs of granular type; the layers with thicknesses from 3,4 to 18,2 m were selected for analysis. The results of statistical analysis (cluster and factor analyzes) revealed 3 groups of rocks, the characteristic features of which are significantly differentfrom the invaded zone, layer thickness and porosity and gas saturation coefficients. It is established that for terrigenous sections with reservoir rocks of granular type (Serpukhovian) for one field on the example of 5 wells there is a maximum direct correlation between the value of the relative diameter of the invaded zone and the thickness of the layers. The conducted researches allow making prognostic estimations concerning the approximate distributions of diameters of an invaded zone in terrigenous cuts in case of accident-free drilling with observance of technological conditions.

How Tethered Probes Report the Dynamics of a Polymer near the Glass Transition.

How tethered probes report dynamics of host polymers near the glass transition was investigated by changing the length of the flexible linkers and the number of tethering points via imaging rotational fluorescence correlation microscopy and compared with free probes of different sizes. The results show that tethering did not alter the temperature-dependence of polymer dynamics and the shape of the correlation decay reported by the probe; however, the rotation slowed down up to ≈1 decade when both ends of the probe were restricted with short alkyl chain linkers. Upon comparison with the bigger free probe, the mechanism of the slowdown was attributed to the restricted motion upon tethering for tethered probes compared to averaging over different regions of the dynamic heterogeneity for the bigger probe. If the size of the probe was comparable to that of the dynamic heterogeneity of the system, tethered probes accurately report dynamics relevant to glass transition, regardless of tethering conditions.

Dynamical assessment of fluorescent probes mobility in poplar cell walls reveals nanopores govern saccharification

BackgroundImproving lignocellulolytic enzymes’ diffusion and accessibility to their substrate in the plant cell walls is recognised as a critical issue for optimising saccharification. Although many chemical features are considered as detrimental to saccharification, enzymes’ dynamics within the cell walls remains poorly explored and understood. To address this issue, poplar fragments were submitted to hot water and ionic liquid pretreatments selected for their contrasted effects on both the structure and composition of lignocellulose. In addition to chemical composition and porosity analyses, the diffusion of polyethylene glycol probes of different sizes was measured at three different time points during the saccharification.ResultsProbes’ diffusion was mainly affected by probes size and pretreatments but only slightly by saccharification time. This means that, despite the removal of polysaccharides during saccharification, diffusion of probes was not improved since they became hindered by changes in lignin conformation, whose relative amount increased over time. Porosity measurements showed that probes’ diffusion was highly correlated with the amount of pores having a diameter at least five times the size of the probes. Testing the relationship with saccharification demonstrated that accessibility of 1.3–1.7-nm radius probes measured by FRAP on non-hydrolysed samples was highly correlated with poplar digestibility together with the measurement of initial porosity on the range 5–20 nm.ConclusionMobility measurements performed before hydrolysis can serve to explain and even predict saccharification with accuracy. The discrepancy observed between probes’ size and pores’ diameters to explain accessibility is likely due to biomass features such as lignin content and composition that prevent probes’ diffusion through non-specific interactions probably leading to pores’ entanglements.

Feasibility study for combination of field-flow fractionation (FFF)-based separation of size-coded particle probes with amplified surface enhanced Raman scattering (SERS) tagging for simultaneous detection of multiple miRNAs

We propose a new analytical scheme in which field-flow fractionation (FFF)-based separation of target-specific polystyrene (PS) particle probes of different sizes are incorporated with amplified surface-enhanced Raman scattering (SERS) tagging for the simultaneous and sensitive detection of multiple microRNAs (miRNAs). For multiplexed detection, PS particles of three different diameters (15, 10, 5 μm) were used for the size-coding, and a probe single stranded DNA (ssDNA) complementary to a target miRNA was conjugated on an intended PS particle. After binding of a target miRNA on PS probe, polyadenylation reaction was executed to generate a long tail composed of adenine (A) serving as a binding site to thymine (T) conjugated Au nanoparticles (T-AuNPs) to increase SERS intensity. The three size-coded PS probes bound with T-AuNPs were then separated in a FFF channel. With the observation of extinction-based fractograms, separation of three size-coded PS probes was clearly confirmed, thereby enabling of measuring three miRNAs simultaneously. Raman intensities of FFF fractions collected at the peak maximum of 15, 10 and 5 μm PS probes varied fairy quantitatively with the change of miRNA concentrations, and the reproducibility of measurement was acceptable. The proposed method is potentially useful for simultaneous detection of multiple miRNAs with high sensitivity.

Examining dynamics in a polymer matrix by single molecule fluorescence probes of different sizes.

Rotational motion of single fluorescence probes with different sizes doped inside films of polyvinylacetate is investigated by defocused single molecule fluorescence microscopy. Discrete vibration modes in the rotational motion of individual probes are clearly exposed in the power spectra of the rotation trajectories, reflecting multiple relaxation dynamics and also the difference in dynamics among separate locations. The power spectra show a strong dependence on the probe size and temperature. By sampling the rotation of a large number of probes, the averaged power spectra show that the activated rotation of the probes falls into the frequency range of the α-relaxation and data analysis shows that activation of the vibration modes with all probes corresponds to the maximum population of rotating probes, and this made the comparison between single molecule data and the ensemble data meaningful (differential scanning calorimetry, as an example). Such an analysis shows a coincidence between the temperature of a significant occurrence of glass transition and the activation of rotational motion of all probes with one specific size, indicating that such a dimension correlates with the size of the cooperative rearrangement region - a volume of approximately 1.0 nm(3).

Viscosity-Dependent Kinetics of Protein Conformational Exchange: Microviscosity Effects and the Need for a Small Viscogen

Conformational rearrangements are critical to a variety of biological processes including protein folding and misfolding, ligand binding, enzyme catalysis, and signal transduction. Viscosity-dependent kinetics measurements can provide crucial insights into the dynamics of protein conformational exchange by highlighting the relative importance of frictional forces derived from either solvent or from internal protein interactions in activating the exchange reaction. Here, we analyze the kinetics of interconversion between the native and intermediate states of the four helix bundle FF domain recorded in solutions containing the viscogens glycerol or bovine serum albumin (BSA), using the viscosity measured from the translational diffusion of probes of different sizes. In the large viscogen BSA, we demonstrate that vastly different internal friction values are obtained using the different viscosity measures, leading to conflicting interpretations of the role of solvent friction in the interconversion. We show that this can be a consequence of the small effective hydrodynamic radius of the protein conformational transition and differences between solution micro- and macroscopic viscosities that are germane in this case. In general, correct values of internal friction can only be obtained by carrying out measurements using small viscogens.

Calibration of electrodiffusion probes for turbulent flow measurements

Calibration of electrodiffusion (ED) probes with respect to the wall velocity gradient measurements has been experimentally studied in a fully developed turbulent channel flow over the Reynolds number range 14000–23000. In steady state conditions, direct calibration concerning the mean wall velocity gradient can be provided using simultaneous transient and steady state diffusion limiting current measurements. Indirect calibration of the ED probes regarding the turbulent fluctuation has been undertaken using a spectral analysis performed with probes of different size and geometry. This indirect calibration method has been supported using the measurements of thermo-dependence of molecular diffusivity. In this case, only one ED probe can be used for calibration. Dynamic calibration provides necessary information about critical longitudinal dimension of ED probes. When the longitudinal dimension of the probes exceeds the critical length, the probes becomes sensitive to the normal fluctuation as well. This fact has been confirmed using different orientation of the rectangular ED probe with respect to the flow direction.

Probe Mobility in Native Phosphocaseinate Suspensions and in a Concentrated Rennet Gel: Effects of Probe Flexibility and Size

Pulsed field gradient nuclear magnetic resonance and proton nuclear magnetic resonance relaxometry were used to study the self-diffusion coefficients and molecular dynamics of linear (PEGs) and spherical probes (dendrimers) in native phosphocaseinate suspensions and in a concentrated rennet gel. It was shown that both the size and the shape of the diffusing molecules and the matrix topography affected the diffusion and relaxation rates. In suspensions, both translational and rotational diffusion decreased with increasing casein concentrations due to increased restriction in the freedom of motion. Rotational diffusion was, however, less hindered than translational diffusion. After coagulation, translational diffusion increased but rotational diffusion decreased. Analysis of the T₂ relaxation times obtained for probes of different sizes distinguished the free short-chain relaxation formed from a few monomeric units from (i) the relaxation of protons attached to long polymer chains and (ii) the short-chain relaxation attached to a rigid dendrimer core.

Quantitative Studies of Antimicrobial Peptide Pore Formation in Large Unilamellar Vesicles by Fluorescence Correlation Spectroscopy (FCS)

In spite of intensive research efforts over the past decades, the mechanisms by which membrane-active antimicrobial peptides interact with phospholipid membranes are not yet fully elucidated. New tools that can be used to characterize antimicrobial peptide-lipid membrane interactions are therefore highly warranted. Fluorescence correlation spectroscopy is a biophysical technique that can be used to quantify leakage of fluorescent probes of different sizes from large unilamellar vesicle, thereby potentially becoming such a new tool. However, the usage of fluorescence correlation spectroscopy to quantify leakage from large unilamellar vesicles is associated with a number of experimental pitfalls. Based on theoretical and experimental considerations, we discuss how to properly design experiments to avoid these pitfalls. Subsequently, we apply fluorescence correlation spectroscopy to quantify leakage of fluorescent probes of different sizes through transmembrane pores formed by each of the three representative antimicrobial peptides: melittin, magainin 2, and mastoparan X. The experimental results demonstrate that leakage assays based on fluorescence correlation spectroscopy offer new and detailed insight into the size and cooperative nature of transmembrane pores formed by antimicrobial peptides that is not available from the conventional quenching-based leakage assays.

A Human Experimental Bone Pain Model

The aim of this study was to develop a human experimental bone pain model. Fourteen healthy men were included in two study sessions. Pressure pain threshold (PPT) was estimated using probes of different sizes. Computer-controlled and hand-held algometry were applied to the skin area covering right and left medial tibia before and after local anaesthesia (LA) of the skin and reproducibility was evaluated. Pain experience (McGill questionnaire) was compared between healthy volunteers and 12 patients with vertebral fractures. Computer-controlled algometer: No differences in PPT between study sessions for 6 and 8-mm probes (p=0.43 and 0.32) were seen. There was a difference in PPT before and after LA for the 6-mm probe (p=0.008), but not for the 8-mm probe (p=0.26). Hand-held algometer: A difference in PPT between study sessions was observed for 4- and 8-mm probes (p=0.03 and 0.007), but not for 2, 6 and 10-mm probes (p=0.19, 0.05 and 0.25). No differences in PPT were seen before and after LA for 2, 4, 8 and 10-mm probes (p=0.35, 0.15, 0.08 and 0.53), but LA significantly influenced PPT with the 6-mm probe (p=0.01). Similar words were chosen in the McGill pain questionnaire by healthy volunteers and patients, qualitatively describing the deep pain sensation. The pain evoked by hand-held algometer and the 2-mm probe was not influenced by LA, and PPT was reproducible between sessions and is recommended for studies of experimentally evoked bone-associated pain.

Molecular targeting of CEACAM6 using antibody probes of different sizes

Carcinocinoembryonic antigen-related cell adhesion molecule 6 (CEACAM6) is overexpressed in a number of human malignancies, especially in pancreatic cancer. It has been demonstrated that CEACAM6 is a potential target for monoclonal antibody (mAb) therapy with a safe therapeutic index. Here, we labeled three anti-CEACAM6 antibodies of different sizes, including a single-domain antibody 2A3 (16kDa), a heavy chain antibody 2A3-mFc (80kDa) and a full length antibody 9A6 (150kDa), with 64Cu to image CEACAM6 expression in a xenografted pancreatic tumor model. For positron emission tomography (PET) imaging, the tumor mice were intravenously injected with 64Cu-DOTA-antibodies and static scans were obtained at 5min, 0.5, 1, 2, 4, 8 and 24h post-injection (p.i.). All three antibodies showed strong CEACAM6 binding. Ex vivo immunostaining on tumor sections at 24h after Ab injection demonstrated specific tumor targeting of both 2A3-mFc and 9A6. 64Cu-DOTA-2A3 showed fast BxPC3 tumor uptake and rapid whole-body clearance. At 24h p.i., the tumor uptakes were 98.2±6.12%ID/g for 64Cu-DOTA-2A3-mFc and 57.8±3.73%ID/g for 64Cu-DOTA-9A6, respectively. Compared with the full length antibody 9A6, the heavy chain antibody 2A3-mFc showed higher tumor uptake, lower liver uptake and shorter circulation half-life. All the data supported that the heavy chain antibody 2A3-mFc is superior to the single domain antibody and the full-length antibody with regard to tumor detection and pharmacokinetics, which has great potential to be developed for CEACAM6-targeted pancreatic cancer imaging and therapy.

Nitrogen nuclear spin flips in nitroxide spin probes of different sizes in glassy o-terphenyl: Possible relation with α- and β-relaxations

The pulsed electron-electron double resonance (ELDOR) technique was employed to study nitroxide spin probes of three different sizes dissolved in glassy o-terphenyl. A microwave pulse applied to the central hyperfine structure (hfs) component of the nitroxide electron paramagnetic resonance spectrum was followed by two echo-detecting pulses of different microwave frequency to probe the magnetization transfer (MT) to the low-field hfs component. The MT between hfs components is readily related to flips in the nitrogen nuclear spin, which in turn are induced by molecular motion. The MT on the time scale of tens of microseconds was observed over a wide temperature range, including temperatures near and well below the glass transition. For a bulky nitroxide, it was found that MT rates approach dielectric α (primary) relaxation frequencies reported for o-terphenyl in the literature. For small nitroxides, MT rates were found to match the frequencies of dielectric β (secondary) Johari-Goldstein relaxation. The most probable motional mechanism inducing the nitrogen nuclear spin flips is large-angle angular jumps, between some orientations of unequal occupation probabilities. The pulsed ELDOR of nitroxide spin probes may provide additional insight into the nature of Johari-Goldstein relaxation in glassy media and may serve as a tool for studying this relaxation in substances consisting of non-rigid molecules (such as branched polymers) and in heterogeneous and non-polar systems (such as a core of biological membranes).

Comparative Analysis of Viscosity of Complex Liquids and Cytoplasm of Mammalian Cells at the Nanoscale

We present a scaling formula for size-dependent viscosity coefficients for proteins, polymers, and fluorescent dyes diffusing in complex liquids. The formula was used to analyze the mobilities of probes of different sizes in HeLa and Swiss 3T3 mammalian cells. This analysis unveils in the cytoplasm two length scales: (i) the correlation length ξ (approximately 5 nm in HeLa and 7 nm in Swiss 3T3 cells) and (ii) the limiting length scale that marks the crossover between nano- and macroscale viscosity (approximately 86 nm in HeLa and 30 nm in Swiss 3T3 cells). During motion, probes smaller than ξ experienced matrix viscosity: η(matrix) ≈ 2.0 mPa·s for HeLa and 0.88 mPa·s for Swiss 3T3 cells. Probes much larger than the limiting length scale experienced macroscopic viscosity, η(macro) ≈ 4.4 × 10(-2) and 2.4 × 10(-2) Pa·s for HeLa and Swiss 3T3 cells, respectively. Our results are persistent for the lengths scales from 0.14 nm to a few hundred nanometers.