Effects of pH and free Mg2+ on the Keq of the creatine kinase reaction and other phosphate hydrolyses and phosphate transfer reactions.
J. Lawson, R. Veech
The observed equilibrium constants (Kobs) of the creatine kinase (EC 2.7.3.2), myokinase (EC 2.7.4.3), glucose-6-phosphatase (EC 3.1.3.9), and fructose-1,6-diphosphatase (EC 3.1.3.11) reactions have been determined at 38 degrees C, pH 7.0, ionic strength 0.25, and varying free magnesium concentrations. The equilibrium constant (KCK) for the creatine kinase reaction defined as: KCK = [sigma ATP] [sigma creatine] divided by ([sigma ADP] [sigma creatine-P] [H+]) was measured at 0.25 ionic strength and 38 degrees C and was shown to vary with free [Mg2+]. The value was found to be 3.78 x 10(8) M-1 at free [Mg2+] = 0 and 1.66 x 10(9) M-1 at free [Mg2+] = 10(-3) M. Therefore, at pH 7.0, the value of Kobs, defined as Kobs = KCK[H+] = [sigma ATP] [sigma creatine] divided by ([sigma ADP] [sigma creatine-P] was 37.8 at free [Mg2+] = 0 and 166 at free [Mg2+] = 10(-3) M. The Kobs value for the myokinase reaction, 2 sigma ADP equilibrium sigma AMP + sigma ATP, was found to vary with free [Mg2+], being 0.391 at free [Mg2+] = 0 and 1.05 at free [Mg2+] = 10(-3) M. Taking the standard state of water to have activity equal to 1, the Kobs of glucose-6-P hydrolysis, sigma glucose-6-P + H2O equilibrium sigma glucose + sigma Pi, was found not to vary with free [Mg2+], being 110 M at both free [Mg2+] = 0 and free [Mg2+] = 10(-3) M. The Kobs of fructose-1,6-P2 hydrolysis, sigma fructose-1,6-P2 equilibrium sigma fructose-6-P + sigma Pi, was found to vary with free [Mg2+], being 272 M at free [Mg2+] = 0 and 174 M at free [Mg2+] = 0.89 x 10(-3) M.
576 sitasi
en
Chemistry, Medicine
Stress and Fracture Analysis of a Gravitating Cantilever Beam
Vadapalli Surya Prasanth, Arun K. Singh
This research article presents stress distribution and fracture analysis of a cantilever beam considering both continuum and lumped distribution of gravity force. Airy stress function is used to derive two-dimensional stress distribution using power series and boundary conditions. It is concluded that bending stress is the most dominant over other two stresses. However, variation of vertical normal stress does not match between the two systems owing to change in load distribution. Moreover, an expression for energy release rate is also derived by assuming that a crack is present at the top of fixed end of beam and propagates vertically down to result in catastrophic failure. Finally, these results are validated with finite element simulations as well.
en
physics.app-ph, physics.geo-ph
Parallel Modeling of the Acoustic Signal Propagation in a Cased Well
Vladimir Cheverda, Galina Reshetova, Artem Kabannik
et al.
A numerical method is proposed for carrying out a full-scale simulation of the process of propagation of an acoustic signal in a cased well. The main goal is to study the interaction of the wave field with the vertical boundary of the cement filling the annular and near-pipe space. Particular attention is paid to the analysis of the intensity of the wave reflected from this boundary, depending on the degree of hardening of the upper edge of the cement. A distinctive feature of the problem is the presence in it of several significantly different spatial scales. So, the length of the well can vary from several hundred meters to several kilometers, the diameter of the well is a few tens of centimeters, and the thickness of the casing string, as a rule, does not exceed a few first centimeters. It is this diversity of scale that requires the organization of parallel computing, the organization of which is based on the spatial decomposition of the region and the involvement of Message Passing Interface (MPI). The results of test calculations are presented and an analysis of the strong and weak scalability of the developed software is carried out.
en
physics.geo-ph, physics.comp-ph
Multi-porous extension of anisotropic poroelasticity: consolidation and related coefficients
Filip P. Adamus, David Healy, Philip G. Meredith
et al.
We propose the generalisation of the anisotropic poroelasticity theory. At a large scale, a medium is viewed as quasi-static, which is the original assumption of Biot. At a smaller scale, we distinguish different porosity clusters (sets of pores or fractures) that are characterized by various fluid pressures, which is the original poroelastic extension of Aifantis. In consequence, both instantaneous and time-dependent deformation lead to fluid content variations that are different in each cluster. We present the equations for such phenomena, where the anisotropic properties of both the solid matrix and pore sets are assumed. Novel poroelastic coefficients that relate solid and fluid phases in our extension are proposed, and their physical meaning is determined. To demonstrate the utility of our equations and emphasize the meaning of new coefficients, we perform numerical simulations of a triple-porosity consolidation. These simulations reveal positive pore pressure transients in the drained behaviour of weakly connected pore sets, and these may result in mechanical weakening of the material.
en
physics.geo-ph, physics.app-ph
Long-range fiber-optic earthquake sensing by active phase noise cancellation
Sebastian Noe, Dominik Husmann, Nils Müller
et al.
We present a long-range fiber-optic environmental deformation sensor based on active phase noise cancellation (PNC) in metrological frequency dissemination. PNC sensing exploits recordings of a compensation frequency that is commonly discarded. Without the need for dedicated measurement devices, it operates synchronously with metrological services, suggesting that existing phase-stabilized metrological networks can be co-used effortlessly as environmental sensors. The compatibility of PNC sensing with inline amplification enables the interrogation of cables with lengths beyond 1000 km, making it a potential contributor to earthquake detection and early warning in the oceans. Using spectral-element wavefield simulations that accurately account for complex cable geometry, we compare observed and computed recordings of the compensation frequency for a magnitude 3.9 earthquake in south-eastern France and a 123 km fiber link between Bern and Basel, Switzerland. The match in both phase and amplitude indicates that PNC sensing can be used quantitatively, for example, in earthquake detection and characterization.
en
physics.geo-ph, physics.comp-ph
pH changes in dental tissues after root canal filling with calcium hydroxide.
L. Tronstad, J. Andreasen, G. Hasselgren
et al.
563 sitasi
en
Materials Science, Medicine
Weak bases and ionophores rapidly and reversibly raise the pH of endocytic vesicles in cultured mouse fibroblasts
F. Maxfield
It has been shown that endocytic vesicles in BALB/c 3T3 cells have a pH of 5.0 (Tycko and Maxfield, Cell, 28:643-651). In this paper, a method for measuring the effect of various agents, including weak bases and ionophores, on the pH of endocytic vesicles is presented. The method is based on the increase in fluorescein fluorescence with 490-nm excitation as the pH is raised above 5.0. Intensities of cells were measured using a microscope spectrofluorometer after internalization of fluorescein-labeled alpha 2-macroglobulin by receptor-mediated endocytosis. The increase in endocytic vesicle pH was determined from the increase in fluorescence after addition of various concentrations of the test agents. The following agents increased endocytic vesicle pH above 6.0 at the indicated concentrations: monensin (6 microM), FCCP (10 microM), chloroquine (140 microM), ammonia (5 mM), methylamine (10 mM). The ability of many of these agents to raise endocytic vesicle pH may account for many of their effects on receptor-mediated endocytosis. Dansylcadaverine caused no effect on vesicle pH at 1 mM. The observed increases in vesicle pH were rapid (1-2 min) and could be reversed by removal of the perturbant. This reversibility indicates that the vesicles themselves contain a mechanism for acidification. The increase in vesicle pH due to these treatments can be observed visually using an SIT video camera. Using this method, it is shown that endocytic vesicles become acidic at very early times (i.e., within 5-7 min of continuous uptake at 37 degrees C).
538 sitasi
en
Biology, Medicine
Megaripple mechanics: bimodal transport ingrained in bimodal sands
Katharina Tholen, Thomas Pähtz, Hezi Yizhaq
et al.
Aeolian sand transport is a major process shaping landscapes on Earth and on diverse celestial bodies. Conditions favoring bimodal sand transport, with fine-grain saltation driving coarse-grain reptation, give rise to the evolution of megaripples with a characteristic bimodal sand composition. Here, we derive a unified phase diagram for this special aeolian process and the ensuing nonequilibrium megaripple morphodynamics by means of a conceptually simple quantitative model, grounded in the grain-scale physics. We establish a well-preserved quantitative signature of bimodal aeolian transport in the otherwise highly variable grain size distributions, namely, the log-scale width (Krumbein phi scale) of their coarse-grain peaks. A comprehensive collection of terrestrial and extraterrestrial data, covering a wide range of geographical sources and environmental conditions, supports the accuracy and robustness of this unexpected theoretical finding. It could help to resolve ambiguities in the classification of terrestrial and extraterrestrial sedimentary bedforms.
en
physics.geo-ph, cond-mat.soft
The symptom index: a clinically important parameter of ambulatory 24-hour esophageal pH monitoring.
G. Wiener, J. Richter, J. Copper
et al.
Effect of block medium parameters on energy dissipation
K. X. Wang, N. I. Aleksandrova, Y. S. Pan
et al.
This paper describes energy distribution in a block medium simulated by a one-dimensional chain of masses joined by springs and dampers. Equations describing the motion of masses are solved by the methods of the theory of ordinary differential equations. The effect of the block medium parameters on energy dissipation is investigated. An approximate analytical solution is obtained that describes the total energy of a block medium at large values of time.
en
physics.class-ph, physics.geo-ph
Analyzing Koopman approaches to physics-informed machine learning for long-term sea-surface temperature forecasting
Julian Rice, Wenwei Xu, Andrew August
Accurately predicting sea-surface temperature weeks to months into the future is an important step toward long term weather forecasting. Standard atmosphere-ocean coupled numerical models provide accurate sea-surface forecasts on the scale of a few days to a few weeks, but many important weather systems require greater foresight. In this paper we propose machine-learning approaches sea-surface temperature forecasting that are accurate on the scale of dozens of weeks. Our approach is based in Koopman operator theory, a useful tool for dynamical systems modelling. With this approach, we predict sea surface temperature in the Gulf of Mexico up to 180 days into the future based on a present image of thermal conditions and three years of historical training data. We evaluate the combination of a basic Koopman method with a convolutional autoencoder, and a newly proposed "consistent Koopman" method, in various permutations. We show that the Koopman approach consistently outperforms baselines, and we discuss the utility of our additional assumptions and methods in this sea-surface temperature domain.
Equilibrium swelling behavior of pH-sensitive hydrogels
L. Brannon-Peppas, N. Peppas
Soil Redox and pH Effects on Methane Production in a Flooded Rice Soil
Z. Wang, R. Delaune, W. H. Patrick
et al.
Superabundance of Exoplanet Sub-Neptunes Explained by Fugacity Crisis
Edwin S. Kite, Bruce Fegley, Laura Schaefer
et al.
Transiting planets with radii 2-3 $R_\bigoplus$ are much more numerous than larger planets. We propose that this drop-off is so abrupt because at $R$ $\sim$ 3 $R_\bigoplus$, base-of-atmosphere pressure is high enough for the atmosphere to readily dissolve into magma, and this sequestration acts as a strong brake on further growth. The viability of this idea is demonstrated using a simple model. Our results support extensive magma-atmosphere equilibration on sub-Neptunes, with numerous implications for sub-Neptune formation and atmospheric chemistry.
en
astro-ph.EP, physics.geo-ph
Improvement of accuracy of the spectral element method for elastic wave computation using modified numerical integration operators
Kei Hasegawa, Nobuaki Fuji, Kensuke Konishi
We introduce new numerical integration operators which compose the mass and stiffness matrices of a modified spectral element method for simulation of elastic wave propagation. While these operators use the same quadrature nodes as does the original spectral element method, they are designed in order that their harmonic responses have errors of the same ratio, and that the respective dispersion errors of the mass and stiffness matrices cancel each other. As a result, the modified spectral element method yields two extra-orders of accuracy, and is comparable to the original method of one order higher. The theoretical results are confirmed by numerical dispersion analysis and examples of computation of waveforms using our operators. Replacing the ordinary operators by those proposed in this study could be a non-expensive solution to improve the accuracy.
en
physics.comp-ph, physics.geo-ph
Solitonic State in Microscopic Dynamic Failures
H. O. Ghaffari, M. Pec, W. A. Griffith
Onset of permanent deformation in crystalline materials under a sharp indenter tip is accompanied by nucleation and propagation of defects. By measuring the spatio-temporal strain field nearthe indenter tip during indentation tests, we demonstrate that the dynamic strain history at the moment of a displacement burst carries characteristics of formation and interaction of local excitations, or solitons. We show that dynamic propagation of multiple solitons is followed by a short time interval where the propagating fronts can accelerate suddenly. As a result of such abrupt local accelerations, duration of the fast-slip phase of a failure event is shortened. Our results show that formation and annihilation of solitons mediate the microscopic fast weakening phase, during which extreme acceleration and collision of solitons lead to non-Newtonian behavior and Lorentz contraction, i.e., shortening of solitons characteristic length. The results open new horizons for understanding dynamic material response during failure and, more generally, complexity of earthquake sources.
en
physics.geo-ph, cond-mat.mtrl-sci
Polymeric micellar pH-sensitive drug delivery system for doxorubicin.
M. Hrubý, Č. Koňák, K. Ulbrich
368 sitasi
en
Chemistry, Medicine
Diel, episodic and seasonal changes in pH and concentrations of inorganic carbon in a productive lake
S. Maberly
Effects of ionic strength, temperature, and pH on degradation of selected antibiotics.
K. Loftin, C. Adams, M. Meyer
et al.
300 sitasi
en
Chemistry, Medicine
Effect of Solvent and pH on the Structure of PAMAM Dendrimers
P. Maiti, T. Çagin, Shiang‐Tai Lin
et al.