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At least 109 records · Page 6

Amylases in the Human Vagina

ABSTRACT Dominance of Lactobacillus species in vaginal communities is a hallmark of healthy conditions in the female genital tract. Key nutrients for lactobacilli include sugars produced when glycogen is degraded by α-amylase in the vagina. While α-amylase activity has been demonstrated in vaginal fluids, it is unclear whether α-amylases are produced solely by the host, bacteria in the vagina, or both. We screened cervicovaginal mucus from 23 reproductive-age women, characterized the species composition of vaginal communities, measured vaginal pH, and determined levels of amylase activity, glycogen, and lactic acid. Based on differences in these measured variables, one sample from each of four individual donors was selected for metagenomic and proteomic analyses. Of eight putative bacterial amylases identified in the assembled bacterial metagenomes, we detected four in vaginal fluids. These amylases were produced by various bacteria in different vaginal communities. Moreover, no two communities were the same in terms of which bacteria were producing amylases. Although we detected bacterial amylases in vaginal fluids, there was no clear association between the bacterial species that was dominant in a community and the level of amylase activity. This association was likely masked by the presence of human α-amylase, which was also detected in vaginal fluids. Finally, the levels of amylase activity and glycogen were only weakly associated. Our findings show, for the first time, that multiple amylases from both bacterial and human origins can be present simultaneously in the vagina. This work also suggests that the link between glycogen, amylase, and Lactobacillus in the vagina is complex. IMPORTANCE In this study, we show that multiple bacteria in the vaginal community produce amylases that hydrolyze glycogen into simpler sugars (i.e., maltose and maltotriose). These sugars serve as “common goods” that sustain bacterial populations in vaginal communities. Given the temporal changes that are observed in the human vaginal microbiome, we expect the kinds of bacterial amylases produced will also vary over time. These differences influence the pool of resources that are broadly shared and shape the species composition of the vaginal bacterial community.

59 BASIC BIOLOGICAL SCIENCES↗

Large-scale proteomic analysis of Alzheimer’s disease brain and cerebrospinal fluid reveals early changes in energy metabolism associated with microglia and astrocyte activation

Our understanding of Alzheimer’s disease (AD) pathophysiology remains incomplete. Here, for this work, we used quantitative mass spectrometry and coexpression network analysis to conduct the largest proteomic study thus far on AD. A protein network module linked to sugar metabolism emerged as one of the modules most significantly associated with AD pathology and cognitive impairment. This module was enriched in AD genetic risk factors and in microglia and astrocyte protein markers associated with an anti-inflammatory state, suggesting that the biological functions it represents serve a protective role in AD. Proteins from this module were elevated in cerebrospinal fluid in early stages of the disease. In this study of >2,000 brains and nearly 400 cerebrospinal fluid samples by quantitative proteomics, we identify proteins and biological processes in AD brains that may serve as therapeutic targets and fluid biomarkers for the disease.

60 APPLIED LIFE SCIENCES↗

Flow battery flow field having volume that is function of power parameter, time parameter and concentration parameter

A flow battery includes a cell that has first and second flow fields spaced apart from each other and an electrolyte separator layer. A supply/storage system is external of the cell and includes first and second vessels fluidly connected with the first and second flow fields, and first and second pumps configured to selectively move first and second fluid electrolytes between the vessels and the first and second flow fields. The flow fields each have an electrochemically active zone that is configured to receive flow of the fluid electrolytes. The electrochemically active zone has a total open volume that is a function of at least one of a power parameter of the flow battery, a time parameter of the pumps and a concentration parameter of the fluid electrolytes.

Smeltz, Andrew↗

A Higher Order, Stable Partitioned Scheme for Fluid-Structure Interaction Problems

Although still a very active area of research with many open questions, there exist highly-accurate and efficient algorithms for numerically estimating solutions to the equations of fluid motion. Similarly, great strides have been made in numerically modeling the motion of solids. However, there exist many practical applications where one must solve both fluid and structure in tandem. There is a gap in the literature for high order unconditionally stable partitioned algorithms for problems of this type. We investigate a new partitioned scheme which shows promise in filling this gap. We use a finite-element-based model with an added mass approach on problems coupling the Euler beam equation with the incompressible Navier-Stokes equations.

97 MATHEMATICS AND COMPUTING↗

ENVIRONMENTAL DEGRADATION OF HARD AND SOFT MAGNETIC MATERIALS IN GASEOUS AND SUPERCRITICAL CO2 ENVIRONMENTS

It may be beneficial to use hermetic designs for supercritical CO2 (sCO2) cycles machinery as they would eliminate CO2 leakage through shaft end seals. This would reduce CO2 emissions and operating costs for makeup of lost process fluid. Those designs may replace traditional oil-lubricated bearings with actively controlled magnetic bearings operating at high temperatures in the process fluid environment (to reduce the need for active cooling). This paper investigates the material degradation of various types of magnets in CO2. Included are several permanent and soft magnetic materials (Alnico 9C, Alnico 5-7C, and 18-T550 grade SmCo, and Hiperco 50) with or without coatings (nickel plating or C5 coating). The materials were exposed to: (1) flowing gaseous CO2 at 1,022 °F (550 °C) and atmospheric pressure in a furnace and (2) sCO2 at 842 °F (450 °C) and 1,500 psi (103 bar) in an autoclave. The preliminary mass change measured after total exposures of 1,000 hours and 2,000 hours are included.

supercritical CO2, magnetic material↗

Effect of Computational Schemes on Coupled Flow and Geo-Mechanical Modeling of CO 2 Leakage through a Compromised Well

Carbon capture, utilization, and storage (CCUS) describes a set of technically viable processes to separate carbon dioxide (CO 2 ) from industrial byproduct streams and inject it into deep geologic formations for long-term storage. Legacy wells located within the spatial domain of new injection and production activities represent potential pathways for fluids (i.e., CO 2 and aqueous phase) to leak through compromised components (e.g., through fractures or micro-annulus pathways). The finite element (FE) method is a well-established numerical approach to simulate the coupling between multi-phase fluid flow and solid phase deformation interactions that occur in a compromised well system. We assumed the spatial domain consists of a three-phases system: a solid, liquid, and gas phase. For flow in the two fluids phases, we considered two sets of primary variables: the first considering capillary pressure and gas pressure (PP) scheme, and the second considering liquid pressure and gas saturation (PS) scheme. Fluid phases were coupled with the solid phase using the full coupling (i.e., monolithic coupling) and iterative coupling (i.e., sequential coupling) approaches. The challenge of achieving numerical stability in the coupled formulation in heterogeneous media was addressed using the mass lumping and the upwinding techniques. Numerical results were compared with three benchmark problems to assess the performance of coupled FE solutions: 1D Terzaghi’s consolidation, Liakopoulos experiments, and the Kueper and Frind experiments. We found good agreement between our results and the three benchmark problems. For the Kueper and Frind test, the PP scheme successfully captured the observed experimental response of the non-aqueous phase infiltration, in contrast to the PS scheme. These exercises demonstrate the importance of fluid phase primary variable selection for heterogeneous porous media. We then applied the developed model to the hypothetical case of leakage along a compromised well representing a heterogeneous media. Considering the mass lumping and the upwinding techniques, both the monotonic and the sequential coupling provided identical results, but mass lumping was needed to avoid numerical instabilities in the sequential coupling. Additionally, in the monolithic coupling, the magnitude of primary variables in the coupled solution without mass lumping and the upwinding is higher, which is essential for the risk-based analyses.

deformation flow↗

Geochemical, Biological, and Clumped Isotopologue Evidence for Substantial Microbial Methane Production Under Carbon Limitation in Serpentinites of the Samail Ophiolite, Oman

In hyperalkaline (pH > 10) fluids that have participated in low-temperature (<150°C) serpentinization reactions, the dominant form of C is often methane (CH 4 ), but the origin of this CH 4 is uncertain. To assess CH 4 origin in serpentinite aquifers within the Samail Ophiolite, Oman, we determined fluid chemical compositions, analyzed taxonomic profiles of fluid-hosted microbial communities, and measured isotopic compositions of hydrocarbon gases. We found that 16S rRNA gene sequences affiliated with methanogens were widespread in the aquifer. We measured clumped isotopologue ( 13 CH 3 D and 12 CH 2 D 2 ) relative abundances less than equilibrium, consistent with substantial microbial CH 4 production. Furthermore, we observed an inverse relationship between dissolved inorganic C concentrations and δ 13 C CH 4 across fluids bearing microbiological evidence of methanogenic activity, suggesting that the apparent C isotope effect of microbial methanogenesis is modulated by C availability. An additional source of CH 4 is evidenced by the presence of CH 4 -bearing fluid inclusions in the Samail Ophiolite and our measurement of high δ 13 C values of ethane and propane, which are similar to those reported in studies of CH 4 -rich inclusions in rocks from the oceanic lithosphere. In addition, we observed 16S rRNA gene sequences affiliated with aerobic methanotrophs and, in lower abundance, anaerobic methanotrophs, indicating that microbial consumption of CH 4 in the ophiolite may further enrich CH 4 in 13 C. We conclude that substantial microbial CH 4 is produced under varying degrees of C limitation and mixes with abiotic CH 4 released from fluid inclusions. This study lends insight into the functioning of microbial ecosystems supported by water/rock reactions.

58 GEOSCIENCES↗

Exploring Whether Subsurface Fluid Production Can Minimize Triggered Seismicity in Geothermal Fields

Fluid injection and production related to energy recovery and other industrial operations alter the pressure and stress state of subsurface reservoirs which can lead to induced seismicity. Here, the primary goal is to investigate the hypothesis that the modulation of stress state in subsurface reservoirs through fluid injection/production operations can reduce the likelihood of inducing seismicity. Validation of this mitigation strategy will provide an active operational method to control induced seismicity in subsurface reservoir exploitations such as geothermal energy recovery and carbon storage. In this project, we analyze the relationship between extensive fluid production and the paucity of aftershock activity at the Coso Geothermal plant (CGP) following the 2019 Ridgecrest earthquake sequence, where high rates of aftershock triggering were expected. We developed a high-fidelity multiphase coupled thermo-hydro-mechanical (THM) model to simulate fluid injection/production activities at the CGP between 1986 and 2020. THM results of surface subsidence due to high rates of fluid production agree well with field observations from global positioning system (GPS) and interferometric synthetic aperture radar (InSAR). Subsequently, the variations of pore pressure, temperature and stress state were used to drive numerical earthquake simulations of the aftershock response to the 2019 Ridgecrest earthquakes. The earthquake simulations show that seismic quiescence may occur following the Ridgecrest event, depending on the initial stress state at the time of the mainshock and at the initiation of geothermal energy production. Seismic quiescence occurs in 20% of the cases we explored, where rates are decreased by 50% of the background rate in the two years following the mainshock. In circumstances where aftershock rates increase near the CGP following Ridgecrest, the average rate change is a factor of two larger than background rates from simulations with no operations. These findings indicate that unlike many other operations that bring faults closer to failure, operations at the CGP are acting to stabilize faults such that triggering in the current stress state is minimal.

58 GEOSCIENCES↗

Phase Diagram of Active Brownian Spheres: Crystallization and the Metastability of Motility-Induced Phase Separation

Motility-induced phase separation (MIPS), the phenomenon in which purely repulsive active particles undergo a liquid-gas phase separation, is among the simplest and most widely studied examples of a nonequilibrium phase transition. Here, we show that states of MIPS coexistence are in fact only metastable for three-dimensional active Brownian particles over a very broad range of conditions, decaying at long times through an ordering transition we call active crystallization. At an activity just above the MIPS critical point, the liquid-gas binodal is superseded by the crystal-fluid coexistence curve, with solid, liquid, and gas all coexisting at the triple point where the two curves intersect. Nucleating an active crystal from a disordered fluid, however, requires a rare fluctuation that exhibits the nearly close-packed density of the solid phase. The corresponding barrier to crystallization is surmountable on a feasible timescale only at high activity, and only at fluid densities near maximal packing. The glassiness expected for such dense liquids at equilibrium is strongly mitigated by active forces, so that the lifetime of liquid-gas coexistence declines steadily with increasing activity, manifesting in simulations as a facile spontaneous crystallization at incredibly high activity.

36 MATERIALS SCIENCE↗

Real-time gross actinide monitoring in extreme (10 6 :1) beta-gamma background fluid streams using mini-ATMFDs

Real-time, trace alpha activity monitoring in extreme mixed radiation fields is a well-known challenge in fission product-rich streams containing mixtures of beta-gamma-alpha radiation-emitting isotopes, arising due to the extreme 10 6 :1 ratio of background beta-gamma vs. alpha radiation activity levels. This paper presents results from a novel approach to addressing this challenge, based on Tensioned Metastable Fluid Detector (TMFD) sensing technology. An acoustically driven technique was developed and tested at Purdue University (using dissolved Rn-Po and U-chain alpha emitters), and validated (with dissolved Pu) at Savannah River National Laboratory for real-time monitoring of alpha activity in the 100–10,000 dpm/mL range.

Environmental Monitoring↗

Induced microseismicity and tremor signatures illuminate different slip behaviours in a natural shale fault reactivated by a fluid pressure stimulation (Mont Terri)

SUMMARY Fault slip induced by fluid perturbation in shale formations may only lead to a sparse seismicity. However, fault slip may strongly impact the integrity of shale formations that serve as caprocks for geological reservoirs holding buoyant fluids such as CO2, natural gas or hydrogen. A better understanding of the fluid reactivation processes of fault and the seismic triggering process is therefore critical for reservoir monitoring and fault stability. Here we analyse the seismic responses of a shale fault exposed to fluid pressurization during an in situ field-scale injection experiment at ∼340 m depth in the Mont Terri underground research laboratory (Switzerland). Two main types of seismic signals are observed as the fault was activated and started to slowly slip. After an aseismic phase, we observed tremor signatures and an increase in noise amplitude, which were directly associated with the slowly propagating fault slip in response to fluid injection. These signatures were later followed by micro-earthquakes that seem to occur further away from the fluid-pressurized area. We interpret these micro-earthquakes to be triggered by stress perturbations from the main slip growth. These two classes of seismic responses therefore highlight two different processes. Tremors seem to be a more direct observation for the fluid-induced slip propagation than micro-earthquakes. Even hidden in the noise, they precede earthquake failures, thus providing a useful tool for monitoring fluid leakage activated by slow deformation on low permeable shale faults, with applications for sealing integrity of caprocks.

De Barros, Louis (ORCID:0000000255419162)↗

Utah FORGE: Fault Reactivation Through Fluid Injection Induced Seismicity Laboratory Experiments

Included are results from shear reactivation experiments on laboratory faults pre-loaded close to failure and reactivated by the injection of fluid into the fault. The sample comprises a single-inclined-fracture (SIF) transecting a cylindrical sample of Westerly granite. All experiments are conducted at ambient temperature and follow a similar protocol: (i) application of confining stresses (3MPa) on the fault fully saturated with DI water, (ii) shear-mobilization through the increase of axial loading at a constant displacement rate until a post-peak steady-state condition is reached, (iii) reduction of axial loading and related shear stress to a prescribed fraction of the peak steady-state frictional strength (typically 60% to 90%, representing intermediate to high magnitudes) and (iv), fault reactivation triggered by a stepwise increase of pore pressure on the fault in 0.1 MPa increments held constant for 1-5 minutes. Mechanical data from three ISCO pumps connected to a Temco pressure vessel measure axial, confining, and fault-related parameters, including fluid pressure (kPa), fluid flow rate (mL/min), and axial displacement (mm). See included code for initial data analysis and visualization for select experiments. Resource names represent experiment numbers found in the "Read Me" file, which describes each experimental setup and parameters.

15 GEOTHERMAL ENERGY↗

Testing the efficacy of active pressure management as a tool to mitigate induced seismicity

Manipulation of subsurface stresses through fluid injection/extraction may induce seismicity through modulation of overpressure along faults. Globally, most industrial operations do not induce significant earthquakes. However, the possibility of inducing moderate to large earthquakes is recognized as a significant risk for basin-scale carbon dioxide (CO 2 ) storage operations (Niass et al., 2017). One possible method to reduce the occurrence of induced seismicity is to maintain only small (or zero) fluid overpressure changes in the subsurface through extraction of formation brine. For active pressure management (APM), operators may employ different procedures including extraction of various brine volumes and different configurations of injection/extraction well locations. However, the impact each these operational procedures on induced seismicity must be understood in order to develop management strategies. Here, we describe a numerical modeling workflow to evaluate the efficacy of APM techniques, that when applied to a specific site may be used to inform operational management strategies. We couple the multiphase reservoir model, NUFT, with the earthquake simulator, RSQSim and simulate seismicity induced by CO 2 injection into a hypothetical brine saturated reservoir. Reservoir overpressure is modified by co-extraction of brine at various fractions of the injected CO 2 volume from five potential wells. Our goal is to understand how the well-pair configuration and the extracted brine volume impact the total number and the maximum event magnitude. Additionally, the performance of each scenario is also evaluated in terms of the volume of CO 2 that can be stored before an earthquake above a tolerance threshold is induced.

58 GEOSCIENCES↗

Direct Measurement of Cl − Activity in Metal Chloride Molten Salts using a Cl 2 /Cl − Electrode

Molten metal chloride salts are promising candidates for advanced heat transfer fluids in generation IV nuclear reactors and beyond. The activity of the chloride ion in the salt has a large influence on the redox characteristics of the corresponding molten salt. There exists a knowledge gap for the direct measurement of chlorobasicity (Lewis basicity) in molten-salt mixtures. Here, the focus of this work was to develop a Cl 2 /Cl − electrode for the direct measurement of chloride activity in molten metal-chloride salt mixtures. The LiCl–KCl eutectic system was utilized as the reference melt to determine the change in chloride ion activity as increasing concentrations of MgCl 2 are added to the LiCl–KCl eutectic working electrode. The results of the measurements indicated a reduction in chloride ion activity as the concentration of magnesium chloride increased, consistent with the complexation of free chlorides by Lewis acidic magnesium cationic species. The Temkin model was used to estimate the thermodynamic properties of MgCl 4 2− complex.

Chloride↗

Pulsed Electrical Stimulation Enhances Body Fluid Transport for Collagen Biomineralization

Mechanical loads from physiologic activities such as walking and running generate bioelectricity in bones. By mimicking bioelectricity, external electrical stimulations have also been used therapeutically to stimulate bone-forming cells and, thus, to promote bone regeneration. However, little is known about the physicochemical mechanism(s) by which electrical stimulations drives calcium phosphate mineralization of collagen. Here, we showed that, during in vitro collagen mineralization in the absence of cells, application of pulsed electrical stimulation significantly enhanced the transport of ionic body fluid components through a micrometer-scale channel (~100–200 μm gap space between the inner surfaces of tube-like collagen scaffolds and a cathode placed inside the collagen scaffolds). The enhanced transport of ionic precursors increased diffusion of the charged precursors from the channel to the inner collagen surface, where bone mineralization was otherwise restricted. The results indicate that pulsed electrical signals can locally accelerate the nucleation of calcium phosphate nanocrystals in or on collagen, allowing us to better control the spatial distribution of the nanocrystals at the microscale. Finally, the findings from this study provide insights into the utilization of electrical stimulation for applications such as facilitating bone-fracture healing and designing better bone-specific biomaterials.

59 BASIC BIOLOGICAL SCIENCES↗

Modeling active nematics via the nematic locking principle

Active nematic systems consist of rod-like internally driven subunits that interact with one another to form large-scale coherent flows. They are important examples of far-from-equilibrium fluids, which exhibit a wealth of nonlinear behavior. This includes active turbulence, in which topological defects in the nematic order braid around one another in a chaotic fashion. One of the most studied examples of active nematics consists of a dense two-dimensional layer of microtubules, crosslinked by kinesin molecular motors that inject extensile deformations into the fluid. Though numerous theoretical studies have modeled microtubule-based active nematics, no consensus has emerged on how to fully and quantitatively capture the features of the experimental system. Here, to better understand the theoretical foundations for modeling this system, we propose a fundamental principle we call the nematic locking principle—individual microtubules cannot rotate without all neighboring microtubules also rotating. Physically, this is justified by the high density of the microtubules, their elongated nature, and their corresponding steric interactions. We assert that the nematic locking principle holds throughout the majority of the material, but breaks down in the neighborhood of topological defects and other regions of low density. We derive the most general nematic transport equation consistent with this principle and also derive the most general term that violates it, introducing fracturing into the material. We then examine the standard Beris–Edwards approach, commonly used to model this system, and show that it violates the nematic locking principle throughout the majority of the material due to fracturing. We then propose a modification to the Beris–Edwards model that enforces nematic locking nearly everywhere. This modification shuts off fracturing except in regions where the order parameter (a proxy for density) is reduced. In these regions fracturing is turned on. The resulting simulations in turn show strong nematic locking throughout the bulk of the material, with narrow bands of fracturing, consistent with experimental observation. One additional advantage of enforcing nematic locking is that nontrivial stationary state solutions, common in Beris–Edwards simulations but not seen in experiments, are eliminated.

Mitchell, Kevin A. [Univ. of California, Merced, C↗

A novel machine learning-based optimization algorithm (ActivO) for accelerating simulation-driven engine design

A novel design optimization approach (ActivO) that employs an ensemble of machine learning algorithms is presented. The proposed approach is a surrogate-based scheme, where the predictions of a weak leaner and a strong learner are utilized within an active learning loop. The weak learner is used to identify promising regions within the design space to explore, while the strong learner is used to determine the exact location of the optimum within promising regions. For each design iteration, exploration is done by randomly selecting evaluation points within regions where the weak learner-predicted fitness is high. The global optimum obtained by using the strong learner as a surrogate is also evaluated to enable rapid convergence once the most promising region has been identified. First, the performance of ActivO was compared against five other optimizers on a cosine mixture function with 25 local optima and one global optimum. In the second problem, the objective was to minimize indicated specific fuel consumption of a compression-ignition internal combustion (IC) engine while adhering to desired constraints associated with in-cylinder pressure and emissions. In this work, the efficacy of the proposed approach is compared to that of a genetic algorithm, which is widely used within the internal combustion engine community for engine optimization, showing that ActivO reduces the number of function evaluations needed to reach the global optimum, and thereby time-to-design by 80%. Furthermore, the optimization of engine design parameters leads to savings of around 1.9% in energy consumption, while maintaining operability and acceptable pollutant emissions.

97 MATHEMATICS AND COMPUTING↗