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At least 505 records · Page 28

Nonlinear Elasticity: From Single Chain to Networks and Gels

Biological and polymeric networks show highly nonlinear stress–strain behavior manifested in materials that stiffen with increasing deformation. Using a combination of the theoretical analysis and molecular dynamics simulations, we develop a model of network deformation that describes nonlinear mechanical properties of networks and gels by relating their macroscopic strain-hardening behavior to molecular parameters of the network strands. The starting point of our approach is a nonlinear force/elongation relation for discrete chains with varying bending rigidity. The derived expression for the network free energy is a universal function of the first deformation invariant and chain elongation ratio that depends on a ratio of the unperturbed chain size to chain dimension in a fully extended conformation. The model predictions for the nonlinear shear modulus and differential shear modulus for uniaxial and shear deformations are in very good agreement with both the results of molecular dynamics simulations of networks and with experimental data for biopolymer networks of actin, collagen, fibrin, vimentin, neurofilaments, and pectin.

Polymer Science↗

Global Analysis of Salmonella Alternative Sigma Factor E on Protein Translation

The alternative sigma factor E (σ E ) is critical for response to extracytoplasmic stress in Salmonella. Extensive studies have been conducted on σ E -regulated gene expression, particularly at the transcriptional level. Increasing evidence suggests however that σ E may indirectly participate in post-transcriptional regulation. Here in this study, we conducted sample-matched global proteomic and transcriptomic analyses to determine the level of regulation mediated by σ E in Salmonella. We analysed samples from wild type and isogenic rpoE mutant Salmonella cultivated in three different conditions; nutrient-rich and conditions that mimic early and late intracellular infection. We found that 30% of the observed proteome was regulated by σ E combining all three conditions. In different growth conditions, σ E affected the expression of a broad spectrum of Salmonella proteins required for miscellaneous functions. Those involved in transport and binding, protein synthesis, and stress response were particularly highlighted. By comparing transcriptomic and proteomic data, we identified genes post-transcriptionally regulated by σ E and found that post-transcriptional regulation was responsible for a majority of changes observed in the σ E -regulated proteome. Further, comparison of transcriptomic and proteomic data from hfq mutant of Salmonella demonstrated that σ E –mediated post-transcriptional regulation was partially dependent on the RNA-binding protein Hfq.

59 BASIC BIOLOGICAL SCIENCES↗

Top-down estimate of anthropogenic emission inventories and their interannual variability in Houston using a mesoscale inverse modeling technique

The 2000 and 2006 Texas Air Quality Study (TexAQS 2000 and 2006) field campaigns took place in eastern Texas in August-October of 2000 and 2006. Several flights of the National Oceanic and Atmospheric Administration (NOAA) and National Center for Atmospheric Research (NCAR) research aircraft were dedicated to characterizing anthropogenic emissions over Houston. Houston is known for having serious problems with non-attainment of air quality standards. We present a method that uses three models and aircraft observations to assess and improve existing emission inventories using an inverse modeling technique. We used 3-dimensional and 4-dimensional variational (3D-VAR and 4D-VAR) inverse modeling techniques based on a least-squares method to improve the spatial and temporal distribution of CO, NOy (sum of all reactive nitrogen compounds), and SO2 emissions predicted by the 4-km-resolution U.S. Environmental Protection Agency (EPA) National Emission Inventory (NEI) for 2005. Differences between the prior and posterior inventories are discussed in detail. We found that in 2006 the prior daytime emissions in the urban area of Houston have to be reduced by 40% {+-} 12% for CO and 7% {+-} 13% for NOy. Over the Houston Ship Channel, where industrial emissions are predominant, the prior emissions have to be reduced by 41% {+-} 15% for CO and 51% {+-} 9% for NOy. Major ports around Houston have their NOy emissions reduced as well, probably due to uncertainties in near-shore ship emissions in the EPA NEI inventory. Using the measurements from the two field campaigns, we assessed the interannual emission variability between 2000 and 2006. Daytime CO emissions from the Houston urban area have been reduced by 8% {+-} 20%, while the NOy emissions have increased by 20% {+-} 12% from 2000 to 2006. In the Houston Ship Channel, the daytime NOy emissions have increased by 13% {+-} 17%. Our results show qualitative consistencies with known changes in Houston emissions sources.

54 ENVIRONMENTAL SCIENCES↗

The Continual Intercomparison of Radiation Codes: Results from Phase I

We present results from Phase I of the Continual Intercomparison of Radiation Codes (CIRC), intended as an evolving and regularly updated reference source for evaluation of radiative transfer (RT) codes used in Global Climate Models. CIRC differs from previous intercomparisons in that it relies on an observationally validated catalogue of cases. The seven CIRC Phase I baseline cases, five cloud-free, and two with overcast liquid clouds, are built around observations by the Atmospheric Radiation Measurements (ARM) program that satisfy the goals of Phase I, namely to examine radiative transfer (RT) model performance in realistic, yet not overly complex, atmospheric conditions. In addition to the seven baseline cases, additional idealized "subcases" are also examined to facilitate intrepretation of the causes of model errors. In addition to summarizing individual model performance with respect to reference line-by-line calculations and inter-model differences, we also highlight RT model behavior for conditions of doubled CO2, aspects of utilizing a spectral specification of surface albedo, and the impact of the inclusion of scattering in the thermal infrared. Our analysis suggests that RT models should work towards improving their calculation of diffuse shortwave flux, shortwave absorption, treatment of spectral surface albedo, and shortwave CO2 forcing. On the other hand, LW calculations appear to be significantly closer to the reference results. By enhancing the range of conditions under which participating codes are tested, future CIRC phases will hopefully allow even more rigorous examination of RT code performance.

radiative transfer, climate models, radiative forc↗

Low-Field Nuclear Magnetic Resonance Characterization of Carbonate and Sandstone Reservoirs From Rock Spring Uplift of Wyoming

Laboratory measurements including gas (N 2 ) porosity and permeability, time-domain nuclear magnetic resonance, thin section, and scanning electron microscopy analysis were conducted to obtain petrographical and petrophysical descriptions of the Weber Sandstone and Madison Limestone at the Rock Spring Uplift, a potential carbon dioxide storage site in Southwestern Wyoming. The relationships between pore structures, such as pore geometry, pore-size distribution, pore network, and porosity/permeability are investigated. First, using thin sections combined with scanning electron microscopy for pore structures description, all samples are described in detail from the geological, petrographysical, and diagenetic viewpoint. Results show that within the Madison Limestone, pore types include intercrystalline, vuggy, moldic, or mixed (combination of all other pore types). Both moldic and vuggy pore types are associated with samples of high porosity and permeability. Nuclear magnetic resonance relaxation time distributions show either bimodal or multimodal distributions. Large relaxation time components are associated with samples with large pores, whereas small components are dominated by small pores. The T 2 geometric mean correlates well with gas permeability. Additionally, short-time diffusion coefficients (D) were measured by pulsed field gradient method using a series of gradient strengths. We found that diffusion coefficient distributions correlate with the corresponding T 2 distributions for macropores. By comparing the dominant peak position of T 2 distributions and their corresponding diffusion coefficient distributions, we predicted the surface relaxivity of different rock types. We found that surface relaxivities of Weber Sandstone samples can be well predicted, while for Madison Limestone samples, surface relaxivities are overestimated due to diffusive pore coupling effect.

58 GEOSCIENCES↗

Robust Predictive Design of Field Measurements for Evapotranspiration Barriers Using Universal Multiple linear Regression

Surface barriers are normally installed to reduce downward water movement into contaminated zones. Specifically, evapotranspiration (ET) barriers are used to store water and release it, via ET, before it can percolate into an underlying waste zone. To assess the effectiveness of a surface barrier, we used an existing data set, model-simulated data, and a dimensionality reduction approach called universal multiple linear regression (uMLR) to optimize the required number of sensors in a 2-m thick surface barrier. To understand the usefulness of implementing predictive uMLR to accommodate multiple monitoring objectives, we compare several network designs, selected based on down-sampling of existing data, with a recommended sensor design based on model simulations performed without consideration of existing data. We further added consideration of “fuzzy” design, which allows more practical guidelines for field implementation of uMLR. We discovered that uMLR, combined with robust decision-making, provides a simple, flexible, and high-quality network design for monitoring the total water stored in a surface barrier across multiple uncertain conditions.

58 GEOSCIENCES↗

Link Between CO 2 –Induced Wettability and Pore Architecture Alteration

Changes in pore (throat) size, surface roughness and mineralogy induced by supercritical-CO 2 -water-rock reactions impact petrophysical properties such as porosity, permeability, and especially wettability. Herein, we show that these changes directly impact relative permeability and capillary pressure curves, a fact rarely studied in the literature. In this work, we show that CO 2 contact angle changes emerge after Madison Limestone samples were soaked for 400 hours in CO 2 -enriched brine. Coreflooding results show that the water production rate and cumulative water production increased after the rock was exposed to carbonic acid. Moreover, the mercury capillary pressure decreased in meso- and macro-pores, indicating the increase of size in these pores due to reactions. This compounded wettability and pore network alteration can directly affect CO 2 injectivity, migration and storage capacity. Furthermore, this fundamental insight into CO 2 geological storage processes should aid practitioners to reduce uncertainties in forecasting CO 2 distribution via injection simulation.

58 GEOSCIENCES↗

Tropical Indian Ocean Mediates ENSO Influence Over Central Southwest Asia During the Wet Season

El Niño–Southern Oscillation (ENSO) modulates wet season (November–April) precipitation over Central Southwest Asia (CSWA), however, intraseasonal characteristics of its influence are largely unknown, which can be important for its subseasonal to seasonal hydroclimate predictability. Here we show that the ENSO-CSWA teleconnection varies intraseasonally and is a combination of direct and indirect positive influences. The direct influence is through a Rossby wave-like pattern in the tail months. The indirect influence is through an atmospheric dipole of diabatic heating anomalies in the tropical Indian Ocean (TIO) as a result of ENSO-forced response, which also generates a Rossby wave-like forcing and persists throughout the wet season. ENSO exerts its strongest influence when both direct and indirect modes are in phase, while the relationship breaks down when the two modes are out of phase. The atmospheric teleconnection through the atmospheric diabatic heating anomalies in the TIO is reproducible in numerical simulations.

54 ENVIRONMENTAL SCIENCES↗

Remote Sensing of Tundra Ecosystems Using High Spectral Resolution Reflectance: Opportunities and Challenges

Abstract Observing the environment in the vast regions of Earth through remote sensing platforms provides the tools to measure ecological dynamics. The Arctic tundra biome, one of the largest inaccessible terrestrial biomes on Earth, requires remote sensing across multiple spatial and temporal scales, from towers to satellites, particularly those equipped for imaging spectroscopy (IS). We describe a rationale for using IS derived from advances in our understanding of Arctic tundra vegetation communities and their interaction with the environment. To best leverage ongoing and forthcoming IS resources, including National Aeronautics and Space Administration’s Surface Biology and Geology mission, we identify a series of opportunities and challenges based on intrinsic spectral dimensionality analysis and a review of current data and literature that illustrates the unique attributes of the Arctic tundra biome. These opportunities and challenges include thematic vegetation mapping, complicated by low‐stature plants and very fine‐scale surface composition heterogeneity; development of scalable algorithms for retrieval of canopy and leaf traits; nuanced variation in vegetation growth and composition that complicates detection of long‐term trends; and rapid phenological changes across brief growing seasons that may go undetected due to low revisit frequency or be obscured by snow cover and clouds. We recommend improvements to future field campaigns and satellite missions, advocating for research that combines multi‐scale spectroscopy, from lab studies to satellites that enable frequent and continuous long‐term monitoring, to inform statistical and biophysical approaches to model vegetation dynamics.

54 ENVIRONMENTAL SCIENCES↗

Urban Effect on Precipitation and Deep Convective Systems Over Dallas‐Fort Worth

A range of multi-year observational data sets are used to characterize the hydroclimate of the Dallas Fort-Worth area (DFW) and to investigate the impact of urban land cover on daily accumulated precipitation, RADAR composite reflectivity (cREF), and cloud top height (CTH) during the warm season. Analyses of observational data indicate rainfall rates (RR) in a 45° annulus sector 50–100 km downwind of the city are enhanced relative to an upwind area of comparable size. Enhancement of mean precipitation intensity in this annulus sector is not observed on days with spatially averaged RR > 6 mm/day. Under some flow directions, the probability of cREF >30 dBZ, occurrence of hail, and the probability of CTH >10,000 geopotential meters are also enhanced up to 200 km downwind of DFW. Two deep convection events that passed over DFW are simulated with the Weather Research and Forecasting model using a range of microphysical schemes and evaluated using RADAR observations. Model configurations that exhibit the highest fidelity in these control simulations are used in a series of perturbation experiments where the areal extent of the city is varied between zero (replacement with grassland) and eight times its current size. These perturbation experiments indicate a non-linear response of Mesoscale Convective System properties to the urban areal extent and a very strong sensitivity to the microphysical scheme used. The impact on precipitation from the urban area, even when it is expanded to eight-times the current extent, is much less marked for deep convection with stronger synoptic forcing.

58 GEOSCIENCES↗

Corundum Discovered by SuperCam and the Perseverance Rover at Jezero Crater, Mars

Minerals provide clues to the type of geologic environments in which they form. The primary types of minerals that have been identified on Mars indicate a history dominated by volcanism followed by interaction with water. However, other minerals are sometimes found. Here we present results from the SuperCam instrument on the Perseverance rover in which the mineral corundum (α-Al2O3) has been identified using a technique called time-resolved luminescence spectroscopy. Corundum has a unique light-emitting (luminescence) feature based on two well-known peaks as well as the time it takes for this light to fade after being excited by a laser, which is referred to as the lifetime. Corundum forms in specific environments that are enriched in aluminum and depleted in silicon and have been subjected to high temperature and pressure. Such places include deep subsurface magmas or shallower locations that have been exposed to high temperature through tectonic processes or meteorite impacts. Given their small size, association with a mineral called plagioclase, and location on the heavily impacted crater rim, we propose that these corundum minerals formed through impact processes.

58 GEOSCIENCES↗

Solid-to-fluid DNA transition inside HSV-1 capsid close to the temperature of infection

DNA in the human Herpes simplex virus type 1 (HSV-1) capsid is packaged to a tight density. This leads to tens of atmospheres of internal pressure responsible for the delivery of the herpes genome into the cell nucleus. In this study we show that, despite its liquid crystalline state inside the capsid, the DNA is fluid-like, which facilitates its ejection into the cell nucleus during infection. We found that the sliding friction between closely packaged DNA strands, caused by interstrand repulsive interactions, is reduced by the ionic environment of epithelial cells and neurons susceptible to herpes infection. However, variations in the ionic conditions corresponding to neuronal activity can restrict DNA mobility in the capsid, making it more solid-like. This can inhibit intranuclear DNA release and interfere with viral replication. In addition, the temperature of the human host (37 °C) induces a disordering transition of the encapsidated herpes genome, which reduces interstrand interactions and provides genome mobility required for infection.

Sae-Ueng, Udom↗

Magneto-fluorescent core-shell supernanoparticles

Magneto-fluorescent particles have been recognized as an emerging class of materials that exhibit great potential in advanced applications. However, synthesizing such magneto-fluorescent nanomaterials that simultaneously exhibit uniform and tunable sizes, high magnetic content loading, maximized fluorophore coverage at the surface and a versatile surface functionality has proven challenging. Here we report a simple approach for co-assembling magnetic nanoparticles with fluorescent quantum dots to form colloidal magneto-fluorescent supernanoparticles. Importantly, these supernanoparticles exhibit a superstructure consisting of a close-packed magnetic nanoparticle ‘core’, which is fully surrounded by a ‘shell’ of fluorescent quantum dots. A thin layer of silica coating provides high colloidal stability and biocompatibility, and a versatile surface functionality. Here, we demonstrate that after surface pegylation, these silica-coated magneto-fluorescent supernanoparticles can be magnetically manipulated inside living cells while being optically tracked. Moreover, our silica-coated magneto-fluorescent supernanoparticles can also serve as an in vivo multi-photon and magnetic resonance dual-modal imaging probe.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Early aqueous activity on the ordinary and carbonaceous chondrite parent bodies recorded by fayalite

Here, chronology of aqueous activity on chondrite parent bodies constrains their accretion times and thermal histories. Radiometric 53 Mn– 53 Cr dating has been successfully applied to aqueously formed carbonates in CM carbonaceous chondrites. Owing to the absence of carbonates in ordinary (H, L and LL), and CV and CO carbonaceous chondrites, and the lack of proper standards, there are no reliable ages of aqueous activity on their parent bodies. Here we report the first 53 Mn– 53 Cr ages of aqueously formed fayalite in the L3 chondrite Elephant Moraine 90161 as 2.4 +1.8 -1.3 Myr after calcium–aluminium-rich inclusions (CAIs), the oldest Solar System solids. In addition, measurements using our synthesized fayalite standard show that fayalite in the CV3 chondrite Asuka 881317 and CO3-like chondrite MacAlpine Hills 88107 formed and 4.2 +0.8 -0.7 Myr after CAIs, respectively. Thermal modelling, combined with the inferred conditions (temperature and water/rock ratio) and 53 Mn– 53 Cr ages of aqueous alteration, suggests accretion of the L, CV and CO parent bodies ~1.8–2.5 Myr after CAIs.

79 ASTRONOMY AND ASTROPHYSICS↗

Separating the configurational and vibrational entropy contributions in metallic glasses

Glassy materials exist in nature and play a critical role in technology, but key differences between the glass, liquid and crystalline phases are not well understood. Over several decades there has been controversy about the specific heat absorbed as a glass transforms to a liquid—does this originate from vibrational entropy or configurational entropy? We report direct in situ measurements of the vibrational spectra of strong and fragile metallic glasses in the glass, liquid and crystalline phases. For both types of material, the measured vibrational entropies of the glass and liquid show a tiny excess over the crystal, representing less than 5% of the total excess entropy measured with step calorimetry. These results reveal that the excess entropy of metallic glasses is almost entirely configurational in origin, consistent with the early theories of Gibbs and co-workers describing the glass transition as a purely configurational transition.

36 MATERIALS SCIENCE↗

Evidence that formulations of the selective MAO-B inhibitor, selegiline, which bypass first-pass metabolism, also inhibit MAO-A in the human brain

Selegiline (L-deprenyl) is a selective, irreversible inhibitor of monoamine oxidase B (MAO-B) at the conventional dose (10 mg/day oral) that is used in the treatment of Parkinson’s disease. However, controlled studies have demonstrated antidepressant activity for high doses of oral selegiline and for transdermal selegiline suggesting that when plasma levels of selegiline are elevated, brain MAO-A might also be inhibited. Zydis selegiline (Zelapar®) is an orally disintegrating formulation of selegiline, which is absorbed through the buccal mucosa producing higher plasma levels of selegiline and reduced amphetamine metabolites compared to equal doses of conventional selegiline. Although there is indirect evidence that Zydis selegiline at high doses loses its selectivity for MAO-B, there is no direct evidence that it also inhibits brain MAO-A in humans. We measured brain MAO-A in 18 healthy men after a 28-day treatment with Zydis selegiline (2.5, 5.0, or 10 mg/day) and in 3 subjects receiving the selegiline transdermal system (Emsam patch, 6 mg/day) using PET and the MAO-A radiotracer [¹¹C]clorgyline. We also measured dopamine transporter (DAT) availability in three subjects from the 10 mg group. The 10 mg Zydis selegiline dose significantly inhibited MAO-A (36.9 ± 19.7%, range 11–70%, p<0.007)) but not DAT; and while Emsam also inhibited MAO-A (33.2 ± 28.9 (range 9-68%) the difference did not reach significance (p=0.10)) presumably because of the small sample size. Our results provide the first direct evidence of brain MAO-A inhibition in humans by formulations of selegiline, which are currently postulated but not verified to target brain MAO-A in addition to MAO-B.

38 RADIATION CHEMISTRY, RADIOCHEMISTRY, AND NUCLEA↗