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At least 1,387 records · Page 77

The emergence and transmission dynamics of HIV-1 CRF07_BC in Mainland China

A total of 1155 partial pol gene sequences of human immunodeficiency virus (HIV)-1 CRF07_BC were sampled between 1997 and 2015, spanning 13 provinces in Mainland China and risk groups [heterosexual, injecting drug users (IDU), and men who have sex with men (MSM)] to investigate the evolution, adaptation, spatiotemporal and risk group dynamics, migration patterns, and protein structure of HIV-1 CRF07_BC. Due to the unequal distribution of sequences across time, location, and risk group in the complete dataset (‘full1155’), subsampling methods were used. Maximum-likelihood and Bayesian phylogenetic analysis as well as discrete trait analysis of geographical location and risk group were carried out. To study mutations of a cluster of HIV-1 CRF07_BC (CRF07-1), we performed a comparative analysis of this cluster to the other CRF07_BC sequences (‘backbone_295’) and mapped the mutations observed in the respective protein structure. Our findings showed that HIV-1 CRF07_BC most likely originated among IDU in Yunnan Province between October 1992 to July 1993 [95 per cent hightest posterior density (HPD): May 1989–August 1995] and that IDU in Yunnan Province and MSM in Guangdong Province likely served as the viral sources during the early and more recent spread in Mainland China. We also revealed that HIV-1 CRF07-1 has been spreading for roughly 20 years and continues to cause local transmission in Mainland China and worldwide. Overall, our study sheds light on the dynamics of HIV-1 CRF07_BC distribution patterns in Mainland China. Our research may also be useful in formulating public health policies aimed at controlling acquired immune deficiency syndrome in Mainland China and globally.

60 APPLIED LIFE SCIENCES↗

Elucidating the Nature of the Excited State of a Heteroleptic Copper Photosensitizer by using Time‐Resolved X‐ray Absorption Spectroscopy

Abstract We report the light‐induced electronic and geometric changes taking place within a heteroleptic Cu I photosensitizer, namely [(xant)Cu(Me 2 phenPh 2 )]PF 6 (xant=xantphos, Me 2 phenPh 2 =bathocuproine), by time‐resolved X‐ray absorption spectroscopy in the ps–μs time regime. Time‐resolved X‐ray absorption near edge structure (XANES) and extended X‐ray absorption fine structure (EXAFS) analysis enabled the elucidation of the electronic and structural configuration of the copper center in the excited state as well as its decay dynamics in different solvent conditions with and without triethylamine acting as a sacrificial electron donor. A three‐fold decrease in the decay lifetime of the excited state is observed in the presence of triethylamine, showing the feasibility of the reductive quenching pathway in the latter case. A prominent pre‐edge feature is observed in the XANES spectrum of the excited state upon metal to charge ligand transfer transition, showing an increased hybridization of the 3d states with the ligand p orbitals in the tetrahedron around the Cu center. EXAFS and density functional theory illustrate a significant shortening of the Cu−N and an elongation of the Cu−P bonds together with a decrease in the torsional angle between the xantphos and bathocuproine ligand. This study provides mechanistic time‐resolved understanding for the development of improved heteroleptic Cu I photosensitizers, which can be used for the light‐driven production of hydrogen from water.

Moonshiram, Dooshaye↗

Optical and Probe Diagnostics Applied to Reacting Flows

We plan to explore three major threads during the fellowship period. The first interrogates the flame synthesis of carbon nanotubes using aerosol catalysts. Laser light scattering will reveal changes in particle size at various heights above the burner. Analysis of the flame gas by mass spectroscopy will reveal the chemical composition of the mixture. Finally, absorption measurements will map the nanotube concentration within the flow. The second thread explores soot oxidation kinetics. Cavity ring-down absorption measurements of the carbonaceous aerosol can provide a measure of the mass concentration with time and, hence, an oxidation rate. Spectroscopic and direct probe measurements will provide the temperature of the system needed for subsequent modeling. The third thread will explore the details of turbulent flame dynamics. Laser induced incandescence will be applied to measurements of soot volume fraction in a 2-d configuration. Analysis of seed tracer particles by planar laser light MIE scattering will reveal the elemental fuel mixture fraction in the flames. Cavity ring-down spectroscopy, a pulsed transient absorption method, will determine the instantaneous mass loading and its fluctuation. Finally, fluorescence measurements will investigate the formation of PAH's in these flames.

Ticich, Thomas M.↗

Computational singular perturbation analysis of stochastic chemical systems with stiffness

Computational singular perturbation (CSP) is a useful method for analysis, reduction, and time integration of stiff ordinary differential equation systems. It has found dominant utility, in particular, in chemical reaction systems with a large range of time scales at continuum and deterministic level. On the other hand, CSP is not directly applicable to chemical reaction systems at micro or meso-scale, where stochasticity plays an non-negligible role and thus has to be taken into account. In this work we develop a novel stochastic computational singular perturbation (SCSP) analysis and time integration framework, and associated algorithm, that can be used to not only construct accurately and efficiently the numerical solutions to stiff stochastic chemical reaction systems, but also analyze the dynamics of the reduced stochastic reaction systems. Furthermore, the algorithm is illustrated by an application to a benchmark stochastic differential equation model, and numerical experiments are carried out to demonstrate the effectiveness of the construction.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Ecogenomics of virophages and their giant virus hosts assessed through time series metagenomics

Virophages are small viruses that co-infect eukaryotic cells alongside giant viruses (Mimiviridae) and hijack their machinery to replicate. While two types of virophages have been isolated, their genomic diversity and ecology remain largely unknown. Here we use time series metagenomics to identify and study the dynamics of 25 uncultivated virophage populations, 17 of which represented by complete or near-complete genomes, in two North American freshwater lakes. Taxonomic analysis suggests that these freshwater virophages represent at least three new candidate genera. Ecologically, virophage populations are repeatedly detected over years and evolutionary stable, yet their distinct abundance profiles and gene content suggest that virophage genera occupy different ecological niches. Co-occurrence analyses reveal 11 virophages strongly associated with uncultivated Mimiviridae, and three associated with eukaryotes among the Dinophyceae, Rhizaria, Alveolata, and Cryptophyceae groups. Together, these findings significantly augment virophage databases, help refine virophage taxonomy, and establish baseline ecological hypotheses and tools to study virophages in nature.

59 BASIC BIOLOGICAL SCIENCES↗

A small-volume, high-throughput approach for surface tension and viscosity measurements of liquid fuels

An ongoing effort looking at bioblendstocks to function as drop-in replacements or blending components for gasoline has identified a large number of candidate fuels. This work documents an approach for rapid screening of candidate fuels using relatively small sample sizes ($\mathcal{O}(\mu\,{\rm l})$) that targets two key physical properties of liquid fuels—surface tension and viscosity. The approach utilizes shape oscillation dynamics of single droplets generated by a piezo-electric device and their decay over time. Strobed imaging of the oscillation process is used along with image processing, edge detection, and data analysis to capture the decay of the oscillation over time. The time constant of the decay process along with oscillation frequency are then used to estimate viscosity and surface tension using a theory for small amplitude droplet oscillations. Measurements are obtained for primary reference fuels (isooctane and n-heptane) as well as candidate fuels from four bio-derived functional groups of interest. Measurement results for surface tension and viscosity are correlated with literature data as well as measurements from standard reference instruments. The measurement results show that the droplet oscillation based approach is capable of reproducing surface tension and viscosity values for the tested fuels within deviations of 7% and 13% respectively from literature data. Results are obtained using an average of 5 µl per fuel within about 20 s, thus demonstrating a small-volume, high-throughput approach that can be used for screening of candidate bioblendstock fuels.

09 BIOMASS FUELS↗

Quantifying Energy Flows in PV Circularity Processes

As sustainable deployment and end-of-life management become a hot topic to timely address in the PV community, a dynamic comparative evaluation of the benefits of circular pathways such as reuse, and remanufacturing, recycling has not been performed holistically beyond material flows or LCA analysis. Energy flows are critical for evaluating energy generation technologies. Previously they have been used to compare renewables to fossil generation and then between PV technologies. This paper quantifies energy flows to evaluate circular pathways for PV. The energy flows tracking manufacturing, generation, and losses complementary to the mass flows of silicon are quantified leveraging the PV ICE framework.

circular economy↗

Switchgrass ( Panicum Virgatum ) and Miscanthus ( Miscanthus × Giganteus ) Long-Term Yield Patterns Reveal Consistent Productivity Declines

Perennial grasses like switchgrass ( Panicum virgatum ) and miscanthus ( Miscanthus × giganteus ) are expected to supply a substantial amount of the United States bioeconomy's feedstock demand. However, uncertainties around their long-term yields challenge the viability of their potential and limit their wider adoption. To resolve their long-term yield patterns, we analyzed over 200 plantings of switchgrass and miscanthus across Michigan and Wisconsin, USA, measured over 5–15 years. We found a consistent two-phase long-term yield dynamic; during a yield-building phase , peak yields occurred within 4–5 years after planting, followed by a yield-decline phase in which switchgrass and miscanthus lost 30%–47% and 14%–40% of peak yields, respectively. Among the potential drivers of this dynamic and the yield decline, we found that weather conditions had little impact, as the variation across years was not large enough to drive the observed yield differences. Added nitrogen increased peak yields by 10%–20% and attenuated the yield decline by 20%–50%. However, since fertilized stands still showed a yield decline, other factors became limiting as stands aged. This conserved long-term yield dynamic has direct implications on management. A farm-to-gate economic analysis suggests replanting switchgrass and miscanthus 5 and 9 years following their peak yields maximizes profit over a 30-year time horizon. Results call for further management and breeding strategies to mitigate the yield-decline phase, and for reparameterization of global bioenergy models with carbon capture and storage, which may overestimate yields and the economic and environmental benefits of crops grown for bioenergy feedstocks.

bioenergy↗

Rhythmic Mechanisms Governing CAM Photosynthesis in Kalanchoe fedtschenkoi : High-Resolution Temporal Transcriptomics

Crassulacean acid metabolism (CAM) is a specialized photosynthetic pathway that enhances water-use efficiency by temporally separating nocturnal CO 2 uptake from daytime decarboxylation and carbon fixation. To uncover the regulatory mechanisms coordinating these temporal dynamics, we generated high-resolution, 48 h time-course transcriptomes for the CAM model Kalanchoe fedtschenkoi under both 12 h/12 h light/dark (LD) cycles and continuous light (LL). A rhythmicity analysis revealed that diel light cues are the dominant driver of transcript oscillations: 16,810 genes (54.3% of annotated genes) exhibited rhythmic expression only under LD, whereas just 399 genes (1.3%) remained rhythmic under LL. A smaller set of 3009 genes (9.7%) oscillated in both conditions, indicating that the intrinsic circadian clock sustains rhythmicity for a limited subset of the transcriptome. A gene co-expression network analysis revealed extensive integration between circadian clock components, core CAM pathway enzymes, and stomatal regulators, defining regulatory modules that coordinate metabolic and physiological timing. Notably, key hub genes associated with post-translational and post-transcriptional regulation, including the E3 ubiquitin ligase HUB2 and several pentatricopeptide repeat (PPR) proteins, act as central nodes in CAM-associated networks. This discovery implicates epigenetic and organellar regulation as previously unrecognized critical tiers of control in CAM. Together, our results support a regulatory model in which CAM rhythmicity is governed by both external light/dark cues and the endogenous circadian clock through multi-level control spanning transcriptional and protein-level regulation. To support community exploration, we also provide an interactive eFP (electronic Fluorescent Pictograph) browser for visualizing time-resolved gene expression profiles.

09 BIOMASS FUELS↗

Investigation of Relationship between High-energy X-Ray Sources and Photospheric and Helioseismic Impacts of X1.8 Solar Flare of 2012 October 23

The X-class solar flare of 2012 October 23 generated continuum photospheric emission and a strong helioseismic wave (“sunquake”) that points to an intensive energy release in the dense part of the solar atmosphere. We study properties of the energy release with high temporal and spatial resolutions, using photospheric data from the Helioseismic Magnetic Imager (HMI) on board Solar Dynamics Observatory , and hard X-ray observations made by RHESSI . For this analysis we use level-1 HMI data (filtergrams), obtained by scanning the Fe i line (6731 Å) with the time cadence of ∼3.6 s and spatial resolution of ∼0.″5 per pixel. It is found that the photospheric disturbances caused by the flare spatially coincide with the region of hard X-ray emission but are delayed by ≲4 s. This delay is consistent with predictions of the flare hydrodynamics RADYN models. However, the models fail to explain the magnitude of variations observed by the HMI. The data indicate that the photospheric impact and helioseismic wave might be caused by the electron energy flux, which is substantially higher than that in the current flare radiative hydrodynamic models.

79 ASTRONOMY AND ASTROPHYSICS↗

The use of computer graphic techniques for the determination of ventricular function.

Description of computer techniques employed to increase the speed, accuracy, reliability, and scope of angiocardiographic analyses determining human heart dimensions. Chamber margins are traced with a Calma 303 digitizer from projections of the angiographic films. The digitized margins of the ventricular images are filed in a computer for subsequent analysis. The margins can be displayed on the television screen of a graphics unit for individual study or they can be viewed in real time (or at any selected speed) to study dynamic changes in the chamber outline. The construction of three dimensional images of the ventricle is described.

Sandler, H.↗

Monitoring complex trace-gas mixtures by long-path laser absorption spectrometry

Laser-based spectrophotometric methods, which have been proposed for the detection of trace concentrations of gaseous contaminants, include Raman and passive radiometry. The paper discusses a simple long-path laser absorption method which is capable of resolving complex mixtures of closely related trace contaminants at ppm levels. A number of species were selected which are most likely to accumulate in closed environments, such as submarines or long-duration manned space flights. Absorption coefficients at CO2 laser wavelengths were measured, accurate to + 3 per cent or better, for each of these species. This data base was then used to determine the presence and concentration of the contaminants in prepared mixtures of 12 to 15 gases. Computer programs have been developed which will permit a real-time analysis of the monitored atmosphere. Minimum detectable concentrations for individual species are generally in the ppm range, and are not seriously degraded by interferences even in complex mixtures. Estimates of the dynamic range of this monitoring technique for various system configurations and comparison with other methods of analysis are discussed

Green, B. D.↗

Direct Transient Analysis of a Fuze Assembly by Axisymmetric Solid Elements

A fuze assembly, which consists of three major parts, nose, collar and sleeve, was designed to survive severe transverse impact giving a maximum base acceleration of 20.000 G. It is shown that hoop failure occurred in the collar after the impact. They also showed that by bonding the collar to the nose, the collar was able to survive the same impact. To find out the effectiveness of the bonding quantitatively, axisymmetric solid elements TRAPAX and TRIAAX were used in modelling the fuze and direct transient analysis was performed. The dynamic stresses in selected elements on the bonded and unbonded collars were compared. The peak hoop stresses in the unbonded collar were found to be up to three times higher than those in the bonded collar. The NASTRAN results explained the observed hoop failure in the unbonded collar. In addition, static and eigenvalue runs were performed as checks on the models prior to the transient runs. The use of the MPCAX cards and the existence and contributors of the calculated first several nearly identical natural frequencies are addressed.

Dai, C. C.↗

Quality assurance procedures for V378A matrix resin

A characterization methodology has been developed on which to base quality assurance procedures for U.S. Polymeric V378A bismaleimide matrix resin. Chemical composition is established by partition reverse phase and size exclusion liquid chromatography. Cure rheology behavior is quantitatively characterized by dynamic viscoelastic analysis using the parallel plate technique. The overall cure process is characterized by differential scanning calorimetry. The sensitivity of the procedures is evaluated by studying the effects of ambient out time on the chemical end behaviorial properties of the resin.

Hamermesh, C. L.↗

Empirical high-latitude electric field models

The present analysis of electric field measurements from the Dynamics Explorer 2 satellite, which extends previous empirical models, emcompasses much data from polar crossings entering and exiting the high latitudes in all magnetic local time zones. The goal is to represent the typical distributions of convective electric fields with a minimum number of characteristic patterns. Significant large-scale revisions of the OGO 6 dawn-dusk measurement models are made. The deformations of the two-cell patterns lead to sunward convection in dayside polar regions, while maintaining the integrity of the nightside convection pattern.

Heppner, J. P.↗

Computational technology for flight vehicles; Proceedings of the Symposium, Washington, DC, Nov. 5-7, 1990

Recent advances in computational fluid mechanics are discussed in reviews and reports. Sections are devoted to (1) the modeling of local phenomena and edge effects in solids, (2) stochastic modeling and simulation of fracture toughness, and (3) partitioning strategy and new finite elements. Particular attention is given to global and local finite-element/spectral-boundary-element techniques for failure analysis, simulations of microfracture in metal-matrix composites, fatigue analysis of cracked anisotropic plates under stochastic loading, mathematical modeling for the analysis of nonlinear aircraft dynamics, physical and mathematical modeling of wave propagation in the Ariane 5 VEB structure, partitioning based on symmetry transformations, an FEM approach to adaptive reliability assurance, and time-domain FEMs for the large rotational dynamics of multibody systems.

Noor, Ahmed K.↗

Herschel's "Cold Debris Disks": Background Galaxies or Quiescent Rims of Planetary Systems?

Infrared excesses associated with debris disk host stars detected so far peak at wavelengths around approx, 100 micron or shorter. However, 6 out of 31 excess sources studied in the Herschel Open Time Key Programme, DUNES, have been seen to show significant-and in some cases extended-excess emission at 160 micron, which is larger than the 100 micron excess. This excess emission has been attributed to circumstellar dust and has been suggested to stem from debris disks colder than those known previously. Since the excess emission of the cold disk candidates is extremely weak, challenging even the unrivaled sensitivity of Herschel, it is prudent to carefully consider whether some or even all of them may represent unrelated galactic or extragalactic emission, or even instrumental noise. We re-address these issues using several distinct methods and conclude that it is highly unlikely that none of the candidates represents a true circumstellar disk. For true disks, both the dust temperatures inferred from the spectral energy distributions and the disk radii estimated from the images suggest that the dust is nearly as cold as a blackbody. This requires the grains to be larger than approx. 100 micron, even if they are rich in ices or are composed of any other material with a low absorption in the visible. The dearth of small grains is puzzling, since collisional models of debris disks predict that grains of all sizes down to several times the radiation pressure blowout limit should be present. We explore several conceivable scenarios: transport-dominated disks, disks of low dynamical excitation, and disks of unstirred primordial macroscopic grains. Our qualitative analysis and collisional simulations rule out the first two of these scenarios, but show the feasibility of the third one. We show that such disks can indeed survive for gigayears, largely preserving the primordial size distribution. They should be composed of macroscopic solids larger than millimeters, but smaller than a few kilometers in size. If larger planetesimals were present, then they would stir the disk, triggering a collisional cascade and thus causing production of small debris, which is not seen. Thus, planetesimal formation, at least in the outer regions of the systems, has stopped before "cometary" or "asteroidal" sizes were reached.

Herschel↗

Investigating the Differential Emission Measure and Energetics of Microflares with Combined SDO/AIA and RHESSI Observations

An important question in solar physics is whether solar microflares, the smallest currently observable flare events in X-rays, possess the same energetic properties as large flares. Recent surveys have suggested that microflares may be less efficient particle accelerators than large flares, and hence contribute less non-thermal energy, which may have implications for coronal heating mechanisms. We therefore explore the energetic properties of microflares by combining EUV and X-ray measurements. We present forward-fitting differential emission measure (DEM) analysis of 10 microflares. The fitting is constrained by combining, for the first time, high-temperature Reuven Ramaty High Energy Solar Spectroscopic Imager (RHESSI) observations and flux data from the Solar Dynamics Observatory (SDO) Atmospheric Imaging Assembly (AIA). Two fitting models are tested for the DEM; a Gaussian distribution and a uniform DEM profile. A Gaussian fit proved unable to explain the observations for any of the studied microflares. However, 8 of 10 events studied were reasonably fit by a uniform DEM profile. Hence microflare plasma can be considered to be significantly multi-thermal, and may not be significantly peaked or contain resolvable fine structure, within the uncertainties of the observational instruments. The thermal and non-thermal energy is estimated for each microflare, comparing the energy budget with an isothermal plasma assumption. From the multi-thermal fits the minimum non-thermal energy content was found to average approximately 30% of the estimated thermal energy. By comparison, under an isothermal model the non-thermal and thermal energy estimates were generally comparable. Hence, multi-thermal plasma is an important consideration for solar microflares that substantially alters their thermal and non-thermal energy content.

Sun: flares↗