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At least 613 records · Page 34

Genotype to ecotype in niche environments: adaptation of Arthrobacter to carbon availability and environmental conditions

Niche environmental conditions influence both the structure and function of microbial communities and the cellular function of individual strains. The terrestrial subsurface is a dynamic and diverse environment that exhibits specific biogeochemical conditions associated with depth, resulting in distinct environmental niches. Here, we present the characterization of seven distinct strains belonging to the genus Arthrobacter isolated from varying depths of a single sediment core and associated groundwater from an adjacent well. We characterized genotype and phenotype of each isolate to connect specific cellular functions and metabolisms to ecotype. Arthrobacter isolates from each ecotype demonstrated functional and genomic capacities specific to their biogeochemical conditions of origin, including laboratory-demonstrated characterization of salinity tolerance and optimal pH, and genes for utilization of carbohydrates and other carbon substrates. Analysis of the Arthrobacter pangenome revealed that it is notably open with a volatile accessory genome compared to previous pangenome studies on other genera, suggesting a high potential for adaptability to environmental niches.

59 BASIC BIOLOGICAL SCIENCES↗

Ecological insights into soil health according to the genomic traits and environment-wide associations of bacteria in agricultural soils

Abstract Soil microbiomes are sensitive to current and previous soil conditions, and bacterial ‘bioindicators’ of biological, physical, and chemical soil properties have considerable potential for soil health assessment. However, the lack of ecological or physiological information for most soil microorganisms limits our ability to interpret the associations of bioindicators and, thus, their utility for guiding management. We identified bioindicators of tillage intensity and twelve soil properties used to rate soil health using a 16S rRNA gene-based survey of farmland across North America. We then inferred the genomic traits of bioindicators and evaluated their environment-wide associations (EWAS) with respect to agricultural management practice, disturbance, and plant associations with 89 studies from agroecosystems. Most bioindicators were either positively correlated with biological properties (e.g., organic matter) or negatively correlated with physical and chemical properties. Higher soil health ratings corresponded with smaller genome size and higher coding density, while lower ratings corresponded with larger genomes and higher rrn copy number. Community-weighted genome size explained most variation in health ratings. EWAS linked prominent bioindicators with the impacts of environmental disturbances. Our findings provide ecological insights into bioindicators of soil properties relevant to soil health management, illustrating the tight coupling of microbiome and soil function.

54 ENVIRONMENTAL SCIENCES↗

Geochemical constraints on bacteriophage infectivity in terrestrial environments

Abstract Lytic phages can be potent and selective inhibitors of microbial growth and can have profound impacts on microbiome composition and function. However, there is uncertainty about the biogeochemical conditions under which phage predation modulates microbial ecosystem function, particularly in terrestrial systems. Ionic strength is critical for infection of bacteria by many phages, but quantitative data is limited on the ion thresholds for phage infection that can be compared with environmental ion concentrations. Similarly, while carbon composition varies in the environment, we do not know how this variability influences the impact of phage predation on microbiome function. Here, we measured the half-maximal effective concentrations (EC50) of 80 different inorganic ions for the infection of E. coli with two canonical dsDNA and ssRNA phages, T4 and MS2, respectively. Many alkaline earth metals and alkali metals enabled lytic infection but the ionic strength thresholds varied for different ions between phages. Additionally, using a freshwater nitrate-reducing microbiome, we found that the ability of lytic phages to influence nitrate reduction end-products depended upon the carbon source as well as ionic strength. For all phage:host pairs, the ion EC50s for phage infection exceeded the ion concentrations found in many terrestrial freshwater systems. Thus, our findings support a model where phages most influence terrestrial microbial functional ecology in hot spots and hot moments such as metazoan guts, drought influenced soils, or biofilms where ion concentration is locally or transiently elevated and nutrients are available to support the growth of specific phage hosts.

Carlson, Hans K. (ORCID:0000000215835313)↗

The high-yield direct synthesis of dimethyl ether from CO 2 and H 2 in a dry reaction environment

Direct dimethyl ether (DME) synthesis from CO 2 and H 2 is considered a promising production route. However, this process is thermodynamically and kinetically restricted by the presence of water as a byproduct. In this study, a water-conduction membrane was incorporated into the direct DME synthesis reactor to generate a dry reaction environment. In the absence of water, the activities of the CO 2 hydrogenation catalyst (CZA) and methanol dehydration catalyst (HZSM-5) were boosted 4- and 10-fold, respectively, and single-pass CO 2 conversion of up to 73.4%, far beyond equilibrium, and DME yields of up to 54.5% were obtained. Moreover, the good protection of the catalysts against fast deactivation was demonstrated.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Rheology of bacterial superfluids in viscous environments

Dense suspensions of pusher-type bacteria give rise to 'superfluids' in which the effective viscosity of the suspension is drastically reduced through collective motion, and in this study we investigate how a viscous environment affects this behavior.

54 ENVIRONMENTAL SCIENCES↗

Uncovering the linear boron environment in Na 3 BP 2 through solid-state 11 B NMR spectroscopy

Boron-based compounds exhibit a wide range of structural diversity, with potential applications spanning organic and inorganic chemistry. Herein, we focus on the characterization of the linear boron-phosphorus unit P═B═P in Na 3 BP 2 using solid-state nuclear magnetic resonance (ssNMR) spectroscopy and density functional theory (DFT) calculations. High-resolution 11 B ssNMR spectra were recorded at two fields, and key parameters such as chemical shift anisotropy (CSA), quadrupolar coupling constants (C Q ), and electric field gradient (EFG) tensors were extracted. The 11 B NMR results revealed a distinct chemical environment for the two-coordinate boron atom, with a CSA span (Ω) of 280 ppm and a C Q of 3.0 MHz. These values were further validated through periodic plane-wave DFT calculations, which showed good agreement with experimental results. The obtained spectral parameters are compared to other linear boron units, such as the BO 2 motif, providing a broader context for understanding boron coordination in inorganic compounds. This work expands the body of NMR knowledge on boron-containing materials, particularly for linear boron motifs. The findings contribute to the growing field of boron chemistry and its potential applications in advanced materials.

Porter, Andrew P. [Ames Laboratory (AMES), Ames, I↗

Assessing DER Network Cybersecurity Defences in a Power-Communication Co-Simulation Environment

Increasing penetrations of interoperable distributed energy resources (DER) in the electric power system are expanding the power system attack surface. Maloperation or malicious control of DER equipment can now cause substantial disturbances to grid operations. Fortunately, many options exist to defend and limit adversary impact on these newly-created DER communication networks, which typically traverse the public internet. However, implementing these security features will increase communication latency, thereby adversely impacting real-time DER grid support service effectiveness. In this work, a collection of software tools called SCEPTRE were used to create a co-simulation environment where SunSpec-compliant PV inverters were deployed as virtual machines and interconnected to simulated communication network equipment. Network segmentation, encryption, and moving target defence security features were deployed on the control network to evaluate their influence on cybersecurity metrics and power system performance. The results indicated that adding these security features did not impact DER-based grid control systems but improved the cybersecurity posture of the network when implemented appropriately.

97 MATHEMATICS AND COMPUTING↗

Discovery and analysis of low-surface-brightness galaxies in the environment of NGC 1052

The environment of NGC 1052 has recently attracted much attention because of the presence of low-surface-brightness galaxies (LSBGs) with apparently “exotic” properties, making it a region of high interest for the detection of new objects. Here, we used public deep photometric data from the Dark Energy Camera Legacy Survey to carry out a comprehensive search for LSBGs over a wide region of 6 × 6 degrees, equivalent to 2 × 2 Mpc at the distance of NGC 1052. We detected 42 LSBGs with r eff > 5 arcsec and μ g (0) > 24 mag arcsec -2 , of which 20 are previously undetected objects. Among all the newly detected objects, RCP 32 stands out with extreme properties: r eff = 23.0 arcsec and $\langle$μ g $\rangle$ eff = 28.6 mag arcsec -2 . This makes RCP 32 one of the lowest surface brightness galaxies ever detected through integrated photometry, located at just 10 arcmin from the extensively studied NGC 1052-DF2. We explored the presence of globular clusters (GCs) in the LSBGs. We marginally detected a GC system in RCP 32, and argue that this LSBG is of great interest for follow-up observations given its extremely low baryon density. After analyzing the distribution of galaxies with available spectroscopy, we identified a large-scale structure of approximately 1 Mpc that is well isolated in redshift space and centered on NGC 1052. The spatial correlation analysis between the LSBGs and this large-scale structure suggests their association. However, when exploring the distribution of effective radius, we find an overpopulation of large LSBGs (r eff > 15 arcsec) located close to the line of sight of NGC 1052. We argue that this is suggestive of a substructure with similar radial velocity in sight projection, but at a closer distance, to which some of these apparently larger LSBGs could be associated. However, possible effects derived from tidal interactions are worthy of further study. Our work expands the catalog of LSBGs with new interesting objects and provides a detailed environmental context for the study of LSBGs in this region.

79 ASTRONOMY AND ASTROPHYSICS↗

Capacity Design Method for Integrated Convective/Radiant Terminals to Guarantee Overall and Local Environment

To achieve energy efficiency in the operation of heating devices and ensure thermal comfort in indoor environments, the integrated convective/radiant terminals have become an important development direction for heating systems. This study selected a 14 m 2 bedroom hot summer and cold winter region in China as a case study. Computational Fluid Dynamics (CFD) methodology was used to investigate the design of integrated convective/radiant terminals to ensure thermal comfort for both the entire room and partial space. The results indicate that focusing on partial space during the steady-state stage can achieve energy savings of 31.1% compared to guaranteeing the entire room. Additionally, during the start-up stage, there is a significant reduction of convective unit capacity by 17.6% when the start-up time is 15 minutes. These findings provide data support for the design and engineering applications of products of integrated convective/radiant terminals. Besides, the excess convection ratios for the entire room and partial space are specified as 0.69 to 0.80 and 0.73 to 0.83, respectively.

Chi, Junjie↗

Radiation characterization summary of the NETL beam port 1/5 free-field environment at the 128-inch core centerline adjacent location

The characterization of the neutron, prompt gamma-ray, and delayed gamma-ray radiation fields in the University of Texas at Austin Nuclear Engineering Teaching Laboratory (NETL) TRIGA reactor for the beam port (BP) 1/5 free-field environment at the 128-inch location adjacent to the core centerline has been accomplished. NETL is being explored as an auxiliary neutron test facility for the Sandia National Laboratories radiation effects sciences research and development campaigns. The NETL reactor is a TRIGA Mark-II pulse and steady-state, above-ground pool-type reactor. NETL is intended as a university research reactor typically used to perform irradiation experiments for students and customers, radioisotope production, as well as a training reactor. Initial criticality of the NETL TRIGA reactor was achieved on March 12, 1992, making it one of the newest test reactor facilities in the US. The neutron energy spectra, uncertainties, and covariance matrices are presented as well as a neutron fluence map of the experiment area of the cavity. For an unmoderated condition, the neutron fluence at the center of BP 1/5, at the adjacent core axial centerline, is about 8.2×10 12 n/cm 2 per MJ of reactor energy. About 67% of the neutron fluence is below 1 keV and 22% above 100 keV. The 1-MeV Damage-Equivalent Silicon (DES) fluence is roughly 1.6×10 12 n/cm 2 per MJ of reactor energy.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Evaluating Connected and Automated Vehicles in Co-Simulation Environment of Traffic Microsimulation and Vehicle Dynamics

Connected and automated vehicles (CAVs) have the potential to improve many aspects of the current transportation systems such as safety, mobility, and energy efficiency. In order to evaluate the benefits and impacts of a CAV, the CAV control algorithm is typically implemented on vehicles simulated in a traffic microsimulation environment. However, traffic microsimulation usually lacks detailed vehicle and powertrain dynamics, making it challenging to fully understand how a CAV control algorithm will perform and respond on an actual vehicle. Whether the same benefits measured in the simulation will also be observed in real-world remains an open question. One potential approach to fill in this gap is to conduct a co-simulation of traffic microsimulation with detailed vehicle and powertrain dynamics models, often developed in MATLAB Simulink. However, current microsimulation tools such as VISSIM and SUMO do not have a ready-to-use interface for co-simulation with vehicle dynamics and Simulink. Also, even if such an interface exists, it will be tool-specific, making it challenging to shift from one tool to another or test CAV controls in different tools. There are needs for tool-agnostic co-simulation as different microsimulation tools have their pros and cons, and researchers often need to use different tools based on the purposes of the simulation, project needs, and applications. In this work, Flexible Interface for X-in-the-loop Simulation (FIXS) is developed that can support the co-simulation of microsimulation, CAV control algorithm, and vehicle dynamics model in Simulink. Enabled by the FIXS, the benefit and performance of a CAV control algorithm can be better understood with the consideration of vehicle responses and dynamics. The connection to VISSIM and SUMO is handled internally by the interface, and users can easily switch tools by changing a configuration file. The co-simulation capability is demonstrated for a VISSIM eco-approach and departure CAV scenario and a SUMO cooperative merging scenario for both a passenger CAV and a class 8 heavy-duty connected and automated trucks.

Shao, Yunli↗

Computational modeling of charge hopping dynamics along a disordered one-dimensional wire with energy gradients in quantum environments

This computational study investigates the effects of energy gradients on charge hopping dynamics along a one-dimensional chain of discrete sites coupled to quantum bath, which is modeled at the level of Pauli master equation (PME). This study also assesses the performance of different approximations for the hopping rates. Three different methods for solving the PME, a fourth order Runge–Kutta method, numerical diagonalization of the rate matrix followed by analytic propagation, and kinetic Monte Carlo simulation method, are tested and confirmed to produce virtually identical values of time dependent mean square displacement, diffusion constant, and mobility. Five different rate expressions, exact numerical evaluation of Fermi’s Golden Rule (FGR) rate, stationary phase interpolation (SPI) approximation, semiclassical approximation, classical Marcus rate, and Miller–Abrahams rate, are tested to help understand the effects of approximations in representing quantum environments in the presence of energy gradients. The results based on direct numerical evaluation of FGR rate exhibit transition from diffusive to non-diffusive behavior with the increase in the gradient and show that the charge transport in the quantum bath is more sensitive to the magnitude of the gradient and the disorder than in the classical bath. Among all the four approximations for the hopping rates, the SPI approximation is confirmed to work best overall. A comparison of two different methods to calculate the mobility identifies drift motion of the population distribution as the major source of non-diffusive behavior and provides more reliable information on the contribution of quantum bath.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Investigating phase transitions from local crystallographic analysis based on statistical learning of atomic environments in 2D MoS 2 -ReS 2

Traditionally, phase transitions are explored using a combination of macroscopic functional characterization and scattering techniques, providing insight into the average properties and symmetries of the lattice but local atomic level mechanisms during phase transitions generally remain unknown. Here, we explore the mechanisms of a phase transition between the trigonal prismatic and distorted octahedral phases of layered chalcogenides in the 2D MoS 2 - ReS 2 system from the observations of local degrees of freedom, namely atomic positions by Scanning Transmission Electron Microscopy (STEM). We employ local crystallographic analysis based on statistical learning of atomic environments to build a picture of the transition from the atomic level up and determine local and global variables controlling the local symmetry breaking. In particular, we argue that the dependence of the average symmetry breaking distortion amplitude on global and local concentration can be used to separate local chemical as well as global electronic effects on transition. This approach allows exploring atomic mechanisms beyond the traditional macroscopic descriptions, utilizing the imaging of compositional fluctuations in solids to explore phase transitions over a range of realized and observed local stoichiometries and atomic configurations.

25 ENERGY STORAGE↗

Ionization wave propagation in a He plasma jet in a controlled gas environment

Characterizing ionization wave propagation in low temperature plasma jets is critical to predicting production of reactive species and plasma–surface interactions for biomedical applications and surface functionalization. In this work, results from optical emission and laser induced fluorescence measurements of the ionization wave in a He plasma jet operating in a controlled gas environment are discussed and used for comparison with numerical modeling. Additionally, the ionization wave was observed using ICCD (Intensified Charge Coupled Device) imaging and characterized by time and spatially resolved electron density measurements using laser-collision-induced fluorescence. The plasma jet was initially characterized using pure He (nominally at 200 Torr), while varying pressure and voltage. When operating in pure He, the ionization wave broadly expands exiting the plasma tube. Increasing the operating pressure reduces the speed and isotropic expansion of the ionization wave. Furthermore, the jet operated with a humid He shroud was also studied. The humid He shroud results in the electron density increasing and having an annular profile due to the lower ionization potential of H2O compared to He and localized photoionization in the mixing region. Numerical modeling highlighted the importance of resonance radiation emitted by excited states of He, photoelectron emission from the quartz tube, and the kinetic behavior of the electrons produced by photoionization ahead of the ionization front.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Strength of porous α-SiO 2 in a shock loaded environment: Calibration via Richtmyer–Meshkov instability and validation via Mach lens

The strength of brittle porous media is of concern in numerous applications, for example, earth penetration, crater formation, and blast loading. Thus, it is of importance to possess techniques that allow for constitutive model calibration within the laboratory setting. The goal of the current work is to demonstrate an experimental technique allowing for strength assessment of porous media subjected to shock loading, which can be implemented into pressure-dependent yield surfaces within numerical simulation schemes. As a case study, the deviatoric response of distended α-SiO 2 has been captured in a tamped Richtmyer–Meshkov instability (RMI) environment at a pressure regime of 4–10 GPa. Hydrocode simulations were used to interpret RMI experimental data, and a resulting pressure-dependent yield surface akin to the often employed modified Drucker–Prager model was calibrated. Simulations indicate that the resulting jet length generated by the RMI is sensitive to the porous media strength, thereby providing a feasible experimental platform capable of capturing the pressurized granular deviatoric response. Furthermore, in efforts to validate the RMI-calibrated strength model, a set of Mach-lens experiments was performed and simulated with the calibrated pressure-dependent yield surface. Excellent agreement between the resulting Mach-lens length in experiment and simulation provides additional confidence to the RMI yield-surface calibration scheme.

36 MATERIALS SCIENCE↗