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At least 829 records · Page 46
All sourcesNASA NTRSDOE OSTI
DOE OSTI2021

Enhancing transcription in Escherichia coli and Pseudomonas putida using bacteriophage lambda anti-terminator protein Q

Functional characterization of metagenomic DNA often involves expressing heterologous DNA in genetically tractable microorganisms such as Escherichia coli . Functional expression of heterologous genes can suffer from limitations due to the lack of recognition of foreign promoters or presence of intrinsic terminators on foreign DNA between a vector-based promoter and the transcription start site. Anti-terminator proteins are a possible solution to overcome this limitation. When bacteriophage lambda infects E. coli , it relies on the host transcription machinery to transcribe and express phage DNA. Lambda anti-terminator protein Q (λQ) regulates the expression of late-genes of phage lambda. E. coli RNA polymerase recognizes the P R ' promoter on the lambda genome and forms a complex with λQ, to overcome the terminator t R '. In this study we show the use of λQ to efficiently transcribe a capsular polysaccharide cluster, cps3 , from Lactobacillus plantarum containing intrinsic terminators in Escherichia coli . In addition, we expand the use of anti-terminator λQ in Pseudomonas putida . The results show ~ fivefold higher expression of a fluorescent reporter locate ~ 12.5kbp downstream from the promoter, when the transcription is driven by P R ' promoter in presence of λQ compared to a lac promoter. These results suggest that λQ could be used in metabolic engineering to enhance expression of heterologous DNA.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2021

Effectiveness and outcomes of invasive species removal in Hawaiian streams

Despite aquatic invasive species (AIS) being a widely recognized threat to native biodiversity in streams on subtropical and tropical oceanic islands across the Pacific, AIS management has been constrained by concerns that methods of removal could result in more harm than good. In this study, we assessed the effectiveness and outcomes of combining hand-netting and streamside sequestration of native species with AIS removal via three-pass electrofishing tailored for Hawaiian Island watersheds. Removals were conducted in 13 watersheds on the island of O‘ahu following a before-after, control-impact design to assess how AIS removal and post-removal community reassembly varied by surface flow and target species of interest. We found that removals resulted in a sharp reduction in AIS densities without altering native species densities. Removal efficacy was greatest in streams with intermediate mean discharge irrespective of target group or pre-removal AIS densities. Long-term monitoring demonstrated that removals led to persistent shifts in community composition reflecting sustained reductions in AIS densities. These findings indicate that electrofishing can be a valuable tool for AIS management in Hawaiian and other subtropical Pacific island streams, so long as steps are taken to minimize potential harm to at-risk and culturally important native species.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2021

Quantifying microbial control of soil organic matter dynamics at macrosystem scales

Soil organic matter (SOM) stocks, decomposition and persistence are largely the product of controls that act locally. Yet the controls are shaped and interact at multiple spatiotemporal scales, from which macrosystem patterns in SOM emerge. Theory on SOM turnover recognizes the resulting spatial and temporal conditionality in the effect sizes of controls that play out across macrosystems, and couples them through evolutionary and community assembly processes. For example, climate history shapes plant functional traits, which in turn interact with contemporary climate to influence SOM dynamics. Selection and assembly also shape the functional traits of soil decomposer communities, but it is less clear how in turn these traits influence temporal macrosystem patterns in SOM turnover. Here, we review evidence that establishes the expectation that selection and assembly should generate decomposer communities across macrosystems that have distinct functional effects on SOM dynamics. Representation of this knowledge in soil biogeochemical models affects the magnitude and direction of projected SOM responses under global change. Yet there is high uncertainty and low confidence in these projections. To address these issues, we make the case that a coordinated set of empirical practices are required which necessitate (1) greater use of statistical approaches in biogeochemistry that are suited to causative inference; (2) long-term, macrosystem-scale, observational and experimental networks to reveal conditionality in effect sizes, and embedded correlation, in controls on SOM turnover; and (3) use of multiple measurement grains to capture local- and macroscale variation in controls and outcomes, to avoid obscuring causative understanding through data aggregation. Here, when employed together, along with process-based models to synthesize knowledge and guide further empirical work, we believe these practices will rapidly advance understanding of microbial controls on SOM and improve carbon cycle projections that guide policies on climate adaptation and mitigation.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

Post-fire soil emissions of nitric oxide (NO) and nitrous oxide (N 2 O) across global ecosystems: a review

Wildfires may increase soil emissions of trace nitrogen (N) gases like nitric oxide (NO) and nitrous oxide (N 2 O) by changing soil physicochemical conditions and altering microbial processes like nitrification and denitrification. When 34 studies were synthesized, we found a significant increase in both NO and N 2 O emissions up to 1 year post-fire across studies spanning ecosystems globally. However, when fluxes were separated by ecosystem type, we found that individual ecosystem types responded uniquely to fire. Forest soils tended to emit more N 2 O after fire, but there was no significant effect on NO. Shrubland soils showed significant increases in both NO and N 2 O emissions after fires; often with extremely large but short-lived NO pulses occurring immediately after fire. Grassland NO emissions increased after fire, but the size of this effect was small relative to shrublands. N 2 O emissions from burned grasslands were highly variable with no significant effect. To better understand the variation in responses to fire across global ecosystems, more consistent measurements of variables recognized as important controls on soil fluxes of NO and N 2 O (e.g., N cycling rates, soil water content, pH, and substrate availability) are needed across studies. We also suggest that fire-specific elements like burn severity, microbial community succession, and the presence of char be considered by future studies. Our synthesis suggests that fires can exacerbate ecosystem N loss long after they burn, increasing soil emissions of NO and N 2 O with implications for ecosystem N loss, climate, and regional air quality as wildfires increase globally.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2019

Atmo-ecometabolomics: A novel atmospheric particle chemical characterization methodology for ecological research

Aerosol particles play important roles in processes controlling the composition of the atmosphere and function of ecosystems. A better understanding of the composition of aerosol particles is beginning to be recognized as critical for ecological research to further comprehend the link between aerosols and ecosystems. While chemical characterization of aerosols has been practiced in the atmospheric science community, detailed methodology tailored to the needs of ecological research does not exist yet. In this study, we describe an efficient methodology (atmo-ecometabolomics), in step-by-step details, from the sampling to the data analyses, to characterize the chemical composition of aerosol particles, namely atmo-metabolome. This method employs mass spectrometry platforms such as liquid and gas chromatography mass spectrometries (MS) and Fourier transform ion cyclotron resonance MS (FT-ICR-MS). For methodology evaluation, we analyzed aerosol particles collected during two different seasons (spring and summer) in a low-biologicalactivity ecosystem. Additionally, to further validate our methodology, we analyzed aerosol particles collected in a more biologically active ecosystem during the pollination peaks of three different representative tree species. Our statistical results showed that our sampling and extraction methods are suitable for characterizing the atmo-ecometabolomes in these two distinct ecosystems with any of the analytical platforms. Datasets obtained from each mass spectrometry instrument showed overall significant differences of the atmo-ecometabolomes between spring and summer as well as between the three pollination peak periods. Furthermore, we have identified several metabolites that can be attributed to pollen and other plant-related aerosol particles.We additionally provide a basic guide of the potential use ecometabolomic techniques on different mass spectrometry platforms to accurately analyze the atmoecometabolomes for ecological studies. Our method represents an advanced novel approach for future studies in the impact of aerosol particle chemical compositions on ecosystem structure and function and biogeochemistry.

Rivas-Ubach, Albert (ORCID:0000000312937127)↗
DOE OSTI2014

Data dialogues: critical connections for designing and implementing future nanomaterial research

Individuals and organizations in the engineered nanomaterial (ENM) community have increasingly recognized two related but distinct concerns: 1) discordant data due to differences in experimental design (e.g., material characteristics, experimental model, exposure concentration) or reporting (e.g., dose metric, material characterization details), and 2) a lack of data to inform decisions about ENM environmental, health, and safety (EHS). As one way to help address these issues, this Commentary discusses the important role of “data dialogues” or structured discussions between ENM researchers in EHS fields (e.g., toxicology, exposure science, and industrial hygiene) and decision makers who use the data researchers collect. The importance of these structured discussions is examined here in the context of barriers, solutions, and incentives: barriers to developing research relevant for human and ecological risk assessments; potential solutions to overcome such barriers; and incentives to help implement these or other solutions. These barriers, solutions, and incentives were identified by a group of expert stakeholders and ENM community members at the December 2013 Society for Risk Analysis panel discussion on research needed to support decision making for multiwalled carbon nanotubes (MWCNTs). Key topics discussed by experts and ENM community members include: (1) the value of researchers collaborating with EHS decision makers (e.g., risk analysts, product developers, regulators) to design research that can inform ENM EHS-related decisions (e.g., occupational exposure limits, product safety determinations), (2) the importance of funding incentives for such collaborative research, (3) the need to improve mechanisms for data-sharing within and between sectors (e.g., academia, government, and industry), and (4) the critical need to educate the “next generation” of nanotechnology researchers in EHS topics (e.g., risk assessment, risk management). In presenting these outcomes, this Commentary is not intended to conclude the conversation that took place in December 2013 but rather to support a broader dialogue that helps ensure important risk assessment questions are answered for ENMs.

communication↗
DOE OSTI2020

Tuning crack-inclusion interaction with an applied T -stress

The interaction between cracks and inclusions plays an important role in the fracture behavior of particulate composites. It is commonly recognized that an inclusion stiffer than the matrix tends to deflect an approaching crack away while a softer inclusion attracts the crack. Here, we demonstrate by analytical modeling and numerical simulations that the crack-inclusion interaction can be tuned by an applied T-stress. Under a sufficiently large compressive applied T-stress, cracks can be attracted to stiffer inclusions while repelled by softer ones, therefore reversing the conventional trend. Potential applications of this work include composite electrodes in lithium-ion batteries and hydraulic fracturing.

36 MATERIALS SCIENCE↗
DOE OSTI2017

Observing Convective Aggregation

Convective self-aggregation, the spontaneous organization of initially scattered convection into isolated convective clusters despite spatially homogeneous boundary conditions and forcing, was first recognized and studied in idealized numerical simulations. While there is a rich history of observational work on convective clustering and organization, there have been only a few studies that have analyzed observations to look specifically for processes related to self-aggregation in models. Here we review observational work in both of these categories and motivate the need for more of this work. We acknowledge that self-aggregation may appear to be far-removed from observed convective organization in terms of time scales, initial conditions, initiation processes, and mean state extremes, but we argue that these differences vary greatly across the diverse range of model simulations in the literature and that these comparisons are already offering important insights into real tropical phenomena. Some preliminary new findings are presented, including results showing that a self-aggregation simulation with square geometry has too broad distribution of humidity and is too dry in the driest regions when compared with radiosonde records from Nauru, while an elongated channel simulation has realistic representations of atmospheric humidity and its variability. We discuss recent work increasing our understanding of how organized convection and climate change may interact, and how model discrepancies related to this question are prompting interest in observational comparisons. We also propose possible future directions for observational work related to convective aggregation, including novel satellite approaches and a ground-based observational network.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2019

3D pore analysis of gasoline particulate filters using X-ray tomography: impact of coating and ash loading

Since particulate emissions control technologies are dependent on filtration technologies, development of porous materials with optimized pore structures is crucial to improve filtration efficiency and pressure drop across filters. Despite increasing attention to 3D measurements of porous materials, there are few reports of pore structure investigations of diesel/gasoline particulate filters (D/GPFs) using 3D visualization techniques. Here, GPF 3D pore structures were examined using X-ray tomography (XRT) to identify the impacts of catalyst coating or ash loading. Voxel resolution of 2.93 mu m made it impossible to distinguish coating or ash materials from the cordierite substrate or to recognize smaller pores than the voxel resolution. However, pores up to 200 mu m, which are responsible for the most pore volume, were successfully analyzed. Coating and ash loading resulted in lowering average pore diameter, total porosity, and open porosity, as the peak density of pore diameter at 60 mu m decreased, while pores below 20 mu m increased. Also, the visualized closed pores, which were homogeneously distributed throughout the bare filter, tended to get larger from inlet to outlet sides and more likely to be on the surface inlet due to coating and ash loading, indicating gas pathways originally existing in open pores were blocked due to coating and ash loading, leading to increased pressure drop. The ash impact was found to be more noticeable on mid and back positions than on front position. In addition, the investigation of areal porosity along the direction of gas flow suggested that while ash penetration could reach the outlet side as noted from increased closed pore population, most ash particles would be contained up to 150 mu m. Lastly, the 2D crosscut microscopic analysis that requires destructive procedures with the limited examination area could provide underestimation of ash penetration, whereas the 3D XRT analysis seems to provide more accurate information of pore structure changes due to ash loading at different locations.

36 MATERIALS SCIENCE↗
DOE OSTI2017

Design Parameter Space for a High Pressure Optimized Dense Plasma Focus Operating with Deuterium

The potential of the Dense Plasma Focus (DPF) for industrial applications in many fields is well recognized, although yet to be realized in practice. Particularly attractive is the possibility of its use as inexpensive industrial source of nuclear reactions for diverse high value applications such as fast pulsed neutron radiography of hydrogenous materials, non-intrusive neutron interrogation of concealed organic contraband and rapid production of short lived radioisotopes for medical diagnostics and therapy. Recently, it has been suggested that it may be possible to operate the DPF efficiently in a High-Pressure-Optimized (HPO) mode. This paper explores the design parameter space for such HPO-DPF based on the revised Resistive Gratton-Vargas (RGV) model with a view to identify a practicable set of system parameters and their scaling. The current waveform predicted by the revised RGV model for the chosen set of parameters is fitted to the Lee model to estimate the likely neutron yield.

07 ISOTOPE AND RADIATION SOURCES↗
DOE OSTI2018

Study of Specific Interaction between bis(p-phenylene)-34-crown-10-based Substituted Macrocycle and Ni{sup 2+}

A novel macrocyclic host has been synthesized for the determination of Ni (II) ions in aqueous solution (H{sub 2}O-CH{sub 3}CN, v/v = 1:1). Its molecular structure has been verified by {sup 1}H-NMR, {sup 13}C NMR and mass spectrometry (ESI).This probe shows selectivity towards the presence of Ni (II) ion among various alkali, alkaline earth, and transition metal ions. The formation of a new fluorescence band at 311 nm has been detected due to possible complex formation with increasing Ni{sup 2+} concentration in the range of 10{sup −5}–10{sup −4} M. The detection limit is calculated to be 5.22 μM. To our knowledge, it will be the first case for bis(p-phenylene)-34-crown-10 based molecules to recognize Ni{sup 2+} ions.

74 ATOMIC AND MOLECULAR PHYSICS↗
DOE OSTI2018

Recovery of Kraft Lignin from OPEFB and Using for Lignin–Agarose Hydrogel

Lignins from the spent pulping liquor were normally acquired as waste product of pulp and paper mills. The possibilities of utilizing kraft lignin have yet been developed for commercial innovation. The objectives of this research are to recovery and utilization of lignin from black liquor of oil palm empty fruit bunches (OPEFBs). Kraft lignins from the OPEFBs black liquor were recovered by acidification procedure. They were precipitated at pH 4, 3, and 2 in order that determine the optimum pH for isolation. It can be clearly seen that the best condition of lignin precipitation was at pH 3. It offered the highest yield and purity. The kraft lignin and agarose were utilized as the crude material for the production of lignin–agarose hydrogel. Lignin–agarose hydrogel could be prepared by using epichlorohydrin as the cross-linking agent. The cross-linking occurrence was recognized by FTIR. Physical and chemical properties of hydrogel were investigated. Gel strength of lignin–agarose hydrogel was characterized by texture personal analysis. The results demonstrated that the gel strength increased with increasing of lignin and epichlorohydrin (ECH) in agarose solutions. 5% lignin, 5% agarose and 10 mL ECH contributed the best gel formation and the great mechanical properties. The effect of cross-linking condition on the gel properties, for example, gel hardness and fracturability, was examined.

38 RADIATION CHEMISTRY, RADIOCHEMISTRY, AND NUCLEA↗
DOE OSTI2020

Evaluation of measuring thermal conductivity of isotropic and anisotropic thermally insulating materials by transient plane source (Hot Disk) technique

The transient plane source (TPS) technique, also referred as the Hot Disk method, has been widely used due to its ability to measure the thermal properties of an extensive range of materials (solids, liquids, and powder). Recently, it has been recognized that typical Hot Disk sensors can influence TPS results of thermally insulating materials and lead to an overestimation of thermal conductivity. Although improvements have been proposed, they have not yet been implemented in the commercial TPS, leaving researchers with non-standardized modifications or options provided by a commercial Hot Disk apparatus. An empirical study of thermally insulating materials such as extruded polystyrene (XPS) and aerogel blanket is conducted in order to address the factors that affect the reliability of thermal conductivity k obtained using the commercial TPS apparatus. Sensor size, input power, duration of the measurements, applied pressure, and, in the case of anisotropic materials, heat capacity are investigated, and the results are compared with those using a Heat Flow Meter apparatus. The effect of sensor size on the k value is ascribed to heat loss through connecting leads and is more pronounced in smaller sensors and in materials with lower k values . In the case of XPS and aerogel, the effect becomes minimal for sensors with a radius r ≥ 6.4 mm. The low input power yields a high scattering of the results and should be avoided. Applied contact pressure and the tested region of the specimen play an important role in experiments with low-density fibrous materials due to the large percentage of heat being transferred by radiation and the heterogeneous nature of the samples, respectively. Additionally, the sensitivity of anisotropic measurements to the value of the material’s volumetric heat capacity ( ρC p ) is shown, emphasizing the need for the precise determination.

thermal conductivity↗
DOE OSTI2018

Unordinary Ferromagnetic Phase Transitions in Mn- and Fe-doped Half-Heusler CoTiSb

Unordinary ferromagnetic character and high Curie temperature around 900 K have been detected for CoTi {sub 1−x}M{sub x}Sb (M = Mn and Fe, x = 0.1) multiphases systems. The synthesis process was carried out at high temperature in evacuated quartz tubes. The x-ray powder diffraction analysis through Rietveld method was applied to refine the crystal structure. By manipulating the search match program, three nanocrystalline phases of CoTiSb (64.5%), CoSb (15.5%), and TiSb{sub 2} (20.5%) for Mn-doped system and CoTiSb (33%), Ti{sub 3}Sb (35.3%), and CoTi{sub 2} (30.7%) for Fe-doped system were recognized. The term “phase” was used to address the coexistence of different stable chemical compositions for the same half-Heusler alloy. The scanning electron microscope (SEM) and the high-resolution transmission electron microscope (HR-TEM) were applied to characterize the morphology, size, shape, crystallinity and lattice spacing. Good matching was detected between the obtained d values using electron diffraction data and those calculated from x-ray analysis. Well defined nanocrystalline structure with average interatomic distances equaling 0.229 nm, 0.286 nm together with many successive rings with sharp diffraction spots characterized the Fe-doped system. In contrast, partially distorted structured planes and smeared halo surrounded by weak rings were detected in the Mn-doped system. Thermo-magnetic measurements (M-T) were performed for both systems. In addition to Curie transition, many magnetic phase transitions were detected and confirmed through the ΔM/ ΔT vs. T relationship. The field-dependence magnetization (M-H) was measured at different temperatures. The M-H hysteresis loops showed the ferromagnetic character for both systems. Tentative magnetic phase diagrams are suggested as a guide for future research.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
DOE OSTI2018

Synthesis and Microstructural Analysis of Magnetic CaFe{sub 0.5}Co{sub 0.5}O{sub 3−δ} Using Rietveld Method

Perovskite cobaltates are widely recognized as potential candidates for their applications in magnetic and magnetoresistive applications. In this report, pseudo-magnetic CaFe{sub 0.5}Co{sub 0.5}O{sub 3−δ} was synthesized at ambient pressure. Various calcinations, heating times, and sintering temperatures were applied in order to achieve the optimized conditions. The optimal sintering temperature with excellent phase and microstructure was found at ∼1050 °C using CaCO{sub 3} as precursor. Rietveld analysis was carried out to solve and refine the XRD pattern of the final specimens. The sample with excellent refined values was solved in orthorhombic phase and pbcm space group. From the SEM and EDS analysis, the excellent grain growth with high densification and ABO{sub 3} structure was confirmed respectively.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
DOE OSTI2018

Effects of Rolling Passes on the Transport Properties of 37-Filamentary AgAu-Sheathed Bi-2223 Tapes

Thirty-seven-filamentary AgAu-sheathed Bi-2223 tapes were fabricated by a powder-in-tube (PIT) process. And, the round wires (ϕ 1.86 mm) were rolled to 0.35-mm tapes with 12, 7, 5, and 4 rolling passes through flat rolling, respectively. The influences of different rolling passes on the core density, deformation, and transport properties of Bi-2223/AgAu tapes were systematically investigated. It was noticed that after rolling, the Vickers microhardness of the superconducting core and deform homogeneity along both the horizontal and vertical directions on the cross section of seven-pass rolled tape were better than those on the tapes with other passes, which proved the larger core density and uniform deformation with the seven-pass rolling process. Meanwhile for the wires with 12 and 7 passes, the AgAu/superconducting core interfaces were much flatter. With the rolling passes decreasing from 12 to 4, the critical current density (J{sub c}) first increased and then decreased. Due to the better homogeneity and flatter interfaces, J{sub c} reached the maximum value of 17.3 kA/cm{sup 2} on the seven-pass sample. Meanwhile, the enhancement of current capacities in magnetic field applied parallel to the Bi-2223/AgAu tape surface could also be recognized as the evidence of improving intergrain connections due to the higher density in seven-pass rolled tapes.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
DOE OSTI2019

An Overview on the Local Atomic Displacements and Electronic Structures in BiS{sub 2}/BiSe{sub 2}-Based Superconductors

Superconductivity with layered structure has attracted intensive research interests due to their exotic superconducting properties. In 2012, a new family of BiS{sub 2}-based superconductor with their desired layered structure has been discovered. Recently, the isostructural superconductor with the substitution of Se for all S ions in BiS{sub 2}-based compounds is recognized as the BiSe{sub 2}-based superconductors. To date, enormous efforts were dedicated to explore the physical properties of this new family. Among them, synchrotron radiation-based X-ray absorption spectroscopy (XAS) contributed significantly to the understanding of local atomic structure and the electronic structure of BiS{sub 2}/BiSe{sub 2}-based systems. This article reviewed the progresses in the study of the new BiS{sub 2}/BiSe{sub 2}-based materials revealed by the unique technique XAS, including the determination of valence state, local atomic displacements, as well as the different structural distortion between BiS{sub 2}-based and BiSe{sub 2}-based systems. The superconductivity of BiS{sub 2}- and BiSe{sub 2}-based system is indeed intimately related to valence states and local atomic displacements. Further development of microscopic mechanism of superconductivity in BiS{sub 2}/BiSe{sub 2}-based materials requires synergetic endeavors integrating new experimental, numerical, and theoretical techniques.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
DOE OSTI2017

Decoherence, the Density Matrix, the Thermal State and the Classical World

Decoherence has been the basis for understanding the emergence of the classical world from its quantum underpinnings. Unfortunately the calculations establishing decoherence overshoot and, based on assumptions that break down, predict that with the passage of time the off-diagonal elements of the density matrix become arbitrarily small. It has been recognized by some authors that the thermal state, assumed to hold for systems in equilibrium, places a bound on off diagonal terms. In this article we establish—preserving the conservation of energy, as is not the case for previous work—that indeed the thermal state is an attractor under scattering. Moreover, the bound on the off-diagonal terms present in the thermal state does not contradict everyday experience.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗