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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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At least 649 records · Page 36
All sourcesNASA NTRSDOE OSTI
DOE OSTI2018

Incorporation of isotopic, fluorescent, and heavy-atom-modified nucleotides into RNAs by position-selective labeling of RNA

Here, site-specific incorporation of labeled nucleotides is an extremely useful synthetic tool for many structural studies (e.g., NMR, electron paramagnetic resonance (EPR), fluorescence resonance energy transfer (FRET), and X-ray crystallography) of RNA. However, specific-position-labeled RNAs >60 nt are not commercially available on a milligram scale. Position-selective labeling of RNA (PLOR) has been applied to prepare large RNAs labeled at desired positions, and all the required reagents are commercially available. Here, we present a step-by-step protocol for the solid-liquid hybrid phase method PLOR to synthesize 71-nt RNA samples with three different modification applications, containing (i) a (CN)-C-13-N-15-labeled segment; (ii) discrete residues modified with Cy3, Cy5, or biotin; or (iii) two iodo-U residues. The flexible procedure enables a wide range of downstream biophysical analyses using precisely localized functionalized nucleotides. All three RNAs were obtained in <2 d, excluding time for preparing reagents and optimizing experimental conditions. With optimization, the protocol can be applied to other RNAs with various labeling schemes, such as ligation of segmentally labeled fragments.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2018

Crossover from positive to negative optical torque in mesoscale optical matter

The photons in circularly polarized light can transfer their quantized spin angular momentum to micro- and nanostructures via absorption and scattering. This normally exerts positive torque on the objects wher the sign (i.e., handedness or angular direction) follows that of the spin angular momentum. Here we show that the sign of the optical torque can be negative in mesoscopic optical matter arrays of metal nanoparticles (NPs) assembled in circularly polarized optical traps. Crossover from positive to negative optical torque, which occurs for arrays with different number, separation and configuration of the constituent particles, is shown to result from many-body interactions as clarified by electrodynamics simulations. Our results establish that both positive and negative optical torque can be readily realized and controlled in optical matter arrays. This property and reconfigurability of the arrays makes possible programmable materials for optomechanical, microrheological and biological applications.

36 MATERIALS SCIENCE↗
DOE OSTI2022

Structure-function studies reveal ComEA contains an oligomerization domain essential for transformation in gram-positive bacteria

An essential step in bacterial transformation is the uptake of DNA into the periplasm, across the thick peptidoglycan cell wall of Gram-positive bacteria, or the outer membrane and thin peptidoglycan layer of Gram-negative bacteria. ComEA, a DNA-binding protein widely conserved in transformable bacteria, is required for this uptake step. Here we determine X-ray crystal structures of ComEA from two Gram-positive species, Bacillus subtilis and Geobacillus stearothermophilus, identifying a domain that is absent in Gram-negative bacteria. X-ray crystallographic, genetic, and analytical ultracentrifugation (AUC) analyses reveal that this domain drives ComEA oligomerization, which we show is required for transformation. We use multi-wavelength AUC (MW-AUC) to characterize the interaction between DNA and the ComEA DNA-binding domain. Finally, we present a model for the interaction of the ComEA DNA-binding domain with DNA, suggesting that ComEA oligomerization may provide a pulling force that drives DNA uptake across the thick cell walls of Gram-positive bacteria.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2022

A substrate-induced gating mechanism is conserved among Gram-positive IgA1 metalloproteases

The mucosal adaptive immune response is dependent on the production of IgA antibodies and particularly IgA1, yet opportunistic bacteria have evolved mechanisms to specifically block this response by producing IgA1 proteases (IgA1Ps). Our lab was the first to describe the structures of a metal-dependent IgA1P (metallo-IgA1P) produced from Gram-positive Streptococcus pneumoniae both in the absence and presence of its IgA1 substrate through cryo-EM single particle reconstructions. This prior study revealed an active-site gating mechanism reliant on substrate-induced conformational changes to the enzyme that begged the question of whether such a mechanism is conserved among the wider Gram-positive metallo-IgA1P subfamily of virulence factors. Here, we used cryo-EM to characterize the metallo-IgA1P of a more distantly related family member from Gemella haemolysans, an emerging opportunistic pathogen implicated in meningitis, endocarditis, and more recently bacteremia in the elderly. While the substrate-free structures of these two metallo-IgA1Ps exhibit differences in the relative starting positions of the domain responsible for gating substrate, the enzymes have similar domain orientations when bound to IgA1. Together with biochemical studies that indicate these metallo-IgA1Ps have similar binding affinities and activities, these data indicate that metallo-IgA1P binding requires the specific IgA1 substrate to open the enzymes for access to their active site and thus, largely conform to an “induced fit” model.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2016

Unexpected role of linker position on ammonium gemini surfactant lyotropic gyroid phase stability

Arising from the water-driven self-assembly of amphiphiles over generally narrow temperature and composition phase windows, aqueous lyotropic liquid crystal (LLC) network phases are useful in applications as therapeutic delivery vehicles and templates for mesoporous material syntheses. While a clear set of amphiphile design rules that enables access to these intricate three-dimensional structures has yet to emerge, recent work indicates that bis(ammonium), bis(phosphonium), and dicarboxylate gemini (“twin tail”) surfactants enable enhanced access to LLC network phases such as the double gyroid (G). In order to better understand the scope of this amphiphile design strategy, we investigated the synthesis and aqueous LLC self-assembly behaviors of a homologous series of quaternary gemini bis(ammonium) dichloride surfactants, in which we varied the position of the hydrophobic linker that connects the constituent single tail surfactants. These experiments show that the position of the linker directly impacts the maximum counterion–headgroup hydration capacity and the extent of counterion–headgroup association, all of which contribute to the aqueous lyotropic double gyroid network phase stability. Thus, judicious selection of the linker position in ionic gemini surfactants provides a new molecular design tool for manipulating LLC network phase stability.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2024

Biomimetic mineralization of positively charged silica nanoparticles templated by thermoresponsive protein micelles: applications to electrostatic assembly of hierarchical and composite superstructures

High information content building blocks offer a path toward the construction of precision materials by supporting the organization and reconfiguration of organic and inorganic components through engineered functions. Here, we combine thermoresponsiveness with biomimetic mineralization by fusing the Car9 silica-binding dodecapeptide to the C-terminus of the (VPGVG) 54 elastin-like polypeptide (ELP). Using small angle X-ray scattering, we show that the short Car9 cationic block is sufficient to promote the conversion of disordered unimers into 30 nm micelles comprising about 150 proteins, 5 °C above the transition temperature of the ELP. While both species catalyze self-limiting silica precipitation, micelles template the mineralization of highly monodisperse (62 nm) nanoparticles, while unimers yield larger polydisperse species. Strikingly, and unlike traditional synthetic silica, these particles exhibit a positive surface charge, likely due to cationic Car9 sidechains projecting from their surface. Capitalizing on the high monodispersity and positive charge of the micelle-templated products, we use smaller silica and gold particles bearing a native negative charge to create a variety of superstructures via electrostatic co-assembly. Furthermore, this simple biomimetic route to positively charged silica eliminates the need for multiple precursors or surface modifications and enables the rapid creation of single-material and composite architectures in which components of different sizes or compositions are well dispersed and integrated.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2012

Effect of fast positive ions incident on caesiated plasma grid of negative ion source

This paper describes the effect on negative ion formation on a caesiated surface of the backscattering of positive ions approaching it with energy of a few tens of eV. For a positive ion energy of 45 eV, the surface produced negative ion current density due to these fast positive ions is 12 times larger than that due to thermal atoms, thus dominating the negative ion surface production instead of the thermal atoms, as considered until now.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2011

Existence domains of large amplitude dust-acoustic solitons in non-thermal plasmas with positive and negative dust

Using the traditional Sagdeev pseudopotential approach, the existence of large amplitude solitons is investigated for a plasma composed of cold negative dust, adiabatic positive dust, non-thermal ions and Boltzmann electrons. The lower and upper soliton Mach number limitations are determined as a function of various parameters and physical reasons are provided as to why these Mach number limits occur. Some regions in parameter space have been identified where only negative or positive solitons occur, whereas, other regions support the coexistence of both positive and negative potential solitons.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2011

Large amplitude dust-acoustic double layers in non-thermal plasmas with positive and negative dust

The existence of large amplitude double layers in a plasma composed of cold negative dust, adiabatic positive dust, non-thermal ions and Boltzmann electrons is investigated using the Sagdeev pseudopotential technique. Both positive potential and negative potential double layers are found to be supported by the model. The variation of the maximum amplitudes of the double layers and corresponding Mach numbers are examined as a function of various plasma parameters. In particular, we investigate to what extent ion non-thermal effects are required for positive potential double layers to occur.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2012

Dependence of ion beam current on position of mobile plate tuner in multi-frequencies microwaves electron cyclotron resonance ion source

We are constructing a tandem-type electron cyclotron resonance ion source (ECRIS). The first stage of this can supply 2.45 GHz and 11-13 GHz microwaves to plasma chamber individually and simultaneously. We optimize the beam current I{sub FC} by the mobile plate tuner. The I{sub FC} is affected by the position of the mobile plate tuner in the chamber as like a circular cavity resonator. We aim to clarify the relation between the I{sub FC} and the ion saturation current in the ECRIS against the position of the mobile plate tuner. We obtained the result that the variation of the plasma density contributes largely to the variation of the I{sub FC} when we change the position of the mobile plate tuner.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗
DOE OSTI2012

Simulation of a wire-cylinder-plate positive corona discharge in nitrogen gas at atmospheric pressure

In this work, we are going to perform a simulation of a wire-cylinder-plate positive corona discharge in nitrogen gas, and compare our results with already published experimental results in air for the same structure. We have chosen to simulate this innovative geometry because it has been established experimentally that it can generate a thrust per unit electrode length transmitted to the gas of up to 0.35 N/m and is also able to induce an ion wind top velocity in the range of 8-9 m/s in air. In our model, the used ion source is a small diameter wire, which generates a positive corona discharge in nitrogen gas directed to the ground electrode, after which the generated positive ions are further accelerated in the acceleration channel between the ground and cathode. By applying the fluid dynamic and electrostatic theories, all hydrodynamic and electrostatic forces that act on the considered geometries will be computed in an attempt to theoretically confirm the generated ion wind profile and also the thrust per unit electrode length. These results are important to establish the validity of this simulation tool for the future study and development of this effect for practical purposes.

42 ENGINEERING↗
DOE OSTI2013

Role of positively charged dust grains on dust acoustic wave propagation in presence of nonthermal ions

An expression for ion current flowing to the dust grains is proposed, when dust charge is positive and the ions are nonthermal. Secondary electron emission has been considered as the source of positive charging of the dust grains. Investigation shows that presence of positively charged dust grains along with thermal electrons and nonthermal ions generate purely growing dust acoustic waves for both the cases of ion nonthermal parameter greater than one and less than one. In the later case, the growth is conditional.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
DOE OSTI2013

The role of charged particles in the positive corona-generated photon count in a rod to plane air gap

The relationship between the calculated charged-particle densities in positive corona, the rate of streamer production, and the photon count from the corona were investigated and found to be closely related. Both the densities of electrons and positive ions peaked at 11.8 kV, near the corona inception voltage; they then fell rapidly before slowly rising again. This behavior was exactly matched by the measured photon count. The calculation of the charged-particle density in a positive corona was achieved by means of a fluid model.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2013

Higher-order harmonic effect of a three-dimensional helical wiggler on the Larmor rotation of the equilibrium electrons in a free-electron laser with a positive or a reversed guide magnetic field

Analytical formulas of the Larmor rotation are derived in detail for the equilibrium electrons motion in a free-electron laser with combination of a three-dimensional (3-D) helical wiggler and a positive or a reversed guide magnetic field. Generally, the Larmor radius in the configuration of a reversed guide field is much smaller than that in a positive guide field. At non-resonance, a helical orbit governed by the zero-order component of a 3-D wiggler field could hold; meanwhile, the higher-harmonic effect definitely influences those electrons with off-axis guiding centers and induces the electron-beam spreads. At resonance, the Larmor radius in the configuration of a positive guide field has a singularity with a limit tending to infinite, which causes all the electrons to hit the waveguide wall before the exit of the wiggler. Although Larmor-radius singularity does not exist in the configuration of a reversed guide field, at anti-resonance, the first-order harmonic of a 3-D wiggler field induces a transverse displacement which rapidly grows in proportion to a square of time, and leads part of the electron beam to hit the waveguide wall before reaching the wiggler exit, which depends on the specific parameters of the individual electrons. The analytical conclusions derived in the present paper are examined by the nonlinear simulations and the experimental observation. Disagreement with the previous literatures is discussed in detail.

43 PARTICLE ACCELERATORS↗
DOE OSTI2013

Recovery from ultraviolet-induced threshold voltage shift in indium gallium zinc oxide thin film transistors by positive gate bias

The effect of short-duration ultraviolet (UV) exposure on the threshold voltage (V{sub th}) of amorphous indium gallium zinc oxide thin film transistors (TFTs) and its recovery characteristics were investigated. The V{sub th} exhibited a significant negative shift after UV exposure. The V{sub th} instability caused by UV illumination is attributed to the positive charge trapping in the dielectric layer and/or at the channel/dielectric interface. The illuminated devices showed a slow recovery in threshold voltage without external bias. However, an instant recovery can be achieved by the application of positive gate pulses, which is due to the elimination of the positive trapped charges as a result of the presence of a large amount of field-induced electrons in the interface region.

36 MATERIALS SCIENCE↗
DOE OSTI2014

The transition probability and the probability for the left-most particle's position of the q-totally asymmetric zero range process

We treat the N-particle zero range process whose jumping rates satisfy a certain condition. This condition is required to use the Bethe ansatz and the resulting model is the q-boson model by Sasamoto and Wadati [“Exact results for one-dimensional totally asymmetric diffusion models,” J. Phys. A 31, 6057–6071 (1998)] or the q-totally asymmetric zero range process (TAZRP) by Borodin and Corwin [“Macdonald processes,” Probab. Theory Relat. Fields (to be published)]. We find the explicit formula of the transition probability of the q-TAZRP via the Bethe ansatz. By using the transition probability we find the probability distribution of the left-most particle's position at time t. To find the probability for the left-most particle's position we find a new identity corresponding to identity for the asymmetric simple exclusion process by Tracy and Widom [“Integral formulas for the asymmetric simple exclusion process,” Commun. Math. Phys. 279, 815–844 (2008)]. For the initial state that all particles occupy a single site, the probability distribution of the left-most particle's position at time t is represented by the contour integral of a determinant.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2014

Effects of roughness and temperature on low-energy hydrogen positive and negative ion reflection from silicon and carbon surfaces

Angle-resolved energy distribution functions of positive and negative hydrogen ions produced from a rough-finished Si surface under 1 keV proton irradiation have been measured. The corresponding distribution from a crystalline surface and a carbon surface are also measured for comparison. Intensities of positive and negative ions from the rough-finished Si are substantially smaller than those from crystalline Si. The angular distributions of these species are broader for rough surface than the crystalline surface. No significant temperature dependence for positive and negative ion intensities is observed for all samples in the temperature range from 300 to 400 K.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2014

Position dependent spin wave spectrum in nanostrip magnonic waveguides

The dispersion curves of propagating spin wave along different positions in nanostrip magnonic waveguides were studied by micromagnetic simulation. The results show that the modes of spin wave in the nanostrip magnonic waveguide are dependent on the position and the weak even modes of spin wave are excited even by symmetric excitation fields in a nanostrip magnonic waveguide. The reasons of the position dependent dispersion curve are explained by associating with geometrical confinement in the nanostrip magnonic waveguide.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗