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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 1,531 records · Page 85
All sourcesNASA NTRSDOE OSTI
DOE OSTI2026

Pyrodictium abyssi AbpX reveals a calcium-responsive family of microbial biomatrix proteins that form thermostable hydrogels

Evolutionary pressure on microbial communities propagating under extreme environmental conditions often results in unique structural adaptations to promote cell survival. In this work, we report an investigation of AbpX, a biomatrix protein identified in cultures of the hyperthermophilic archaeon Pyrodictium abyssi. Under ex vivo and in vitro conditions, AbpX assembles into a paracrystalline lattice composed of semiflexible fibrils. CryoEM analysis of recombinant AbpX fibrils reveals that the precursor protein polymerizes through donor strand complementation (DSC), a process previously reported for chaperone-usher fimbriae in Gram-negative bacteria. Unlike the latter DSC protein polymers, AbpX undergoes chaperone-free polymerization in the presence of calcium ions, which are sequestered at the donor strand-acceptor groove interface between protomers in the fibril. Using a combination of cryoEM and crystallographic information, a structural model is proposed for the AbpX lattice that provides insight into its potential role in biofilm formation. These findings suggest that calcium ion coordination may contribute to fibril assembly and preorganize fibrils for incorporation into the protein lattice. Bioinformatic analysis indicates that AbpX exemplifies a distinct and broadly distributed clade of calcium ion responsive biomatrix proteins within the TasA superfamily that can be fabricated into hydrogel biomaterials in vitro under environmentally benign conditions.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2024

Phase comparison and equation of state for Ta 2 O 5

Abstract Tantalum pentoxide (Ta 2 O 5 ) is among the most technologically useful heavy transition metal oxides. Unfortunately, its crystal structure is the subject of long-standing and unresolved disagreement. Among other consequences, this uncertainty has made it impossible to formulate a robust high pressure equation of state for Ta 2 O 5 . Here, we report the results of high pressure x-ray diffraction experiments indexed against a comprehensive list of proposed Ta 2 O 5 phases. Five of the proposed phases produce good matches to experimental observations, and the compressibility parameters for these phases are all consistent within uncertainty. This means that regardless of the particular phase chosen, the Ta 2 O 5 equation of state can be described with bulk modulus K 0 = 138 ± 3.68 GPa and pressure derivative K 0 ′ = 1.82 ± 0.45 . Combining these experimental results with new density-functional theory calculations allows us to identify the λ phase as the best structural model of Ta 2 O 5 at ambient conditions.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
DOE OSTI2020

Biokinetic models for group IVB elements

The International Commission on Radiological Protection (ICRP) is updating its biokinetic models in a series of reports titled Occupational Intakes of Radionuclides (OIR series). This paper provides an overview of biokinetic data for the group IVB elements hafnium (Hf) and titanium (Ti), compares these data with findings for the more extensively studied Group IVB element zirconium (Zr), and proposes biokinetic models for systemic Hf and Ti for use in the OIR series. A biokinetic model for systemic Zr recently adopted by the ICRP is proposed for application to Hf in view of the nearly identical chemical and physical properties of these two elements, their closely similar behavior in the environment, and their nearly identical biokinetic properties suggested by available comparative data. Finaly, the model structure applied to Zr and Hf is also applied to Ti, but a separate set of transfer coefficients is proposed for Ti.

61 RADIATION PROTECTION AND DOSIMETRY↗
DOE OSTI2021

Non-growing season plant nutrient uptake controls Arctic tundra vegetation composition under future climate

Abstract Plant growth and distribution in high-latitude tundra ecosystems is strongly limited by nutrient availability and is critical for quantifying centennial-scale carbon-climate interactions. However, land model representations of plant–nutrient interactions are uncertain, leading to poor comparisons with high-latitude observations. Although it has been recognized for decades in the observational community that plants continue to acquire nutrients well past when aboveground activity has ceased, most large-scale land models ignore this process. Here we address the role tundra plant nutrient acquisition during the non-growing season (NGS) has on centennial-scale vegetation growth and dynamics, with a focus on shrub expansion. We apply a well-tested mechanistic model of coupled plant, microbial, hydrological, and thermal dynamics that explicitly represents nutrient acquisition based on plant and microbial traits, thereby allowing a prognostic assessment of NGS nutrient uptake. We first show that the model accurately represents observed seasonality of NGS plant nutrient uptake in a northern Alaskan tundra site. Applying the model across the North America tundra indicates that NGS nutrient uptake is consistent with observations and ranges between ∼5% and 50% of annual uptake, with large spatial variability and dependence on plant functional type. We show that NGS plant nutrient acquisition strongly enhances modeled 21 st century tundra shrub growth and expansion rates. Our results suggest that without NGS nutrient uptake, total shrub aboveground dominance would be ∼50% lower, limited primarily by their inability to grow tall enough to maximize their inherent capacity for light competition. Evergreen shrubs would be more strongly affected because of their relatively lower capacity for nutrient remobilization and acquisition compared to deciduous shrubs. Our results highlight the importance of NGS plant and soil processes on high-latitude biogeochemistry and vegetation dynamics and motivate new observations and model structures to represent these dynamics.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2022

SBbadger: biochemical reaction networks with definable degree distributions

Abstract Motivation An essential step in developing computational tools for the inference, optimization and simulation of biochemical reaction networks is gauging tool performance against earlier efforts using an appropriate set of benchmarks. General strategies for the assembly of benchmark models include collection from the literature, creation via subnetwork extraction and de novo generation. However, with respect to biochemical reaction networks, these approaches and their associated tools are either poorly suited to generate models that reflect the wide range of properties found in natural biochemical networks or to do so in numbers that enable rigorous statistical analysis. Results In this work, we present SBbadger, a python-based software tool for the generation of synthetic biochemical reaction or metabolic networks with user-defined degree distributions, multiple available kinetic formalisms and a host of other definable properties. SBbadger thus enables the creation of benchmark model sets that reflect properties of biological systems and generate the kinetics and model structures typically targeted by computational analysis and inference software. Here, we detail the computational and algorithmic workflow of SBbadger, demonstrate its performance under various settings, provide sample outputs and compare it to currently available biochemical reaction network generation software. Availability and implementation SBbadger is implemented in Python and is freely available at https://github.com/sys-bio/SBbadger and via PyPI at https://pypi.org/project/SBbadger/. Documentation can be found at https://SBbadger.readthedocs.io. Supplementary information Supplementary data are available at Bioinformatics online.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2024

Osteocalcin binds to a GPRC6A Venus fly trap allosteric site to positively modulate GPRC6A signaling

GPRC6A, a member of the Family C G-protein coupled receptors, regulates energy metabolism and sex hormone production and is activated by diverse ligands, including cations, L-amino acids, the osteocalcin (Ocn) peptide and the steroid hormone testosterone. We sought a structural framework for the ability of multiple distinct classes of ligands to active GPRC6A. We created a structural model of GPRC6A using Alphafold2. Using this model we explored a putative orthosteric ligand binding site in the bilobed Venus fly trap (VFT) domain of GPRC6A and two positive allosteric modulator (PAM) sites, one in the VFT and the other in the 7 transmembrane (7TM) domain. We provide evidence that Ocn peptides act as a PAM for GPRC6A by binding to a site in the VFT that is distinct from the orthosteric site for calcium and L-amino acids. In agreement with this prediction, alternatively spliced GPRC6A isoforms 2 and 3, which lack regions of the VFT, and mutations in the computationally predicted Ocn binding site, K352E and H355P, prevent Ocn activation of GPRC6A. These observations explain how dissimilar ligands activate GPRC6A and set the stage to develop novel molecules to activate and inhibit this previously poorly understood receptor.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2022

ssDNA is an allosteric regulator of the C. crescentus SOS-independent DNA damage response transcription activator, DriD

DNA damage repair systems are critical for genomic integrity. However, they must be coordinated with DNA replication and cell division to ensure accurate genomic transmission. In most bacteria, this coordination is mediated by the SOS response through LexA, which triggers a halt in cell division until repair is completed. Recently, an SOS-independent damage response system was revealed in Caulobacter crescentus. This pathway is controlled by the transcription activator, DriD, but how DriD senses and signals DNA damage is unknown. To address this question, we performed biochemical, cellular, and structural studies. We show that DriD binds a specific promoter DNA site via its N-terminal HTH domain to activate transcription of genes, including the cell division inhibitor didA. A structure of the C-terminal portion of DriD revealed a WYL motif domain linked to a WCX dimerization domain. Strikingly, we found that DriD binds ssDNA between the WYL and WCX domains. Comparison of apo and ssDNA-bound DriD structures reveals that ssDNA binding orders and orients the DriD domains, indicating a mechanism for ssDNA-mediated operator DNA binding activation. Biochemical and in vivo studies support the structural model. Our data thus reveal the molecular mechanism underpinning an SOS-independent DNA damage repair pathway.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2025

Close-up view of the interplay between lattice distortions and charge density waves: Case study on rare-earth nickel carbides

Using variable temperature total x-ray scattering and large-scale structure modeling, we study the temperature and composition evolution of lattice distortions and charge density waves (CDWs) in the archetypal strongly correlated system RENi⁢ C 2 (RE=Dy, Tb, Gd, and Sm). Joint analysis of reciprocal and real space data reveals the presence of strong lattice distortions that, depending on the RE species and temperature, appear periodic or remain local, forming a complex CDW phase diagram. Apparently, the CDWs in RENi⁢ C 2 materials arise from a common to the system lattice instability involving diverse distortion modes that persist when magnetic order also sets in at very low temperature. In conclusion, the results support the notion that intrinsic lattice distortions are important to the emergence of exotic electronic phases in strongly correlated systems and call for their further investigation using the advanced approach adopted here.

36 MATERIALS SCIENCE↗
DOE OSTI2020

Complex magnetic order in the decorated spin-chain system Rb 2 Mn 3 ( MoO 4 ) 3 ( OH ) 2

The macroscopic magnetic properties and microscopic magnetic structure of Rb 2 Mn 3 (MoO 4 ) 3 (OH) 2 (space group Pn ma) are investigated by magnetization, heat capacity, and single-crystal neutron diffraction measurements. The compound's crystal structure contains bond-alternating [Mn 3 O 11 ] ∞ chains along the b axis, formed by isosceles triangles of Mn ions occupying two crystallographically nonequivalent sites (the Mn1 site on the base and Mn2 site on the vertex). These chains are only weakly linked to each other by nonmagnetic oxyanions. Both superconducting quantum interference device magnetometry and neutron diffraction experiments show two successive magnetic transitions as a function of temperature. On cooling, it transitions from a paramagnetic phase into an incommensurate phase below 4.5 K with a magnetic wave vector near k 1 = ( 0 , 0.46 , 0 ). An additional commensurate antiferromagnetically ordered component arises with k 2 = ( 0, 0, 0), forming a complex magnetic structure below 3.5 K with two different propagation vectors of different stars. On further cooling, the incommensurate wave vector undergoes a lock-in transition below 2.3 K. The experimental results suggest that the magnetic superspace group is Pnma. 1' (0b0) s0ss for the single- k incommensurate phase and is Pn' m a ( 0 b 0 ) 00 s for the two- k magnetic phase. We propose a simplified magnetic structure model taking into account the major ordered contributions, where the commensurate k 2 defines the ordering of the c-axis component of the Mn1 magnetic moment, while the incommensurate k 1 describes the ordering of the ab -plane components of both Mn1 and Mn2 moments into elliptical cycloids.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
DOE OSTI2020

Hierarchy among the crystal lattice, charge density wave, and superconducting orders in transition metal dichalcogenides

Using high-energy x-ray scattering and large-scale three-dimensional (3D) structure modeling, in this study we investigate the relationship between the crystal lattice, charge density wave (CDW), and superconducting (SC) orders in transition metal dichalcogenides (TMDs). In particular, we systematically substitute Te for Se in Ta-Se-Te solid solutions, determine changes in their crystal lattice, and relate them to changes in the CDW transition temperature, $T_{CDW}$, and SC critical temperature, $T_c$ . We find that strong lattice distortions such as buckling of Ta layers are detrimental to the CDW and SC orders. The presence of a perfect lattice order in two dimensions is a prerequisite to the emergence of CDWs but insufficient to achieve a SC ordered state. For the SC order to emerge, the Ta sublattice should also appear periodic in 3D. Local chemical disorder may promote the SC order, and the perfectness of Ta coordination polyhedra is a factor contributing to its strength. A hierarchical relationship among the crystal lattice, CDW, and SC orders thus appears to exist in TMDs in a sense that different degrees of crystal lattice order-disorder promote and maintain the CDW and SC orders to a different extent, offering an opportunity to control the latter through modifying the former by rational design. Our findings are a step towards a better understanding of the correlation between lattice and electronic degrees of freedom in TMDs. We also demonstrate an efficient experimental approach to study them in fine detail.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
DOE OSTI2023

Spin and orbital metallic magnetism in rhombohedral trilayer graphene

We provide a theoretical interpretation of the metallic broken spin-valley (flavor) symmetry states recently discovered in hole-doped rhombohedral trilayer (ABC) graphene in large electric displacement fields. Our conclusions about the phase diagram and phase transitions combine insights from ABC graphene electronic structure models and mean-field theory, and are guided by the precise magneto-oscillation Fermi-surface-area measurements of recent experiments. We find that the principle of momentum-space condensation plays a key role in determining Fermi-surface reconstructions enabled by broken flavor symmetries when the single-particle bands imply thin annular Fermi seas. The reconstructed Fermi sea consists of one large outer Fermi-surface-enclosed majority-flavor states in reciprocal-space area A maj and one or more small inner holelike Fermi-surface-enclosed minority-flavor states in A min that are primarily responsible for nematic order. The competing ground states (valley-Ising, valley-XY, and spin-polarized state) have different A maj /A min and exchange energy maximizes this ratio and selects valley-XY nematic metal as the lowest-energy state. Here, we discuss how the nematic pockets explain the observed fractionalization of quantum oscillation frequencies, and propose anisotropic transport and the nonlinear Hall effect as additional observables.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
DOE OSTI2023

Lattice dynamics and thermodynamics for δ -plutonium from density functional theory

Here, we present results from density functional theory (DFT) calculations of the lattice dynamics (phonons) and thermodynamics for δ-phase plutonium. The fully relativistic electronic structure is calculated assuming a three-dimensional noncollinear magnetic structure in conjunction with DFT and the general gradient approximation for the electron exchange and correlation interactions. The electronic-structure model is further enhanced by addressing strong orbital-orbital coupling via the conventional orbital-polarization (OP) scheme as has been successfully done for plutonium. The temperature dependence of the phonons is calculated within the self-consistent ab initio lattice dynamics approach. The obtained phonons compare very well with measurements although a modest overestimation of the transverse L-point [ξξξ] phonon is acknowledged. Calculated thermal vibration amplitudes and the associated Debye-Waller temperatures are close to experiments. Lattice, electronic, and magnetic contributions to the heat capacity are predicted and consistent to a few percent with that deduced from experimental data. Good agreement is only achieved when a magnetic contribution to the specific heat is recognized. The parameter-free DFT+OP electronic model is thus capable of predicting phonon properties and thermodynamic behavior of δ-phase plutonium rather accurately.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
DOE OSTI2023

Kerr, Faraday, and magnetoelectric effects in MnBi 2 Te 4 thin films

The topological magnetoelectric effect (TME) is a characteristic property of topological insulators. In this paper, we use a simplified coupled-Dirac-cone electronic structure model to theoretically evaluate the THz and far infrared Kerr and Faraday responses of thin films of MnBi 2 ⁢Te 4 with up to N = 10 septuple layers with the goal of clarifying the relationship between these convenient magnetooptical observables and the TME. Here we find that for even N, the linear Kerr and Faraday responses to an electric field vanish in the low-frequency limit, even though the magnetoelectric response is large and approximately quantized.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
DOE OSTI2025

Protected fermionic zero modes in periodic gauge fields

It is well known that macroscopically normalizable zero-energy wave functions of spin-$\frac{1}{2}$ particles in a two-dimensional inhomogeneous magnetic field are spin-polarized and exactly calculable with degeneracy equaling the number of flux quanta linking the whole system. Here, extending this argument to massless Dirac fermions subjected to magnetic fields that have zero net flux but are doubly periodic in real space, we show that there exist only two Bloch-normalizable zero-energy eigenstates, one for each spin flavor. This result is immediately relevant to graphene multilayer systems subjected to doubly periodic strain fields, which at low energies enter the Hamiltonian as periodic pseudogauge vector potentials. Furthermore, we explore various related settings including nonlinearly dispersing band structure models and systems with singly periodic magnetic fields.

36 MATERIALS SCIENCE↗
DOE OSTI2022

Exploring the sensitivity of charge-exchange ( p , n ) reactions to the neutron density distribution

The determination of the nuclear neutron properties suffers from uncontrolled uncertainties, which have attracted considerable attention recently, such as in the context of the PREX experiment. Our aim is to analyze the sensitivity of charge-exchange (p,n) reactions to the neutron density distribution ρ n and constrain the neutron characteristics in the nuclear structure models. Method: By combing the folding and the mean-field models, the nucleon-nucleus (N,A) potential can be obtained from the nuclear density distribution. Further, the (p,p) and (p,n) cross sections for 48 Ca and 208 Pb are calculated following the distorted-wave Born approximation method. As a result, compared with the (p,p) cross section, the effects of ρ n variation on the (p,n) cross section are significant, which is due to the impact of isovector properties. Based on the global folding model analyses of data, it is found that 48 Ca and 208 Pb have relatively large neutron skin thickness ΔR np . Results illustrate that the charge-exchange (p,n) reaction is a sensitive probe of ρ n . The results in this paper can offer useful guides for future experiments of neutron characteristics.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2023

Updated analysis of the Er 170 ( p , t ) Er 168 reaction data

More than 200 states up to 4.1 MeV excitation have been populated in 168 Er with the 170 Er ( p , t ) reaction at 25 MeV incident energy. About 80 of these states, with 0 + and 2 + assignments, were reported in a previous publication [D. Bucurescu et al., Phys. Rev. C 73, 064309 (2006)]. Here, the present work considerably enriches the knowledge of this nucleus. A multistep coupled-channels analysis of the angular distributions is now presented for all the states observed in this experiment. Spin and parity values between 0 + and 7 - are newly assigned for more than 100 states. For the states already reported in the ENSDF database with J π values there is a good agreement with our values. The 168 Er nucleus remains one of the best experimentally known nuclei for states with low and medium spins below 4 MeV excitation energy, representing a challenge for future microscopic structure model calculations aiming to disentangle the contributions of different excitation degrees of freedom.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2024

β -delayed neutron emission of Mn 64 , Cr 62 , and Fe 65

The β-decay properties of nuclei near the second nuclear “island of inversion” around neutron rich nuclei with neutron number 40 are important tests of nuclear structure models and interactions. In particular, the β-delayed neutron emission branch (Ρ n ), is useful for investigating β-strength and neutron-γ competition above the neutron separation energies of the daughter nuclei. We report new constraints for Ρ n values for three nuclei in the region: 62 Cr (Ρ n <1%), 64 Mn (Ρ n = 1.5⁢(6)%), and 65 Fe (Ρ n < 1%), measured with the Neutron Emission Ratio Observer (NERO) neutron long counter system and the Beta Counting Station (BCS) at the National Superconducting Cyclotron Laboratory (NSCL). Our results resolve the large discrepancy between previous direct and indirect measurements for 64 Mn and confirm the predictions of global theoretical models when a statistical treatment of the γ and neutron decays of the daughter states is included. Here we also obtain improved half-lives for 62 Cr [206(5) ms] and the short-lived isomer in the 62 Fe daughter [112(7) ms] from β-delayed γ emission data obtained in the same experiment with the Summing NaI (SuN) total absorption spectrometer. Finally, we use γ emission data to obtain a new upper limit for the 62 Cr β-decay population of the long-lived isomeric state in 62 Mn.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗