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At least 1,027 records · Page 57

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NASA NTRS2003

Cellerator: extending a computer algebra system to include biochemical arrows for signal transduction simulations

Cellerator describes single and multi-cellular signal transduction networks (STN) with a compact, optionally palette-driven, arrow-based notation to represent biochemical reactions and transcriptional activation. Multi-compartment systems are represented as graphs with STNs embedded in each node. Interactions include mass-action, enzymatic, allosteric and connectionist models. Reactions are translated into differential equations and can be solved numerically to generate predictive time courses or output as systems of equations that can be read by other programs. Cellerator simulations are fully extensible and portable to any operating system that supports Mathematica, and can be indefinitely nested within larger data structures to produce highly scaleable models.

Non-NASA Center↗

NASA NTRS2016

An Evaluation of Flash Cells Used in Critical Applications

Due to the common use of Flash technology in many commercial and industrial Programmable Logic Devices (PLDs) such as FPGAs and mixed-signal microcontrollers, flash technology is being utilized in fuzed munition applications. This presents a long-term reliability issue for both DoD and NASA safety- and mission-critical applications. A thorough understanding of the data retention failure modes and statistics associated with Flash data retention is of vital concern to the fuze safety community. A key retention parameter for a flash cell is the threshold voltage (VTH), which is an indirect indicator of the amount of charge stored on the cells floating gate. Initial test results based on a study of charge loss in flash cells in an FPGA device is presented. Statistical data taken from a small sample set indicates quantifiable charge loss for devices stored at both room temperature and 150 C. Initial evaluation of the distribution of threshold voltage in a large sample set (800 devices) is presented. The magnitude of charge loss from exposure to electrostatic discharge and electromagnetic fields is measured and presented. Simulated data (and measured data as available) resultant from harsh-environment testing (neutron, heavy ion, EMP) is presented.

data retention↗

NASA NTRS2016

An Evaluation of Flash Cells Used in Critical Applications

Data Retention↗

DOE OSTI2021

Vinculin is required for neuronal mechanosensing but not for axon outgrowth

Integrin receptors are transmembrane proteins that bind to the extracellular matrix (ECM). In most animal cell types integrins cluster together with adaptor proteins at focal adhesions that sense and respond to external mechanical signals. In the central nervous system (CNS), ECM proteins are sparsely distributed, the tissue is comparatively soft and neurons do not form focal adhesions. Thus, how neurons sense tissue stiffness is currently poorly understood. Here, we found that integrins and the integrin-associated proteins talin and focal adhesion kinase (FAK) are required for the outgrowth of neuronal processes. Vinculin, however, whilst not required for neurite outgrowth was a key regulator of integrin-mediated mechanosensing of neurons. During growth, growth cones of axons of CNS derived cells exerted dynamic stresses of around 10–12 Pa on their environment, and axons grew significantly longer on soft (0.4 kPa) compared to stiff (8 kPa) substrates. Depletion of vinculin blocked this ability of growth cones to distinguish between soft and stiff substrates. These data suggest that vinculin in neurons acts as a key mechanosensor, involved in the regulation of growth cone motility.

60 APPLIED LIFE SCIENCES↗

DOE OSTI2023

Sample-minimizing co-flow cell for time-resolved pump–probe X-ray solution scattering

A fundamental problem in biological sciences is understanding how macromolecular machines work and how the structural changes of a molecule are connected to its function. Time-resolved techniques are vital in this regard and essential for understanding the structural dynamics of biomolecules. Time-resolved small- and wide-angle X-ray solution scattering has the capability to provide a multitude of information about the kinetics and global structural changes of molecules under their physiological conditions. However, standard protocols for such time-resolved measurements often require significant amounts of sample, which frequently render time-resolved measurements impossible. A cytometry-type sheath co-flow cell, developed at the BioCARS 14-ID beamline at the Advanced Photon Source, USA, allows time-resolved pump–probe X-ray solution scattering measurements to be conducted with sample consumption reduced by more than ten times compared with standard sample cells and protocols. The comparative capabilities of the standard and co-flow experimental setups were demonstrated by studying time-resolved signals in photoactive yellow protein.

36 MATERIALS SCIENCE↗

DOE OSTI2023

Phosphorylation barcodes direct biased chemokine signaling at CXCR3

Chemokine receptors, a group of G protein-coupled receptors (GPCRs), interact with transducers such as G proteins, ß-arrestins, and GPCR kinases (GRKs). In the chemokine system, many chemokine agonists act as “biased agonists” that preferentially activate distinct signaling effectors when binding to the same receptor, resulting in distinct physiological effects. Although one third of FDA-approved drugs target GPCRs, there has been limited success in targeting the chemokine system. Currently, there is little evidence that differential receptor phosphorylation, or “phosphorylation barcodes,” direct these biased responses at chemokine receptors. To address this knowledge gap, we used mass spectrometry to demonstrate that chemokines of CXCR3 promote different ensembles of phosphorylation barcodes that are associated with differential activation of G proteins, ß-arrestins and GRKs. Chemokine stimulation also resulted in distinct changes throughout the kinome in global phosphoproteomic studies. Mutation of specific CXCR3 phosphosites altered ß-arrestin conformation and impacted ß-arrestin activation in molecular dynamics simulations. T-cells expressing phosphorylation-deficient CXCR3 mutants resulted in distinct agonist- and receptor-specific chemotactic and signaling profiles that were not completely explained by engagement of G proteins, ß-arrestins, and GRKs alone. In conclusion, our results directly link distinct GPCR phosphorylation patterns with non-redundant chemokine signaling (Figure 1).

CXCR3↗

DOE OSTI2022

Plant metacaspase: A case study of microcrystal structure determination and analysis

Metacaspases are highly conserved in plants and play essential roles in mediating programmed cell death, biotic and abiotic stress responses, and damage-induced innate immunity. Ca 2+ signaling induced by plant damage leads to activation of metacaspase from Arabidopsis thaliana (AtMC4), which subsequently processes a plant elicitor peptide to trigger downstream immuno-response. To understand the structural basis of AtMC4 activation by Ca 2+ , we previously determined its crystal structure and performed in-crystal Ca 2+ treatment to probe activation-associated conformational changes. To enable structure determination and in-crystal Ca 2+ activation analysis, we used microcrystals and related methods which were essential for our successful approach. Here, in this paper, we describe in detail the methods that we used for determination of AtMC4 structure using single-wavelength isomorphous replacement with anomalous signals assembled from 22 microcrystals. We also describe the method for in-crystal Ca 2+ soaking, microcrystal data collection, data assembly and analysis to obtain the activated structure of AtMC4 from 91 micro-sized crystals. The described methods may be useful to study other plant metacaspases and more broadly other plant enzymes for their structure determination and in-crystal functional characterization.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2021

Pharmacological Inhibition of HSP90 Radiosensitizes Head and Neck Squamous Cell Carcinoma Xenograft by Inhibition of DNA Damage Repair, Nucleotide Metabolism, and Radiation-Induced Tumor Vasculogenesis

Recent preclinical studies suggest combining the HSP90 inhibitor AT13387 (Onalespib) with radiation (IR) against colon cancer and head and neck squamous cell carcinoma (HNSCC). These studies emphasized that AT13387 downregulates HSP90 client proteins involved in oncogenic signaling and DNA repair mechanisms as major drivers of enhanced radiosensitivity. Given the large array of client proteins HSP90 directs, we hypothesized that other key proteins or signaling pathways may be inhibited by AT13387 and contribute to enhanced radiosensitivity. Metabolomic analysis of HSP90 inhibition by AT13387 was conducted to identify metabolic biomarkers of radiosensitization and whether modulations of key proteins were involved in IR-induced tumor vasculogenesis, a process involved in tumor recurrence.

62 RADIOLOGY AND NUCLEAR MEDICINE↗

DOE OSTI2020

Detection of the Chiral Spin Structure in Ferromagnetic SrRuO 3 Thin Film

SrRuO3 (SRO) thin films and their heterostructure have brought much attention because of the recently demonstrated fascinating properties, such as topological Hall effect and skyrmions. Critical to the understanding of those SRO properties is the study of the spin configuration. Here, we conduct resonant soft x-ray scattering (RSXS) at the oxygen K-edge to investigate the spin configuration of a 4 unit-cell SRO film that was grown epitaxially on a single crystal SrTiO 3 . The RSXS signal under a magnetic field (~0.4 Tesla) clearly shows a magnetic dichroism pattern around the specular reflection. Model calculations on the RSXS signal demonstrate that the magnetic dichroism pattern originates from a Néel-type chiral spin structure in this SRO thin film. We believe that the observed spin structure of the SRO system is a critical piece of information for understanding its intriguing magnetic and transport properties.

36 MATERIALS SCIENCE↗

DOE OSTI2024

Observation of d(t,n) α Neutrons Following d(d,p)t Reactions in a Deuterium Gas Cell: An Attempt to Repeat Ruhlig’s 1938 Observation of Secondary Reactions

In order to benchmark methods used to calculate reaction-in-flight fusion reactions in inertial confinement fusion and address issues related to the first claimed observation of d(t,n)α reactions in 1938, secondary d(t,n)α reactions have been observed following d(d,p)t reactions in deuterium gas. A pulsed 200-nA, 2.2-MeV deuterium beam from the Triangle Universities Nuclear Laboratory FN tandem accelerator was injected into a cylindrical multiatmosphere deuterium gas target. The incident beam traversed along the target cylinder’s 3-cm symmetry axis after its passage through a Havar entrance foil. Two different Havar foil thicknesses were used to obtain 1.5- and 0.6-MeV deuteron beams entering the deuterium cell. The cylinder’s radius was 2 cm to allow for d(d,p)t tritons emitted perpendicular to the beam to range out in the deuterium gas. The neutron emission from the cell was observed via its time of flight to a liquid scintillator placed at various angles to the beam direction, at a distance of 243 cm. Pulse-shape-discrimination techniques were used to separate neutron and gamma-ray signals seen in the liquid scintillator. The observed probability of ~2 × 10 –4 for inducing secondary d(t,n)α fusion in the gas cell per d(d,p)t reaction is consistent with theoretical expectations.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

DOE OSTI2022

Dynamic zinc fluxes regulate meiotic progression in Caenorhabditis elegans

Abstract Zinc influx and efflux events are essential for meiotic progression in oocytes of several mammalian and amphibian species, but it is less clear whether this evolutionary conservation of zinc signals is also important in late-stage germline development in invertebrates. Using quantitative, single cell elemental mapping methods, we find that Caenorhabditis elegans oocytes undergo significant stage-dependent fluctuations in total zinc content, rising by over sevenfold from Prophase I through the beginning of mitotic divisions in the embryo. Live imaging of the rapid cell cycle progression in C. elegans enables us to follow changes in labile zinc pools across meiosis and mitosis in single embryo. We find a dynamic increase in labile zinc prior to fertilization that then decreases from Anaphase II through pronuclear fusion and relocalizes to the eggshell. Disruption of these zinc fluxes blocks extrusion of the second polar body, leading to a range of mitotic defects. We conclude that spatial temporal zinc fluxes are necessary for meiotic progression in C. elegans and are a conserved feature of germ cell development in a broad cross section of metazoa.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2022

Unexpected features in the optical vibrational spectra of δ-UO 3

Uranium trioxide displays a complex chemical phase space, with at least six structurally distinct polymorphs accessible via different synthetic routes. Remarkably, despite its technological importance, full structural and electronic characterization of these polymorphs remains an open area of study. δ-UO 3 in particular has attracted significant theoretical attention due to its high point group and space group symmetries, having U (VI) in octahedral coordination with polyhedra interconnected through corner-sharing to build a 3-D cubic lattice with space group symmetry Pm-3m and Z = 1. Critical experimental information, such as its optical vibrational spectra, are not known. Here, we study the Raman and infrared (IR) spectra of δ-UO 3 together with the support of density functional theory (DFT) calculations for spectral interpretation. A symmetry analysis of the DFT-predicted phonon eigenmodes indicates that δ-UO 3 should have two IR active modes and no Raman active modes. Experimental results, however, indicate significant Raman scattering from δ-UO 3 . We therefore propose four potential explanations for this apparent contradiction: a possible tetragonal distortion to the cubic cell, the existence of a surface impurity layer, vacancy scattering, and structural activation of Raman signal. We use powder X-ray diffraction and confocal Raman spectroscopy with depth profiling to investigate these possibilities and suggest future experiments to explore this phenomenon in more detail. Understanding the lattice dynamics of δ-UO 3 is important for identification of technogenic U phases via Raman and infrared spectroscopy and our results indicate that the simple understanding of δ-UO 3 as a high-symmetry cubic structure should be reconsidered.

98 NUCLEAR DISARMAMENT, SAFEGUARDS, AND PHYSICAL P↗

NASA NTRS1991

Design of an inflatable, optically controlled and fed, phased array antenna

Initial studies on the antenna requirements of the Space Exploration Initiative (SEI) system architecture have indicated the need for large, lightweight antennas. This paper discusses the design of a modular, inflatable, optically controlled and fed phased array antenna suitable for SEI aplications. When high gain antennas are required for space applications, large aperture mesh or collapsible solid antenna reflectors are considered. However, these designs are generally not lightweight, and have complicated deployment mechanisms. Alternatively, the modular, inflatable antenna design discussed here is a lightweight, modular design that incorporates a simple deployment scheme, and after deployment, can be rigidized to enhance its structural integrity. Further, the design features the fiberoptic distribution of both RF and control signals to individual microwave integrated circuit/reflector modules in each of the inflatable, phased array antenna cells. The result of combining these two technologies is a modular, phased array antenna design that is both mechanically and electrically agile and robust.

Kunath, Richard R.↗

NASA NTRS1993

Odyssey personal communications satellite system

The spectacular growth of cellular telephone networks has proved the demand for personal communications. Large regions of the world are too sparsely populated to be economically served by terrestrial cellular communications. Since satellites are well suited to this application, TRW filed with the FCC on May 31, 1993 for the Odyssey construction permit. Odyssey will provide high quality wireless communication services worldwide from satellites. These services will include: voice, data, paging, and messaging. Odyssey will be an economical approach to providing communications. A constellation of 12 satellites will be orbited in three, 55 deg. inclined planes at an altitude of 10,354 km to provide continuous coverage of designated regions. Two satellites will be visible anywhere in the world at all times. This dual visibility leads to high line-of-sight elevation angles, minimizing obstructions by terrain, trees and buildings. Each satellite generates a multibeam antenna pattern that divides its coverage area into a set of contiguous cells. The communications system employs spread spectrum CDMA on both the uplinks and downlinks. This signaling method permits band sharing with other systems and applications. Signal processing is accomplished on the ground at the satellite's 'Gateway' stations. The 'bent pipe' transponders accommodates different regional standards, as well as signaling changes over time. The low power Odyssey handset will be cellular compatible. Multipath fade protection is provided in the handset.

Spitzer, Christopher J.↗

NASA NTRS1994

Measurement Capabilities of Single-Pulse Planar Doppler Velocimetry

Preliminary investigations are described of a method that is capable of measuring instantaneous, 3-D, velocity vectors everywhere in a light sheet generated by a pulsed laser. The technique, here called Planar Doppler Velocimetry (PDV), is a variation of a new concept for velocity measurements that was called Doppler Global Velocimetry (DGV) in its original disclosure. The concept relies on the use of a narrowband laser and measurements of the Doppler shift of scattered light from particles moving with a flow. The Doppler shift is recorded as a variation in transmission through a sharp-edged spectral filter provided by iodine vapor in a cell. Entire fields of velocity can be determined by using a solid-state camera to record the intensity variations throughout the field of view. However, the implementation of DGV has been centered principally on the use of high power, continuous-wave, ion lasers and measurement times that are determined by the 30-ms framing times of standard video cameras. Hence, they provide velocity fields that are averaged in time at least over that period. On the other hand, the PDV concept described in this presentation incorporates a high energy, repetitively pulsed, Nd-YAG laser that is injection-seeded to make it narrowband and then frequency-doubled to provide light at frequencies absorbed by the iodine vapor. The duration of each pulse is less than 10 nanoseconds. When used in combination with nonstandard, scientific quality, solid state cameras, a sequence of images can be obtained that provides instantaneous velocity vectors everywhere in the field of view. The investigations described in this paper include an accurate characterization of the iodine cell spectral behavior and its influence on the PDV measurements, a derivation of the PDV signal analysis requirements, and the unique aspects of the pulsed laser behavior related to this application. In addition, PDV measurements are to be demonstrated using data from a rotating wheel target and from the flow of a subsonic jet. Initially, single optical fiber light collection and photomultiplier detectors will be substituted for solid state cameras. Those results will allow the determination of the fundamental limitations of the PDV technique without the complications of image acquisition and processing. They will then be used to provide an analysis of the measurement capabilities of PDV both in small aerodynamic research wind tunnels and in large wind tunnels designed for production airframe and propulsion testing. Future plans include the implementation of solid state cameras and the development of the required image acquisition and processing software. Eventually, the PDV technique will be applied to an aerodynamic research program related to transonic wing flutter.

McKenzie, Robert L.↗

NASA NTRS2001

Amyloplast sedimentation dynamics in maize columella cells support a new model for the gravity-sensing apparatus of roots

Quantitative analysis of statolith sedimentation behavior was accomplished using videomicroscopy of living columella cells of corn (Zea mays) roots, which displayed no systematic cytoplasmic streaming. Following 90 degrees rotation of the root, the statoliths moved downward along the distal wall and then spread out along the bottom with an average velocity of 1.7 microm min(-1). When statolith trajectories traversed the complete width or length of the cell, they initially moved horizontally toward channel-initiation sites and then moved vertically through the channels to the lower side of the reoriented cell where they again dispersed. These statoliths exhibited a significantly lower average velocity than those sedimenting on distal-to-side trajectories. In addition, although statoliths undergoing distal-to-side sedimentation began at their highest velocity and slowed monotonically as they approached the lower cell membrane, statoliths crossing the cell's central region remained slow initially and accelerated to maximum speed once they reached a channel. The statoliths accelerated sooner, and the channeling effect was less pronounced in roots treated with cytochalasin D. Parallel ultrastructural studies of high-pressure frozen-freeze-substituted columella cells suggest that the low-resistance statolith pathway in the cell periphery corresponds to the sharp interface between the endoplasmic reticulum (ER)-rich cortical and the ER-devoid central region of these cells. The central region is also shown to contain an actin-based cytoskeletal network in which the individual, straight, actin-like filaments are randomly distributed. To explain these findings as well as the results of physical simulation experiments, we have formulated a new, tensegrity-based model of gravity sensing in columella cells. This model envisages the cytoplasm as pervaded by an actin-based cytoskeletal network that is denser in the ER-devoid central region than in the ER-rich cell cortex and is linked to stretch receptors in the plasma membrane. Sedimenting statoliths are postulated to produce a directional signal by locally disrupting the network and thereby altering the balance of forces acting on the receptors in different plasma membrane regions.

NASA Program Fundamental Space Biology↗

NASA NTRS2000

Regulation of sucrose metabolism in higher plants: localization and regulation of activity of key enzymes

Sucrose (Suc) plays a central role in plant growth and development. It is a major end product of photosynthesis and functions as a primary transport sugar and in some cases as a direct or indirect regulator of gene expression. Research during the last 2 decades has identified the pathways involved and which enzymes contribute to the control of flux. Availability of metabolites for Suc synthesis and 'demand' for products of sucrose degradation are important factors, but this review specifically focuses on the biosynthetic enzyme sucrose-phosphate synthase (SPS), and the degradative enzymes, sucrose synthase (SuSy), and the invertases. Recent progress has included the cloning of genes encoding these enzymes and the elucidation of posttranslational regulatory mechanisms. Protein phosphorylation is emerging as an important mechanism controlling SPS activity in response to various environmental and endogenous signals. In terms of Suc degradation, invertase-catalyzed hydrolysis generally has been associated with cell expansion, whereas SuSy-catalyzed metabolism has been linked with biosynthetic processes (e.g., cell wall or storage products). Recent results indicate that SuSy may be localized in multiple cellular compartments: (1) as a soluble enzyme in the cytosol (as traditionally assumed); (2) associated with the plasma membrane; and (3) associated with the actin cytoskeleton. Phosphorylation of SuSy has been shown to occur and may be one of the factors controlling localization of the enzyme. The purpose of this review is to summarize some of the recent developments relating to regulation of activity and localization of key enzymes involved in sucrose metabolism in plants.

NASA Discipline Plant Biology↗

NASA NTRS1998

Nonselective block by La3+ of Arabidopsis ion channels involved in signal transduction

Lanthanide ions such as La3+ are frequently used as blockers to test the involvement of calcium channels in plant and animal signal transduction pathways. For example, the large rise in cytoplasmic Ca2+ concentration triggered by cold shock in Arabidopsis seedlings is effectively blocked by 10 mM La3+ and we show here that the simultaneous large membrane depolarization is similarly blocked. However, a pharmacological tool is only as useful as it is selective and the specificity of La3+ for calcium channels was brought into question by our finding that it also blocked a blue light (BL)-induced depolarization that results from anion channel activation and believed not to involve calcium channels. This unexpected inhibitory effect of La3+ on the BL-induced depolarization is explained by our finding that 10 mM La3+ directly and completely blocked the BL-activated anion channel when applied to excised patches. We have investigated the ability of La3+ to block noncalcium channels in Arabidopsis. In addition to the BL-activated anion channel, 10 mM La3+ blocked a cation channel and a stretch-activated channel in patches of plasma membrane excised from hypocotyl cells. In root cells, 10 mM La3+ inhibited the activity of an outward-rectifying potassium channel at the whole cell and single-channel level by 47% and 58%, respectively. We conclude that La3+ is a nonspecific blocker of multiple ionic conductances in Arabidopsis and may disrupt signal transduction processes independently of any effect on Ca2+ channels.

Non-NASA Center↗