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DOE OSTI2020

TBDB: a database of structurally annotated T-box riboswitch:tRNA pairs

Abstract T-box riboswitches constitute a large family of tRNA-binding leader sequences that play a central role in gene regulation in many gram-positive bacteria. Accurate inference of the tRNA binding to T-box riboswitches is critical to predict their cis-regulatory activity. However, there is no central repository of information on the tRNA binding specificities of T-box riboswitches, and de novo prediction of binding specificities requires advanced knowledge of computational tools to annotate riboswitch secondary structure features. Here, we present the T-box Riboswitch Annotation Database (TBDB, https://tbdb.io), an open-access database with a collection of 23,535 T-box riboswitch sequences, spanning the major phyla of 3,632 bacterial species. Among structural predictions, the TBDB also identifies specifier sequences, cognate tRNA binding partners, and downstream regulatory targets. To our knowledge, the TBDB presents the largest collection of feature, sequence, and structural annotations carried out on this important family of regulatory RNA.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2023

Solar Farm Development Impacts on Eastern Box Turtle ( Terrapene carolina ) Home Ranges

Eastern Box Turtle (Terrapene carolina) populations have declined drastically since 1970 because of continued destruction and fragmentation of their habitat. Although they are known to shift their home ranges because of environmental degradation, it is unknown how solar arrays impact Eastern Box Turtles. From 2011–2018, we collected data on Eastern Box Turtle movement and occupancy in a 79-ha solar farm. The solar farm is divided into six fenced areas, each containing wildlife openings for movement of terrestrial fauna every 23 m around the fenced solar arrays. For this work, we hypothesized that the solar arrays changed the home range sizes of turtles that interacted with the field. We fitted 41 Eastern Box Turtles with radio transmitters and tracked their locations twice per week in June–August from 2011–2018. Seventeen turtles had home ranges that overlapped with the solar arrays whereas 24 turtles had home ranges that never interacted with the solar arrays. We calculated home range sizes and tested for differences between overlapping and nonoverlapping groups. We further considered if the number of observations within the solar farm impacted home range size and displacement. We found that Eastern Box Turtles that used the solar farm exhibited 55–83% larger home ranges on average than turtles in natural habitats, but there was no significant association of home range size with the amount of time observed within the solar farm. Finally, we discuss strategies to mitigate negative impacts of solar farm development on turtles.

Radio telemetry↗

DOE OSTI2019

CHL1 2K COLD BOX REPLACEMENT

There is growing evidence showing that the cold compressors in the Modified Sub-atmospheric Cold Box (SC1/SCM) of the JLab Central Helium Liquefier (CHL) are approaching the end of their life. Their replacement parts are no longer available due to obsolescence, thus placing the Physics program at serious risk. A new sub-atmospheric cold box (SC1R), which hosts five technologically superior, water-cooled cold compressors and a similar 4K-2K refrigeration recovery heat exchanger, was funded in July 2017, to replace the existing 2K cold box. The design of the new 2K cold box and the external support system have been completed allowing the project to enter the fabrication and assembly phase, which will be completed here at JLab. We present the design, fabrication, installation and commissioning schedule of the new 2K cold box.

Yang, Shirley↗

DOE OSTI2020

Ozone Gas: Scientific Justification and Practical Guidelines for Improvised Disinfection using Consumer-Grade Ozone Generators and Plastic Storage Boxes

Here, we describe direct measurements of ozone concentration achievable in small enclosed containers (plastic storage boxes) for use as improvised decontamination systems for small articles such as disposable PPE (N95 masks, nitrile gloves, etc.), clothing, mail and small packages, food, and other miscellaneous articles. The emphasis is on the reliable and sustained generation of ozone gas concentrations of sufficient concentration and duration to create an effective virucidal environment to achieve more than 95% to 99% viral inactivation, based upon the data already published in the peer-review literature on this topic. The suggestion that ozone be used to inactivate virus is certainly not a new idea. Our objective in this report is to make clear that the necessary levels of ozone can be improvised using simple, easy-to-use, inexpensive, and widely available supplies, and that there is every theoretical and experimental reason to believe that this approach is as highly effective in viral inactivation by ozone as are the far more expensive, complex, cumbersome, and less available equivalent ozone (and other) disinfectant systems that have themselves become unavailable during times of pandemic crisis. Using multiple types of readily available commercial ozone generators, concentration in the tested improvised enclosure is tracked over time to assess ozone charging and decay rates, and the ozone quenching effects of items placed in the box. Generator performance is compared against published ozone dosage values for virucidal and antimicrobial activity. Bubbler and box-fan-type ozone generators were found to be effective at achieving and maintaining target concentrations of 10ppm ozone or higher, whereas automotive cigarette lighter and universal serial bus type plug in “air freshener” ozone generators could not achieve the target concentrations in these experiments. Calculations and practical guidelines for assembly and effective use of an ozone box for improvised decontamination are offered. The majority of this report is directed toward the scientific justification and rationale for this approach. The end of the document summarizes the findings and offers simplified designs for the construction and use of ozone boxes as an improvised method of disinfection.

60 APPLIED LIFE SCIENCES↗

NASA NTRS1986

Box truss antenna technology status

Recent technology development activities for box truss structures and box truss antennas are summarized. Three primary activities are discussed: the development of an integrated analysis system for box truss mesh antennae; dynamic testing to characterize the effect of joint free play on the dynamic behavior of box truss structures; and fabrication of a 4.5 meter diameter offset fed mesh reflector integrated to an all graphite epoxy box truss cube.

Coyner, J. V.↗

NASA NTRS1987

Box truss antenna technology status

Coyner, J. V.↗

NASA NTRS1990

The radiation pattern of a monopole antenna attached to a conducting box

A system investigation was undertaken to determine the radiation patterns of a monopole antenna mounted on a cubical conducting box over a ground plane. The effects of the location of the monopole and the electrical size of the box were compared with similar patterns measured over a flat ground plane and with numerically predicted values obtained from a method-of-moments patch code. It was concluded that the location at which a monopole antenna is mounted on a conducting box and the electrical size of the box clearly affect the overall radiation pattern of a monopole antenna. In general, mounting the antenna away from the center of the box will increase the depth of the nulls. In particular, planes will also increase the maximum E(phi) component of the field to the extent that it can become comparable to E(theta).

Chu, Andrew W. C.↗

NASA NTRS1992

Structural testing of the technology integration box beam

A full scale section of a transport aircraft wing box was designed, analyzed, fabricated, and tested. The wing box section, which was called the technology integration box beam, contained blade stiffened covers and T-stiffened channel spars constructed using graphite-epoxy materials. Covers, spars, and the aluminum ribs were assembled using mechanical fasteners. The box beam was statically tested for several loading conditions to verify the stiffness and strength characteristics of the composite wing design. Failure of the box beam occurred at 125 pct. of design limit load during the combined unbending and torsion ultimate design load test. It appears that the failure initiated at a stiffener runout location in the upper cover which resulted in rupture of the upper cover and portions of both spars.

Griffin, C. F.↗

NASA NTRS1992

Structural testing of the technology integration box beam

A full-scale section of a transport aircraft wing box was designed, analyzed, fabricated, and tested. The wing box section, which was called the technology integration box beam, contained blade stiffened covers and T-stiffened channel spars constructed using graphite/epoxy materials. Covers, spars, and the aluminum ribs were assembled using mechanical fasteners. The box beam was statically tested for several loading conditions to verify the stiffness and strength characteristics of the composite wing design. Failure of the box beam occurred at 125 percent of design limit load during the combined upbending and torsion ultimate design load test. It appears that the failure initiated at a stiffener runout location in the upper cover which resulted in rupture of the upper cover and portions of both spars.

Griffin, C. F.↗

NASA NTRS2000

BMI Sandwich Wing Box Analysis and Test

A composite sandwich single bay wing box test article was developed by Northrop Grumman and tested recently at NASA Langley Research Center. The objectives for the wing box development effort were to provide a demonstration article for manufacturing scale up of structural concepts related to a high speed transport wing, and to validate the structural performance of the design. The box concept consisted of highly loaded composite sandwich wing skins, with moderately loaded composite sandwich spars. The dimensions of the box were chosen to represent a single bay of the main wing box, with a spar spacing of 30 inches, height of 20 inches constant depth, and length of 64 inches. The bismaleimide facesheet laminates and titanium honeycomb core chosen for this task are high temperature materials able to sustain a 300F service temperature. The completed test article is shown in Figure 1. The tests at NASA Langley demonstrated the structures ability to sustain axial tension and compression loads in excess of 20,000 lb/in, and to maintain integrity in the thermal environment. Test procedures, analysis failure predictions, and test results are presented.

Palm, Tod↗

NASA NTRS2003

Analysis and Test Correlation of Proof of Concept Box for Blended Wing Body-Low Speed Vehicle

The Low Speed Vehicle (LSV) is a 14.2% scale remotely piloted vehicle of the revolutionary Blended Wing Body concept. The design of the LSV includes an all composite airframe. Due to internal manufacturing capability restrictions, room temperature layups were necessary. An extensive materials testing and manufacturing process development effort was underwent to establish a process that would achieve the high modulus/low weight properties required to meet the design requirements. The analysis process involved a loads development effort that incorporated aero loads to determine internal forces that could be applied to a traditional FEM of the vehicle and to conduct detailed component analyses. A new tool, Hypersizer, was added to the design process to address various composite failure modes and to optimize the skin panel thickness of the upper and lower skins for the vehicle. The analysis required an iterative approach as material properties were continually changing. As a part of the material characterization effort, test articles, including a proof of concept wing box and a full-scale wing, were fabricated. The proof of concept box was fabricated based on very preliminary material studies and tested in bending, torsion, and shear. The box was then tested to failure under shear. The proof of concept box was also analyzed using Nastran and Hypersizer. The results of both analyses were scaled to determine the predicted failure load. The test results were compared to both the Nastran and Hypersizer analytical predictions. The actual failure occurred at 899 lbs. The failure was predicted at 1167 lbs based on the Nastran analysis. The Hypersizer analysis predicted a lower failure load of 960 lbs. The Nastran analysis alone was not sufficient to predict the failure load because it does not identify local composite failure modes. This analysis has traditionally been done using closed form solutions. Although Hypersizer is typically used as an optimizer for the design process, the failure prediction was used to help gain acceptance and confidence in this new tool. The correlated models and process were to be used to analyze the full BWB-LSV airframe design. The analysis and correlation with test results of the proof of concept box is presented here, including the comparison of the Nastran and Hypersizer results.

Spellman, Regina L.↗

NASA NTRS2003

Characterization of Cracking and Crack Growth Properties of the C5A Aircraft Tie-Box Forging

Detailed destructive examinations were conducted to characterize the integrity and material properties of two aluminum alloy (7075-T6) horizontal stabilizer tie box forgings removed.from US. Air Force C5A and C5B transport aircraft. The C5B tie box forging was,found to contain no evidence of cracking. Thirteen cracks were found in the CSA,forging. All but one of the cracks observed in the C5A component were located along the top cap region (one crack was located in the bottom cap region). The cracks in the C5A component initiated at fastener holes and propagated along a highly tunneled intergranular crack path. The tunneled crack growth configuration is a likelv result of surface compressive stress produced during peening of the .forging suijace. The tie box forging ,fatigue crack growth, fracture and stress corrosion cracking (SCC) properties were characterized. Reported herein are the results of laboratory air ,fatigue crack growth tests and 95% relative humidity SCC tests conducted using specimens machined from the C5A ,forging. SCC test results revealed that the C5A ,forging material was susceptible to intergranular environmental assisted cracking: the C5A forging material exhibited a SCC crack-tip stress-intensity factor threshold of less than 6 MPadn. Fracture toughness tests revealed that the C5A forging material exhibited a fracture toughness that was 25% less than the C5B forging. The C5A forging exhibited rapid laboratory air fatigue crack growth rates having a threshold crack-tip stress-intensity factor range of less than 0.8 MPa sup m. Detailed fractographic examinations revealed that the ,fatigue crack intergranular growth crack path was similar to the cracking observed in the C5A tie box forging. Because both fatigue crack propagation and SCC exhibit similar intergranular crack path behavior, the damage mechanism resulting in multi-site cracking of tie box forgings cannot be determined unless local cyclic stresses can be quantified.

Piascik, Robert S.↗

NASA NTRS2016

Evaluation of Containment Boxes as a Fire Mitigation Method in Elevated Oxygen Conditions

NASA performed testing to evaluate the efficacy of fire containment boxes without forced ventilation. Configurational flammability testing was performed on a simulation avionics box replicating critical design features and filled with materials possessing representative flammability characteristics. This paper discusses the box's ability, under simulated end-use conditions, to inhibit the propagation of combustion to surrounding materials. Analysis was also performed to evaluate the potential for the fire containment box to serve as an overheat/ignition source to temperature sensitive equipment (such as items with lithium-ion batteries). Unrealistically severe combustion scenarios were used as a means to better understand the fire containment mechanism. These scenarios were achieved by utilizing materials/fuels not typically used in space vehicles due to flammability concerns. Oxygen depletion, during combustion within the fire containment boxes, drove self-extinguishment and proved an effective method of fire containment

Juarez, Alfredo↗

NASA NTRS1944

Secondary Stresses in Open Box Beams Subjected to Torsion

In open box beams subjected to torsion, secondary stresses arise owing to lateral bending of the spar caps. The present paper outlines a simple method for estimating the magnitude of these stresses and gives the results of tests of an open box beam in the neighborhood of a discontinuity where the cover changed from the top to the bottom of the box.

BULKHEADS-STRESSES↗

DOE OSTI2022

Exploiting the Local Parabolic Landscapes of Adversarial Losses to Accelerate Black-Box Adversarial Attack

Existing black-box adversarial attacks on image classifiers update the perturbation at each iteration from only a small number of queries of the loss function. Since the queries contain very limited information about the loss, black-box methods usually require much more queries than white-box methods. We propose to improve the query efficiency of black-box methods by exploiting the smoothness of the local loss landscape. However, many adversarial losses are not locally smooth with respect to pixel perturbations. To resolve this issue, our first contribution is to theoretically and experimentally justify that the adversarial losses of many standard and robust image classifiers behave like parabolas with respect to perturbations in the Fourier domain. Our second contribution is to exploit the parabolic landscape to build a quadratic approximation of the loss around the current state, and use this approximation to interpolate the loss value as well as update the perturbation without additional queries. Since the local region is already informed by the quadratic fitting, we use large perturbation steps to explore far areas. We demonstrate the efficiency of our method on MNIST, CIFAR-10 and ImageNet datasets for various standard and robust models, as well as on Google Cloud Vision. The experimental results show that exploiting the loss landscape can help significantly reduce the number of queries and increase the success rate. Our codes are available at https://github.com/HoangATran/BABIES.

Tran, Hoang↗

DOE OSTI2020

Assessment of CASL VERA for BWR analysis and application to accident tolerant SiC/SiC channel box

Application of the Virtual Environment for Reactor Applications (VERA) to BWR analysis is assessed in this paper by comparing results to those calculated using other widely-used modeling tools, namely the U.S. Nuclear Regulatory Commission’s PARCS/PATHS and the Serpent Monte Carlo particle transport code. Additionally, VERA is used to calculate 3-D temperature and fast neutron flux distributions in silicon carbide (SiC) fiber-reinforced, SiC matrix composite (SiC/SiC) BWR channel boxes, which are being studied as an Accident Tolerant Fuel core structural material concept. We found that the code-to-code comparisons were favorable, and the SiC/SiC channel box evaluation demonstrates the many advanced modeling features VERA provides while also highlighting the non-uniformity in fast neutron flux distributions that can play a role in potential SiC/SiC channel box deformation. Traditional BWR analysis tools do not have the calculation fidelity necessary for coupled assessment of flux and temperature gradients in a SiC/SiC channel box. VERA is a state-of-the-art modeling environment that was developed to increase the safety and economic competitiveness of nuclear power through improved modeling accuracy. While VERA has already been deployed in the nuclear industry for PWR applications, the current study is a vital initial step in the extensive development, validation, and verification that VERA must go through to be useful for BWR applications.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

DOE OSTI2021

Enantioselective C–H Amination Catalyzed by Nickel Iminyl Complexes Supported by Anionic Bisoxazoline (BOX) Ligands

The trityl-substituted bisoxazoline ( TrH BOX) was prepared as a chiral analogue to a previously reported nickel dipyrrin system capable of ring-closing amination catalysis. Ligand metalation with divalent NiI 2 (py) 4 followed by potassium graphite reduction afforded the monovalent (TrH BOX)Ni(py) (4). Slow addition of 1.4 equiv of a benzene solution of 1-adamantylazide to 4 generated the tetrazido ( TrH BOX)Ni(κ 2 -N 4 Ad 2 ) (5) and terminal iminyl adduct ( TrH BOX)Ni(NAd) (6). Investigation of 6 via single-crystal X-ray crystallography, NMR and EPR spectroscopies, and computations revealed a Ni(II)-iminyl radical formulation, similar to its dipyrrinato congener. Complex 4 exhibits enantioselective intramolecular C–H bond amination to afford N-heterocyclic products from 4-aryl-2-methyl-2-azidopentanes. Catalytic C–H amination occurs under mild conditions (5 mol % catalyst, 60 °C) and provides pyrrolidine products in decent yield (29%–87%) with moderate ee (up to 73%). Substrates with a 3,5-dialkyl substitution on the 4-aryl position maximized the observed enantioselectivity. Kinetic studies to probe the reaction mechanism were conducted using 1H and 19F NMR spectroscopies. A small, intermolecular kinetic isotope effect (1.35 ± 0.03) suggests an H-atom abstraction step with an asymmetric transition state while the reaction rate is measured to be first order in catalyst and zeroth order in substrate concentrations. Enantiospecific deuterium labeling studies show that the enantioselectivity is dictated by both the H-atom abstraction and radical recombination steps due to the comparable rate between radical rotation and C–N bond formation. Furthermore, the competing elements of the two-step reaction where H-removal from the pro-R configuration is preferred while the preferential radical capture occurs with the Si face of the carboradical likely lead to the diminished ee observed, as corroborated by theoretical calculations. Furthermore, based on these enantio-determining steps, catalytic enantioselective synthesis of 2,5-bis-tertiary pyrrolidines is demonstrated with good yield (50–78%) and moderate ee (up to 79%).

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2024

Optimization of lithium vapor box divertor evaporator location on NSTX-U using SOLPS-ITER

Commercial fusion reactors will be faced with extremely high divertor target heat fluxes that will require mitigation. Simulations of detachment in an NSTX-U scenario projected to have 92 MW/m 2 unmitigated peak target heat flux are presented, which reaches sub-10 MW/m 2 target heat flux using a highly dissipating lithium vapor box divertor design. The lithium vapor box is a detached divertor design which employs lithium vapor evaporation and condensation to contain lithium below the X-point. Previous SOLPS modeling has indicated a lithium vapor box can reduce the heat flux down to 10 MW/m 2 via simultaneous evaporation from the Private Flux Region (PFR) and the Common Flux Region (CFR) sides of the vapor box. It is found here that PFR evaporation has improved access to the separatrix leading to significantly more efficient power dissipation than CFR evaporation. Simulations of target evaporation with an evaporation distribution that is self-consistent with the temperature of a Capillary Porous System with Fast flowing liquid lithium (CPSF) could reach n Li / n e ~ 0.025-0.030 at the Last Closed Flux Surface (LCFS) depending on the liquid metal flow speeds and lithium sputtering yield, while PFR-side evaporation can reach acceptable heat fluxes with n Li / n e ~ 0.038 at the LCFS. However, PFR evaporator performance can be improved if the target is allowed to be hot enough such that it reflects lithium, reaching n Li / n e ~ 0.028 and reducing required lithium evaporation. Ultimately PFR evaporation and target evaporation are found to have similar ability to produce acceptable heat flux solutions with minimal upstream concentration.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗