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At least 55 records · Page 3

The S solubility of Cr and Al containing simulated low-activity waste glass

Here, the presence of sulfur-containing molten salt phases during vitrification is a particular problem which can be detrimental to the melter. Borosilicate compositions were designed to explore both the effects of a fixed amount of Cr, as Cr 2 O 3 or Na 2 CrO 4 , and the impact of Al 2 O 3 , on sulfur solubility as determined by progressively adding elemental S. The NABS series (with Al 2 O 3 ) has a higher SO 3 solubility of ~3.5 mol% while the NBS series (without Al 2 O 3 ) has a SO 3 solubility of ~2 mol%. Crystalline Cr 2 O 3 formed in the NABS series upon the addition of S but is not present in the NBS series. At the highest S addition, a separate salt phase always forms, and was identified as Na 2 (S,Cr)O 4 via electron dispersive spectroscopy, ultraviolet-visible spectroscopy, x-ray diffraction, and thermal analysis. Magic angle spinning nuclear magnetic resonance identified no change in the B coordination in either series as S is added, suggesting that the Na is scavenged from other locations, such as the Si sites, to charge compensate sulfate, whether in the glass or in the salt. The Cr precursor identity did not affect the observed overall behavior regarding sulfur, but did impact Cr redox as identified with Raman spectroscopy.

36 MATERIALS SCIENCE↗

Identification of $\mathrm{IOMA}$-class neutralizing antibodies targeting the $\mathrm{CD4}$-binding site on the $\mathrm{HIV}$-1 envelope glycoprotein

A major goal of current HIV-1 vaccine design efforts is to induce broadly neutralizing antibodies (bNAbs). The VH1-2-derived bNAb IOMA directed to the CD4-binding site of the HIV-1 envelope glycoprotein is of interest because, unlike the better-known VH1-2-derived VRC01-class bNAbs, it does not require a rare short light chain complementarity-determining region 3 (CDRL3). Here, we describe three IOMA-class NAbs, ACS101-103, with up to 37% breadth, that share many characteristics with IOMA, including an average-length CDRL3. Cryo-electron microscopy revealed that ACS101 shares interactions with those observed with other VH1-2 and VH1-46-class bNAbs, but exhibits a unique binding mode to residues in loop D. Analysis of longitudinal sequences from the patient suggests that a transmitter/founder-virus lacking the N276 glycan might have initiated the development of these NAbs. Together these data strengthen the rationale for germline-targeting vaccination strategies to induce IOMA-class bNAbs and provide a wealth of sequence and structural information to support such strategies.

59 BASIC BIOLOGICAL SCIENCES↗

Structural and functional analyses of SARS-CoV-2 Nsp3 and its specific interactions with the 5’ UTR of the viral genome

ABSTRACT Non-structural protein 3 (Nsp3) is the largest open reading frame encoded in the SARS-CoV-2 genome, essential for the formation of double-membrane vesicles (DMV) wherein viral RNA replication occurs. We conducted an extensive structure-function analysis of Nsp3 and determined the crystal structures of the ubiquitin-like 1 (Ubl1), nucleic acid binding (NAB), β-coronavirus-specific marker (βSM) domains, and a sub-region of the Y domain of this protein. We show that the Ubl1, ADP-ribose phosphatase (ADRP), human SARS Unique (HSUD), NAB, and Y domains of Nsp3 bind the 5’ UTR of the viral genome and that the Ubl1 and Y domains possess affinity for recognition of this region, suggesting high specificity. The Ubl1-Nucleocapsid (N) protein complex binds the 5’ UTR with greater affinity than the individual proteins alone. Our results suggest that multiple domains of Nsp3, particularly Ubl1 and Y, shepherd the 5’ UTR of the viral genome during translocation through the DMV membrane, priming the Ubl1 domain to load the genome onto N protein. IMPORTANCE The largest protein encoded by the SARS-CoV-2 genome is Nsp3. In infected cells, this multi-domain protein forms a pore structure in the virus-induced double-membrane vesicles (DMV). We have incomplete data on Nsp3 molecular structure, and here, we describe crystal structures for multiple domains of Nsp3. It is thought that newly replicated viral RNA transits through the DMV pore; however, we possess incomplete data on which regions of Nsp3 actually interact with RNA. Here, we present data showing that five domains of Nsp3 interact with the 5’ UTR of the SARS-CoV-2 RNA, including the Y domain for which no function has ever been discovered. These data suggest that the pore structure plays an active role in recognizing the terminal end of the genome, transiting and loading the viral RNA onto the cytoplasmic nucleocapsid protein. These data help expand our knowledge of Nsp3 structure and function and the SARS-CoV-2 replication cycle.

Microbiology↗

Index tests for geosynthetic clay liners containing bentonite–polymer composites

The hydraulic conductivity of geosynthetic clay liners (GCLs) containing bentonite–polymer composites (BPCs) is controlled by a pore clogging mechanism related to the swelling of sodium bentonite (NaB) granules and formation of polymer gel in the pore space. Three index testing procedures that are influenced by bentonite swelling and rheology of the polymer gel were evaluated in this study for screening BPC GCLs for hydraulic conductivity: viscosity, liquid limit by fall-cone penetration and active water content. Experiments were conducted using polyacrylamide (PAM) polymer, dry-blended mixtures of PAM and NaB and a BPC from a commercially available GCL. These materials were contacted with inorganic solutions representing leachates from a range of waste containment scenarios. For the BPC that was evaluated, hydraulic conductivities less than 10 -10 m/s were obtained when the viscosity exceeded 220 mPa s and the active water content exceeded 300%. Hydraulic conductivities less than 10 -11 m/s were achieved for viscosity exceeding 350 mPa s, fall-cone liquid limit exceeding 190 and active water content exceeding 300%. Additional testing is needed to assess the generality of these index tests and the identified thresholds when applied to other BPC GCLs and other permeant liquids.

Engineering↗

Delta-Rice: A HDF5 Compression Plugin optimized for Digitized Detector Data

Delta-Rice is an HDF5 (The HDF Group et al., 2020) filter plugin that was developed to compress digitized detector signals recorded by the Nab experiment (Fry et al., 2019), a fundamental neutron physics experiment. This is a two-step process where incoming data is passed through a pre-processing filter and then compressed with Rice coding. A routine for determining the optimal pre-processing filter for a dataset is provided along with an example GPU deployment. When applied to data collected by the Nab data acquisition system, this method produced output files 29% their initial size, and was able to do so with an average read/write throughput in excess of 2 GB/s on a single CPU. Compared to the widely used Gzip compression routine, Delta-Rice reduces the file size by 33% more with over an order of magnitude increase in read/write throughput. Delta-Rice is available on CPU to users through the HDF5 library.

97 MATHEMATICS AND COMPUTING↗

Ionized Absorbers in Active Galactic Nuclei and Very Steap Soft X-Ray Quasars

Steep soft X-ray (0.1-2 keV) quasars share several unusual properties: narrow Balmer lines, strong Fe II emission, large and fast X-ray variability, and a rather steep 2-10 keV spectrum. These intriguing objects have been suggested to be the analogues of Galactic black hole candidates in the high, soft state. We present here results from ASCA observations for two of these quasars: NAB 0205 + 024 and PG 1244 + 026. Both objects show similar variations (factor of approximately 2 in 10 ks), despite a factor of approximately 10 difference in the 0.5-10 keV luminosity (7.3 x 10(exp 43) erg/s for PG 1244 + 026 and 6.4 x 10(exp 44) erg/s for NAB 0205 + 024, assuming isotropic emission, H(sub 0) = 50.0 and q(sub 0) = 0.0). The X-ray continuum of the two quasars flattens by 0.5-1 going from the 0.1-2 keV band towards higher energies, strengthening recent results on another half-dozen steep soft X-ray active galactic nuclei. PG 1244 + 026 shows a significant feature in the '1-keV' region, which can be described either as a broad emission line centered at 0.95 keV (quasar frame) or as edge or line absorption at 1.17 (1.22) keV. The line emission could be a result of reflection from a highly ionized accretion disc, in line with the view that steep soft X-ray quasars are emitting close to the Eddington luminosity. Photoelectric edge absorption or resonant line absorption could be produced by gas outflowing at a large velocity (0.3-0.6 c).

Fiore, Fabrizio↗

Engineering a Live UHD Program from the International Space Station

The first-ever live downlink of Ultra-High Definition (UHD) video from the International Space Station (ISS) was the highlight of a “Super Session” at the National Association of Broadcasters (NAB) Show in April 2017. Ultra-High Definition is four times the resolution of “full HD” or “1080P” video. Also referred to as “4K”, the Ultra-High Definition video downlink from the ISS all the way to the Las Vegas Convention Center required considerable planning, pushed the limits of conventional video distribution from a space-craft, and was the first use of High Efficiency Video Coding (HEVC) from a space-craft. The live event at NAB will serve as a pathfinder for more routine downlinks of UHD as well as use of HEVC for conventional HD downlinks to save bandwidth. A similar demonstration was conducted in 2006 with the Discovery Channel to demonstrate the ability to stream HDTV from the ISS. This paper will describe the overall work flow and routing of the UHD video, how audio was synchronized even though the video and audio were received many seconds apart from each other, and how the demonstration paves the way for not only more efficient video distribution from the ISS, but also serves as a pathfinder for more complex video distribution from deep space. The paper will also describe how a “live” event was staged when the UHD video coming from the ISS had a latency of 10+ seconds. In addition, the paper will touch on the unique collaboration between the inherently governmental aspects of the ISS, commercial partners Amazon and Elemental, and the National Association of Broadcasters.

Grubbs, Rodney↗

Live Ultra-High Definition from the International Space Station

The first ever live downlink of Ultra-High Definition (UHD) video from the International Space Station (ISS) was the highlight of a 'Super Session' at the National Association of Broadcasters (NAB) in April 2017. The Ultra-High Definition video downlink from the ISS all the way to the Las Vegas Convention Center required considerable planning, pushed the limits of conventional video distribution from a space-craft, and was the first use of High Efficiency Video Coding (HEVC) from a space-craft. The live event at NAB will serve as a pathfinder for more routine downlinks of UHD as well as use of HEVC for conventional HD downlinks to save bandwidth. HEVC may also enable live Virtual Reality video downlinks from the ISS. This paper will describe the overall work flow and routing of the UHD video, how audio was synchronized even though the video and audio were received many seconds apart from each other, and how the demonstration paves the way for not only more efficient video distribution from the ISS, but also serves as a pathfinder for more complex video distribution from deep space. The paper will also describe how a 'live' event was staged when the UHD coming from the ISS had a latency of 10+ seconds. Finally, the paper will discuss how NASA is leveraging commercial technologies for use on-orbit vs. creating technology as was required during the Apollo Moon Program and early space age.

Grubbs, Rodney↗

A novel, steerable, low-energy proton source for detector characterization

We report on the conversion of the Manitoba II mass spectrometer into a versatile low-energy proton beam facility. This infrastructure is adaptable to any detector-under-test (DUT), and has proven itself effective with the characterization of silicon detectors used in subatomic beyond-the-Standard-Model (BSM) searches, namely the Nab experiment. A pencil beam of mono-energetic protons can be produced in a range from 25 keV to 35 keV, achieving a beam current of ~1 x 10 -18 A. Electrostatic steering plates were constructed to direct the Gaussian-profile proton beam over a 117 mm diameter area-of-interest with full-width at half-maxima (FWHM) ranging from 0.6 mm to 1.26 mm. This work discusses the modifications and subsequent tests to confirm the beam specifications met the demands of the aforementioned detectors.

Fundamental neutron physics↗

A Germline-Targeting Chimpanzee SIV Envelope Glycoprotein Elicits a New Class of V2-Apex Directed Cross-Neutralizing Antibodies

HIV-1 and its SIV precursors share a broadly neutralizing antibody (bNAb) epitope in variable loop 2 (V2) at the envelope glycoprotein (Env) trimer apex. Here, we tested the immunogenicity of germ line-targeting versions of a chimpanzee SIV (SIVcpz) Env in human V2-apex bNAb heavy-chain precursor-expressing knock-in mice and as chimeric simian-chimpanzee immunodeficiency viruses (SCIVs) in rhesus macaques (RMs). Trimer immunization of knock-in mice induced V2-directed NAbs, indicating activation of V2-apex bNAb precursor-expressing mouse B cells. SCIV infection of RMs elicited high-titer viremia, potent autologous tier 2 neutralizing antibodies, and rapid sequence escape in the canonical V2-apex epitope. Six of seven animals also developed low-titer heterologous plasma breadth that mapped to the V2-apex. Antibody cloning from two of these animals identified multiple expanded lineages with long heavy chain third complementarity determining regions that cross-neutralized as many as 7 of 19 primary HIV-1 strains, but with low potency. Negative stain electron microscopy (NSEM) of members of the two most cross-reactive lineages confirmed V2 targeting but identified an angle of approach distinct from prototypical V2-apex bNAbs, with antibody binding either requiring or inducing an occluded-open trimer. Probing with conformation-sensitive, nonneutralizing antibodies revealed that SCIV-expressed, but not wild-type SIVcpz Envs, as well as a subset of primary HIV-1 Envs, preferentially adopted a more open trimeric state. These results reveal the existence of a cryptic V2 epitope that is exposed in occluded-open SIVcpz and HIV-1 Env trimers and elicits cross-neutralizing responses of limited breadth and potency.

59 BASIC BIOLOGICAL SCIENCES↗

Community-Scale Solar Deployment in the Northwest Arctic

NANA Regional Corporation (NRC, or NANA) was formed as an Alaska Native Corporation (ANC) pursuant to the Alaska Native Claims Settlement Act of 1971. Our lands cover 39,000 square miles of the Northwest Arctic region of Alaska. We partner closely with the Northwest Arctic Borough (NAB) and our 11 remote communities on numerous projects and activities, especially around clean energy initiatives that improve quality of life and help to reduce extremely high energy costs experienced by the communities in our region. Collectively, the regional partnership has developed numerous successful solar, wind, biomass, and energy storage, distribution upgrade, and efficiency projects. To further progress, we created the Northwest Arctic Energy Steering Committee to share and replicate these benefits across the region. NANA’s mission is to provide economic opportunities for our more than 13,500 Iñupiat shareholders and to protect and enhance NANA lands.

14 SOLAR ENERGY↗

High Penetration Solar and Battery Project in Noatak, Alaska

Through funding from the Department of Energy’s Office of Indian Energy, the Northwest Arctic Borough (NAB) and the Native Village of Noatak (NNV) formed a Tribal Energy Development Organization (TEDO) to implement the Noatak Solar and Battery Project to reduce reliance on costly imported diesel, stabilize energy costs, and strengthen local energy sovereignty.

14 SOLAR ENERGY↗

Defining criteria for broadly neutralizing HIV antibodies

Over the course of a few years, a small percentage of individuals with HIV-1 develop broadly neutralizing antibodies (bnAbs) capable of neutralizing diverse viruses. Although hundreds of antibodies with neutralizing activity against heterologous viruses have been referred to as bnAbs, there is no universally accepted numerical definition of a bnAb. Here, we will review important elements of HIV neutralizing antibodies and proposed definitions of bnAbs, as well as introduce a web-based tool, CAByN (Choose Antibodies by Neutralization), allowing users to identify antibodies meeting their numerical definitions of a bnAb from data in the Los Alamos HIV Databases CATNAP (Compile, Analyze and Tally NAb Panels) antibody neutralization database. Biological findings from use of CAByN are also presented here, including differential neutralizing activity for certain antibodies across viral clades, and identification of antibodies with suspected incomplete neutralization. Website address: http://hiv.lanl.gov/content/sequence/CABYN/CABYN.html.

59 BASIC BIOLOGICAL SCIENCES↗

Optical studies of 10 high galactic latitude X-ray sources

Optical studies are reported for a representative sample of 10 unidentified high galactic latitude X-ray sources that are north of declination minus 25 deg and that have 3U error boxes less than or of the order of 0.5 square degrees. The source 3U 1410-03 is identified with a peculiar emission-line spiral galaxy, NGC 5506, and a distance group 4 rich cluster of galaxies, Abell 2142, is suggested as a possible identification for 3U 1555+27. It is shown that very few of the unidentified high galactic latitude sources are quasi-stellar sources brighter than 17.5 mag, although one possible X-ray quasar, NAB 0137-01, is reported.

Bahcall, J. N.↗

The diversity of soft X-ray spectra in quasars

Soft X-ray spectra for three quasars obtained with the Einstein Imaging Proportional Counter covering the 0.1-4.0 keV band are reported. Power-law fits to these spectra have best-fit energy indices of 1.2 +0.6 or -0.2, for the quasar NAB 0205 + 024, 0.6 +0.3 or -0.2 for the quasar B2 1028 + 313, and 2.2 + or -0.4 for the quasar PG 1211 + 143. None of the quasars shows any evidence for a column density of cold matter in excess of the galactic values. The derived spectra demonstrate that there is no single universal power law slope for quasar X-ray spectra. The implications of these results for the X-ray background, X-ray continuum emission mechanisms, and the production of the optical/UV emission lines are briefly discussed.

Elvis, M.↗

The P-Mesh: A Commodity-based Scalable Network Architecture for Clusters

We designed a new network architecture, the P-Mesh which combines the scalability and fault resilience of a torus with the performance of a switch. We compare the scalability, performance, and cost of the hub, switch, torus, tree, and P-Mesh architectures. The latter three are capable of scaling to thousands of nodes, however, the torus has severe performance limitations with that many processors. The tree and P-Mesh have similar latency, bandwidth, and bisection bandwidth, but the P-Mesh outperforms the switch architecture (a lower bound for tree performance) on 16-node NAB Parallel Benchmark tests by up to 23%, and costs 40% less. Further, the P-Mesh has better fault resilience characteristics. The P-Mesh architecture trades increased management overhead for lower cost, and is a good bridging technology while the price of tree uplinks is expensive.

Nitzberg, Bill↗

The Automated Instrumentation and Monitoring System (AIMS): Design and Architecture

Whether a researcher is designing the 'next parallel programming paradigm', another 'scalable multiprocessor' or investigating resource allocation algorithms for multiprocessors, a facility that enables parallel program execution to be captured and displayed is invaluable. Careful analysis of such information can help computer and software architects to capture, and therefore, exploit behavioral variations among/within various parallel programs to take advantage of specific hardware characteristics. A software tool-set that facilitates performance evaluation of parallel applications on multiprocessors has been put together at NASA Ames Research Center under the sponsorship of NASA's High Performance Computing and Communications Program over the past five years. The Automated Instrumentation and Monitoring Systematic has three major software components: a source code instrumentor which automatically inserts active event recorders into program source code before compilation; a run-time performance monitoring library which collects performance data; and a visualization tool-set which reconstructs program execution based on the data collected. Besides being used as a prototype for developing new techniques for instrumenting, monitoring and presenting parallel program execution, AIMS is also being incorporated into the run-time environments of various hardware testbeds to evaluate their impact on user productivity. Currently, the execution of FORTRAN and C programs on the Intel Paragon and PALM workstations can be automatically instrumented and monitored. Performance data thus collected can be displayed graphically on various workstations. The process of performance tuning with AIMS will be illustrated using various NAB Parallel Benchmarks. This report includes a description of the internal architecture of AIMS and a listing of the source code.

Yan, Jerry C.↗

Development of an UltraNet Based Distributed Visualization Application

The example application is a distributed visualization involving a supercomputer and a graphics workstation. The visualization computation is performed on a Connection Machine, end the results are rendered using a Silicon Graphics Workstations The UltraNet network installed at NAB allows high-bandwidth communication between the computers. Ideally, taking advantage of the UltraNet is no more complex than developing TCP/IP and Unix BSD socket-type applications on a single machine. In practice, there are several problems in developing an Application using the UltraNet. This paper identifies potential problems and discusses techniques for overcoming them. Performance of UltraNet communication is measured and found to be 10 MB/sec for SGI VGX workstations.

Krystynak, John↗