Results for “representative sampling” — Page 32

DOE OSTI2021

A k-mer based approach for classifying viruses without taxonomy identifies viral associations in human autism and plant microbiomes

Viruses are an underrepresented taxa in the study and identification of microbiome constituents; however, they play an essential role in health, microbiome regulation, and transfer of genetic material. Only a few thousand viruses have been isolated, sequenced, and assigned a taxonomy, which limits the ability to identify and quantify viruses in the microbiome. Additionally, the vast diversity of viruses represents a challenge for classification, not only in constructing a viral taxonomy, but also in identifying similarities between a virus’ genotype and its phenotype. However, the diversity of viral sequences can be leveraged to classify their sequences in metagenomic and metatranscriptomic samples, even if they do not have a taxonomy. To identify and quantify viruses in transcriptomic and genomic samples, we developed a dynamic programming algorithm for creating a classification tree out of 715,672 metagenome viruses. To create the classification tree, we clustered proportional similarity scores generated from the k-mer profiles of each of the metagenome viruses to create a database of metagenomic viruses. The resulting Kraken2 database of the metagenomic viruses can be found here: https://www.osti.gov/biblio/1615774 and is compatible with Kraken2. We then integrated the viral classification database with databases created with genomes from NCBI for use with ParaKraken (a parallelized version of Kraken provided in Supplemental Zip 1), a metagenomic/transcriptomic classifier. To illustrate the breadth of our utility for classifying metagenome viruses, we analyzed data from a plant metagenome study identifying genotypic and compartment specific differences between two Populus genotypes in three different compartments. We also identified a significant increase in abundance of eight viral sequences in post mortem brains in a human metatranscriptome study comparing Autism Spectrum Disorder patients and controls. We also show the potential accuracy for classifying viruses by utilizing both the JGI and NCBI viral databases to identify the uniqueness of viral sequences. Finally, we validate the accuracy of viral classification with NCBI databases containing viruses with taxonomy to identify pathogenic viruses in known COVID-19 and cassava brown streak virus infection samples. Our method represents the compulsory first step in better understanding the role of viruses in the microbiome by allowing for a more complete identification of sequences without taxonomy. Better classification of viruses will improve identifying associations between viruses and their hosts as well as viruses and other microbiome members. Despite the lack of taxonomy, this database of metagenomic viruses can be used with any tool that utilizes a taxonomy, such as Kraken, for accurate classification of viruses.

59 BASIC BIOLOGICAL SCIENCES↗

NASA NTRS1979

Spectrophotometry of Michigan-Tololo quasars

The Michigan-Tololo sample of quasars is discussed using observational data for 48% of this sample. Emission-line quasar characteristics are confirmed for 80% of the objects observed, including at least four new quasars with spectral features indicative of 'supernova-like' outflow. Approximately 73% of the redshifts predicted from the discovery plates are found to be accurate, with a mean error in z of 0.03; a large range of z (from about 0.1 to 3.16) is represented in the sample. The interpretation of the observed redshift distribution for quasars is strongly dependent upon the significance ascribed to wavelength-dependent selection effects. It appears that the behavior of the comoving quasar density above z = 2.0 may be represented by a constant or an exponential increase.

Lewis, D. W.↗

DOE OSTI2024

Summary of Stack Tests at TA-16-Bldg 205: Horizontal Duct on WETF Roof

In late 2023 and early 2024, testing was done at the Weapons Engineering Tritium Facility (WETF) rooftop exhaust duct to verify that the stack sample location was in compliance with the ANSI standard for stack sampling, ANSI N13.1-1999. This ANSI standard is called out by the Clean Air Act rules for airborne radionuclide emissions from DOE facilities, 40 CFR 61 Subpart H. This sample location is designated 16020504, indicating Technical Area 16, Building 0205. The rooftop duct formerly discharged to Exhaust Stack 04, but in 2007 it was re-routed to exhaust out Building 0450, Exhaust Stack 05. For continuity, we have kept the 16020504 designation to represent this duct sample location.

54 ENVIRONMENTAL SCIENCES↗

NASA NTRS2003

The Burst and Transient Source Experiment(BATSE)Earth Occultation Catalog of Low-Energy Gamma-Ray Sources. Short title: BATSE Earth Occultation Catalog v2.0

The Burst and Transient Source Experiment (BATSE), aboard the Compton Gamma Ray Observatory (CGRO), provided a record of the low-energy gamma-ray sky (approx. 20-1000 keV) between 1991 April and 2000 May (9.1y). BATSE monitored the high energy sky using the Earth occultation technique (EOT) for point sources whose emission extended for times on the order of the CGRO orbital period (approx. 92m) or greater. Using the EOT to extract flux - 2 - information, a catalog of sources using data from the BATSE large area detectors has been prepared. The first part of the catalog consists of results from the all-sky monitoring of 58 sources, mostly Galactic, with intrinsic variability on timescales of hours to years. For these sources, we have included tables of flux and spectral data, and outburst times for transients. Light curves (or flux histories) covering the entire nine mission are being placed on the world wide web. We then performed a deep-sampling of these 58 objects, plus a selection of 121 more objects, combining data from the entire 9.ly BATSE dataset. Source types considered were primarily accreting binaries, but a small number of representative active galaxies, X-ray-emitting stars, and supernova remnants were also included. The sample represents a compilation of sources monitored and/or discovered with BATSE and other high energy instruments between 1991 and 2000, known sources taken from the HEAO 1 A-4 (Levine et al. 1984) and Macomb and Gehrels (1999) catalogs. The deep sample results include definite detections of 82 objects and possible detections of 36 additional objects. The definite detections spanned three classes of sources: accreting black hole and neutron star binaries, active galaxies and supernova remnants. The average fluxes measured for the fourth class, the X-ray emitting stars, were below the confidence limit for definite detection. Flux data for the deep sample are presented in four energy bands: 20-40, 40-70, 70-160, and 160-430 keV. The limiting average flux level (9.1 y) for the sample varies from 3.5 to 20 mCrab (5delta) between 20 and 430 keV, depending on systematic error, which in turn is primarily dependent on the sky location. To strengthen the credibility of detection of weaker sources (approx.5-25 mCrab), we generated Earth occultation images, searched for periodic behavior using FFT and epoch folding methods, and critically evaluated the energy-dependent emission in the four flux bands. The deep sample results are intended for guidance in performing future all-sky surveys or pointed observations in the hard X-ray and low-energy gamma-ray band, as well as more detailed studies with the BATSE EOT.

Harmon, B. A.↗

DOE OSTI2024

Efficient end-to-end simulation of time-dependent coherent X-ray scattering experiments

Physical optics simulations for beamlines and experiments allow users to test experiment feasibility and optimize beamline settings ahead of beam time in order to optimize valuable beam time at synchrotron light sources like NSLS-II. Further, such simulations also help to develop and test experimental data processing methods and software in advance. The Synchrotron Radiation Workshop ( SRW ) software package supports such complex simulations. We demonstrate how recent developments in SRW significantly improve the efficiency of physical optics simulations, such as end-to-end simulations of time-dependent X-ray photon correlation spectroscopy experiments with partially coherent undulator radiation (UR). The molecular dynamics simulation code LAMMPS was chosen to model the sample: a solution of silica nanoparticles in water at room temperature. Real-space distributions of nanoparticles produced by LAMMPS were imported into SRW and used to simulate scattering patterns of partially coherent hard X-ray UR from such a sample at the detector. The partially coherent UR illuminating the sample can be represented by a set of orthogonal coherent modes obtained by simulation of emission and propagation of this radiation through the coherent hard X-ray (CHX) scattering beamline followed by a coherent-mode decomposition. GPU acceleration is added for several key functions of SRW used in propagation from sample to detector, further improving the speed of the calculations. The accuracy of this simulation is benchmarked by comparison with experimental data.

36 MATERIALS SCIENCE↗

NASA NTRS2004

The Burst and Transient Source Experiment (BATSE) Earth Occultation Catalog of Low-Energy Gamma-Ray Sources

The Burst and Transient Source Experiment (BATSE), aboard the Compton Gamma Ray Observatory (CGRO), provided a record of the low-energy gamma-ray sky (approx. 20-1000 keV) between 1991 April and 2000 May (9.1 yr). BATSE monitored the high-energy sky using the Earth occultation technique (EOT) for point sources whose emission extended for times on the order of the CGRO orbital period (approx. 92 min) or greater. Using the EOT to extract flux information, a catalog of sources using data from the BATSE Large Area Detectors has been prepared. The first part of the catalog consists of results from the all-sky monitoring of 58 sources, mostly Galactic, with intrinsic variability on timescales of hours to years. For these sources, we have included tables of flux and spectral data, and outburst times for transients. Light curves (or flux histories) have been placed on the World Wide Web. We then performed a deep sampling of these 58 objects, plus a selection of 121 more objects, combining data from the entire 9.1 yr BATSE data set. Source types considered were primarily accreting binaries, but a small number of representative active galaxies, X-ray-emitting stars, and supernova remnants were also included. The sample represents a compilation of sources monitored and/or discovered with BATSE and other high-energy instruments between 1991 and 2000, known sources taken from the HEAO 1 A-4 and Macomb & Gehrels catalogs. The deep sample results include definite detections of 83 objects and possible detections of 36 additional objects. The definite detections spanned three classes of sources: accreting black hole and neutron star binaries, active galaxies, and Supernova remnants. The average fluxes measured for the fourth class, the X-ray emitting stars, were below the confidence limit for definite detection.

Harmon, B. A.↗

NASA NTRS2012

Geochemistry of Lunar Highland Meteorites Mil, 090034, 090036 AND 090070

Apollo and Luna samples were collected from a restricted area on the near side of the Moon, while the source craters of the lunar meteorites are randomly distributed. For example, Takeda et al. [1] and Yamaguchi et al. [2] found a variety of lithic clasts in Dho 489 and Y 86032 which were not represented by Apollo samples, and some of these clasts have lower rare earth elements (REE) and FeO abundances than Apollo anorthosites, respectively. Takeda et al. [1] and Yamaguchi et al. [2] concluded that Dho 489 and Y 86032 originated from the lunar farside. Therefore, lunar meteorites provide an opportunity to study lunar surface rocks from areas not sampled by Apollo and Luna missions. Three lunar anorthitic breccias (MIL 090034, 090036 and 090070) were found on the Miller Range Ice Field in Antarctica during the 2009-2010 ANSMET season [3]. In this study, we determined elemental abudnances for MIL 090034, 090036 and 090070 by using INAA and aimed to characterize these meteorites in chemical compositions in comparison with those for other lunar meteorites and Apollo samples.

Shirai, N.aoki↗

NASA NTRS1994

REE chemistry and Sm-Nd systematics of late Archean weathering profiles in the Fortescue Group, Western Australia

Two weathering profiles, each consisting of an upper, sericite-rich zone and a lower, chlorite-rich zone, are preserved between flows of the Mt. Roe Basalt in the Fortescue Group, Hamersley Basin, Western Australia. REE concentrations in samples from these two profiles, which originally developed ca 2,760 Ma, show large variations depending on stratigraphic position. LREE abundances and (La/Yb)N are greatest at depths of 3-6 m below the paleosurface of the Mt. Roe #1 profile and are somewhat lower in samples above this level. The LREEs reach concentrations 6-9 times greater than in the underlying basalt, and thus appear to have been mobilized downward in the paleosol and concentrated in its middle part. LREE concentrations in the #2 profile show a similar distribution but with a sharp increase in all REE concentrations within 50 cm of the paleosurface. The distinction between the REE profiles in the two paleosols may be related to the difference in the overlying material. The #1 paleosol is overlain by a few meters of sediments and then by basalt, whereas the #2 paleosol is directly overlain by basalt. The LREEs appear to have been mobilized both during chemical weathering of the parental basalt and during later lower-greenschist-facies metamorphism and metasomatism of the paleosols. Remobilization of the REEs during the regional metamorphism of the Fortescue Group is confirmed by a whole-rock Sm-Nd reference isochron of Mt. Roe #1 samples with an age of 2,151 +/- 360 Ma. Variable initial 143Nd/144Nd values of unweathered basalt samples which may represent the paleosol protolith prevents a confident determination of the magnitude of LREE mobility. Both the initial mobilization of the REEs during weathering and the metasomatic remobilization appear to have taken place under redox conditions where Ce was present dominantly as Ce3+, because Ce anomalies are not developed within the sericite zone samples regardless of concentration. Europium anomalies in the paleoweathering profile are somewhat variable and were probably modified by mobilization of Eu2+ at metamorphic conditions. In all samples, the HREEs appear to have been relatively immobile and correlate with Al, Ti, Cr, V, Zr, and Nb. Sm-Nd systematics and REE patterns of four unweathered basalt samples indicate derivation of the Mt. Roe Basalts from a heterogeneous and enriched source having epsilon Nd between -4.0 and -7.4. Initial 143Nd/144Nd values of these basalts are even lower than those reported by NELSON et al. (1992) for Fortescue Group basalts and indicate a substantial crustal component in the generation of Mt. Roe Basalts.

NASA Discipline Exobiology↗

DOE OSTI2023

Proper orthogonal descriptors for efficient and accurate interatomic potentials

Here, we present the proper orthogonal descriptors for efficient and accuracy representation of the potential energy surface. The potential energy surface is represented as a many-body expansion of parametrized potentials in which the potentials are functions of atom positions and parameters. The proper orthogonal decomposition is employed to decompose the parametrized potentials into a set of proper orthogonal descriptors (PODs). Because of the rapid convergence of the proper orthogonal decomposition, relevant snapshots can be sampled exhaustively to represent the atomic neighborhood environment accurately with a small number of descriptors. The proper orthogonal descriptors are used to develop interatomic potentials by using a linear expansion of the descriptors and determining the expansion coefficients from a weighted least-squares regression against a density functional theory (DFT) training set. We present a comprehensive evaluation of the POD potentials on previously published DFT data sets comprising Li, Mo, Cu, Ni, Si, Ge, and Ta elements. The data sets represent a diverse pool of metals, transition metals, and semiconductors. The accuracy of the POD potentials are comparable to that of state-of-the-art machine learning potentials such as the spectral neighbor analysis potential (SNAP) and the atomic cluster expansion (ACE).

97 MATHEMATICS AND COMPUTING↗

NASA NTRS1985

Using a data base management system for modelling SSME test history data

The usefulness of a data base management system (DBMS) for modelling historical test data for the complete series of static test firings for the Space Shuttle Main Engine (SSME) was assessed. From an analysis of user data base query requirements, it became clear that a relational DMBS which included a relationally complete query language would permit a model satisfying the query requirements. Representative models and sample queries are discussed. A list of environment-particular evaluation criteria for the desired DBMS was constructed; these criteria include requirements in the areas of user-interface complexity, program independence, flexibility, modifiability, and output capability. The evaluation process included the construction of several prototype data bases for user assessement. The systems studied, representing the three major DBMS conceptual models, were: MIRADS, a hierarchical system; DMS-1100, a CODASYL-based network system; ORACLE, a relational system; and DATATRIEVE, a relational-type system.

Abernethy, K.↗

DOE OSTI2021

Distant Relatives: The Chemical Homogeneity of Comoving Pairs Identified in Gaia

Comoving pairs, even at the separations of $\mathcal{O}$(10 6 ) are a predicted reservoir of conatal stars. Here we present detailed chemical abundances of 62 stars in 31 comoving pairs with separations of 10 2 –10 7 au and 3D velocity differences <2 km s -1 . This sample includes both bound comoving pairs/wide binaries and unbound comoving pairs. Observations were taken using the Magellan Inamori Kyocera Echelle (MIKE) spectrograph on board the Magellan/Clay Telescope at high resolution (R~ 45,000) with a typical signal-to-noise ratio of 150 pixel -1 . With these spectra, we measure surface abundances for 24 elements, including Li, C, Na, Mg, Al, Si, Ca, Sc, Ti, V, Cr, Mn, Fe, Co, Ni, Cu, Zn, Sr, Y, Zr, Ba, La, Nd, and Eu. Taking iron as the representative element, our sample of wide binaries is chemically homogeneous at the level of 0.05 dex, which agrees with prior studies on wide binaries. Importantly, even systems at separations 2 × 10 5 –10 7 au are homogeneous to 0.09 dex, as opposed to the random pairs, which have a dispersion of 0.23 dex. Assuming a mixture model of the wide binaries and random pairs, we find that 73 ± 22% of the comoving pairs at separations 2 × 10 5 –10 7 au are conatal. Our results imply that a much larger parameter space of phase space may be used to find conatal stars, to study M-dwarfs, star cluster evolution, exoplanets, chemical tagging, and beyond.

79 ASTRONOMY AND ASTROPHYSICS↗

NASA NTRS1991

X-ray emission from starburst galaxies

The results are reported of an investigation of X-ray emission from a sample of 53 IRAS-selected candidate starburst galaxies. Superposed soft and hard X-ray emission from these galaxies in the Einstein-IPC and HEAO-1 A-2 and A-4 energy bands, which span 0.5 to 160 keV, is detected at the 99.6 percent confidence level, after allowing for confusion noise in the HEAO-1 data. Above 15 keV the confidence level is 97 percent. The combined spectrum is flat, with a (photon) power-law index of 1.0 +/- 0.3. The contribution of the population of sources represented by this sample to the 3-50 keV residual cosmic X-ray background is estimated to be at least about 4 percent assuming no evolution. Moderate evolution, for which there is some observational evidence, increases this fractional contribution to about 26 percent.

Rephaeli, Yoel↗

DOE OSTI2022

Versatile soil gas concentration and isotope monitoring: optimization and integration of novel soil gas probes with online trace gas detection

Abstract. Gas concentrations and isotopic signatures can unveil microbial metabolisms and their responses to environmental changes in soil. Currently, few methods measure in situ soil trace gases such as the products of nitrogen and carbon cycling or volatile organic compounds (VOCs) that constrain microbial biochemical processes like nitrification, methanogenesis, respiration, and microbial communication. Versatile trace gas sampling systems that integrate soil probes with sensitive trace gas analyzers could fill this gap with in situ soil gas measurements that resolve spatial (centimeters) and temporal (minutes) patterns. We developed a system that integrates new porous and hydrophobic sintered polytetrafluoroethylene (sPTFE) diffusive soil gas probes that non-disruptively collect soil gas samples with a transfer system to direct gas from multiple probes to one or more central gas analyzer(s) such as laser and mass spectrometers. Here, we demonstrate the feasibility and versatility of this automated multiprobe system for soil gas measurements of isotopic ratios of nitrous oxide (δ18O, δ15N, and the 15N site preference of N2O), methane, carbon dioxide (δ13C), and VOCs. First, we used an inert silica matrix to challenge probe measurements under controlled gas conditions. By changing and controlling system flow parameters, including the probe flow rate, we optimized recovery of representative soil gas samples while reducing sampling artifacts on subsurface concentrations. Second, we used this system to provide a real-time window into the impact of environmental manipulation of irrigation and soil redox conditions on in situ N2O and VOC concentrations. Moreover, to reveal the dynamics in the stable isotope ratios of N2O (i.e., 14N14N16O, 14N15N16O, 15N14N16O, and 14N14N18O), we developed a new high-precision laser spectrometer with a reduced sample volume demand. Our integrated system – a tunable infrared laser direct absorption spectrometry (TILDAS) in parallel with Vocus proton transfer reaction mass spectrometry (PTR-MS), in line with sPTFE soil gas probes – successfully quantified isotopic signatures for N2O, CO2, and VOCs in real time as responses to changes in the dry–wetting cycle and redox conditions. Broadening the collection of trace gases that can be monitored in the subsurface is critical for monitoring biogeochemical cycles, ecosystem health, and management practices at scales relevant to the soil system.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2020

Predicting Biological Cleanliness: An Empirical Bayes Approach for Spacecraft Bioburden Accounting

To comply with the international planetary protection policy set forth by the Committee on Space Research and NASA Agency level requirements, spacecraft destined to biologically sensitive planetary bodies have to minimize terrestrial biological contamination. Analysis, testing and inspection are the standard forward verification activities that are used to demonstrate compliance with the biological contamination requirements. For testing of spacecraft surface areas, a swab or wipe sample is collected from surfaces prior to last access and subsequently processed in the lab using NASA Approved Planetary Protection Methods for Culture Based Assays. Raw data resulting from this assay is then statistically treated employing a mathematical paradigm stemming from the 1970’s Viking Lander Project to generate the bioburden density and total microbial bioburden present. This standard approach arbitrarily accounts for error and provides an upper conservative bound as it reports the maximum number of spores estimated to be present on flight hardware surfaces. A bioburden density estimate factors in the following variables: the observed bioburden count, representative volume processed, sampling efficiencies. Notably, to account for error in the approach, a 0 observed count is arbitrarily changed to a count of 1 for each hardware grouping. The data generated by spacecraft bioburden verification campaigns in the past have resulted in <80% of wipes and <90% of swabs containing a bioburden count of 0. As such, having a robust and well documented statistical approach for dealing with the probability of low incident rates is necessary to be able to estimate spacecraft bioburden. Being able to statistically describe the bioburden distribution and associated confidence level is a gamechanger for the development of bioburden allocations during mission design and will allow for tighter management of risk throughout spacecraft build. Thus, Empirical Bayes statistical approach was evaluated to estimate the microbial bioburden on spacecraft to mitigate the aforementioned mathematical concerns and provide a probabilistic bioburden distribution of the flight hardware surface. For application of this approach to performing bioburden calculations, a range of non-informative prior assumptions on hardware surfaces are explored for Bayesian analyses while informative priors using posterior distributions from prior assays are utilized for Empirical Bayes analyses. Several non-informative priors are currently under investigation to assess fitness including use of these priors to serve as a foundation to build off of NASA specification values or a basis of risk to account for unknowns during the integration and testing process. Informative priors under consideration are generated using sampled bioburden values from hardware originating within like processing environments (e.g. vendor cleaning process or similar assembly process), temporal spacecraft status events as a prediction for hardware cleanliness of future samples, and heritage system bioburden actuals to predict allocation for subsequent missions. Informative priors and probabilistic bioburden distributions are then validated using data sets from the Mars Exploration Rover, Mars Science Laboratory, and InSight missions. Using Empirical Bayes approach to generate a probabilistic bioburden distribution as demonstrated through mission use cases provides a valid approach for use in the end-to-end requirements verification process.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2024

Bayesian Framework for Bioburden Density Estimation in Planetary Protection

To comply with the international planetary protection policy set forth by the Committee on Space Research and NASA Agency level requirements, spacecraft destined to biologically sensitive planetary bodies have to minimize terrestrial biological contamination. Analysis, testing and inspection are the standard forward verification activities that are used to demonstrate compliance with the biological contamination requirements. For testing of spacecraft surface areas, a swab or wipe sample is collected from surfaces prior to last access and subsequently processed in the lab using NASA Approved Planetary Protection Methods for Culture Based Assays. Raw data resulting from this assay is then statistically treated employing a mathematical paradigm stemming from the 1970’s Viking Lander Project to generate the bioburden density and total microbial bioburden present. This standard approach arbitrarily accounts for error and provides an upper conservative bound as it reports the maximum number of spores estimated to be present on flight hardware surfaces. A bioburden density estimate factors in the following variables: the observed bioburden count, representative volume processed, sampling efficiencies. Notably, to account for error in the approach, a 0 observed count is arbitrarily changed to a count of 1 for each hardware grouping. The data generated by spacecraft bioburden verification campaigns in the past have resulted in <80% of wipes and <90% of swabs containing a bioburden count of 0. As such, having a robust and well documented statistical approach for dealing with the probability of low incident rates is necessary to be able to estimate spacecraft bioburden. Being able to statistically describe the bioburden distribution and associated confidence level is a gamechanger for the development of bioburden allocations during mission design and will allow for tighter management of risk throughout spacecraft build. Thus, Empirical Bayes statistical approach was evaluated to estimate the microbial bioburden on spacecraft to mitigate the aforementioned mathematical concerns and provide a probabilistic bioburden distribution of the flight hardware surface. For application of this approach to performing bioburden calculations, a range of non-informative prior assumptions on hardware surfaces are explored for Bayesian analyses while informative priors using posterior distributions from prior assays are utilized for Empirical Bayes analyses. Several non-informative priors are currently under investigation to assess fitness including use of these priors to serve as a foundation to build off of NASA specification values or a basis of risk to account for unknowns during the integration and testing process. Informative priors under consideration are generated using sampled bioburden values from hardware originating within like processing environments (e.g. vendor cleaning process or similar assembly process), temporal spacecraft status events as a prediction for hardware cleanliness of future samples, and heritage system bioburden actuals to predict allocation for subsequent missions. Informative priors and probabilistic bioburden distributions are then validated using data sets from the Mars Exploration Rover, Mars Science Laboratory, and InSight missions. Using Empirical Bayes approach to generate a probabilistic bioburden distribution as demonstrated through mission use cases provides a valid approach for use in the end-to-end requirements verification process.

97 - MATHEMATICS AND COMPUTING↗

DOE OSTI2021

MCS+: An Efficient Algorithm for Crawling the Community Structure in Multiplex Networks

In this article, we consider the problem of crawling a multiplex network to identify the community structure of a layer-of-interest. A multiplex network is one where there are multiple types of relationships between the nodes. In many multiplex networks, some layers might be easier to explore (in terms of time, money etc.). We propose MCS+, an algorithm that can use the information from the easier to explore layers to help in the exploration of a layer-of-interest that is expensive to explore. We consider the goal of exploration to be generating a sample that is representative of the communities in the complete layer-of-interest. This work has practical applications in areas such as exploration of dark (e.g., criminal) networks, online social networks, biological networks, and so on. For example, in a terrorist network, relationships such as phone records, e-mail records, and so on are easier to collect; in contrast, data on the face-to-face communications are much harder to collect, but also potentially more valuable. We perform extensive experimental evaluations on real-world networks, and we observe that MCS+ consistently outperforms the best baseline—the similarity of the sample that MCS+ generates to the real network is up to three times that of the best baseline in some networks. We also perform theoretical and experimental evaluations on the scalability of MCS+ to network properties, and find that it scales well with the budget, number of layers in the multiplex network, and the average degree in the original network.

96 KNOWLEDGE MANAGEMENT AND PRESERVATION↗

DOE OSTI2020

Forensic species identification of elasmobranchs landed in Costa Rican artisanal fisheries

Elasmobranchs represent one of the most imperiled taxa, yet few nations have developed catch limits and no international or bilateral catch limits exist. One barrier to establishing catch limits is a lack of accurate species-specific extraction rates due to many species looking similar, distinguishing characteristics (fins and head) being removed, or grouping of all elasmobranchs together in fisheries data. To better understand the species-specific impacts fisheries are having on elasmobranchs we used forensic genetic techniques to identify the types and quantities of shark species landed in Costa Rican artisanal small-scale and mid-scale fisheries. We collected elasmobranch tissue samples from fishermen in three locations along Costa Rica’s Pacific Coast: Coyote, Bejuco, and Ojochal, from April 2013 to September 2014. We used DNA barcoding techniques, utilizing a 1044 base pair region of the NADH dehydrogenase subunit 2 gene, to identify to species 275 of the 416 samples collected. Within these fisheries, seven species of shark and one ray were identified, with the scalloped hammerhead shark (Sphyrna lewini) accounting for ~750-80% of all sharks landed. Observed total lengths (TL) for the scalloped hammerhead shark (10.9–99 cm) in these fisheries suggests the sharks sampled were all either juveniles or neonates. Based on these data it is likely that the areas from which these samples were collected represent nursery grounds for the scalloped hammerhead shark. The quantity of young scalloped hammerhead sharks removed from these areas, and ones similar to them, by these artisanal fisheries could be of great importance when determining future conservation measures for this species. We conclude our findings also indicate that sharks caught in these artisanal fisheries do not appear to represent those sold in markets around San Jose.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2024

Predicting the X-ray Absorption Spectrum of Ozone with Single Configuration State Functions

X-ray absorption spectra (XAS) of biradicaloid species are often thought to represent a challenge to theoretical methods. This has led to the testing of recently developed multireference techniques on the XAS of ozone, but reproduction of the experimental spectral profile has proven difficult. We utilize a minimal model consisting of a single configuration state function (CSF) per excited state to model core-level excitations of ozone, with the orbitals of each CSF optimized using the restricted open-shell Kohn–Sham (ROKS) method. This protocol leads to semiquantitative agreement with experimental XAS. In fact, we find that low-lying core-hole excited states in biradicaloids can be approximated with individual CSFs, despite the presence of multireference character in the ground state. Here, we also report that the 1s → π* and 1s → σ* transitions have quite distinct widths for O 3 . This reveals the importance of sampling over a representative range of geometries from the vibrational ground state for properly assessing the accuracy of electronic structure methods against experiments instead of the popular procedure of uniformly broadening stick spectra at the equilibrium geometry.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗