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DOE OSTI2022

Size and Distribution of Parr Produced from Natural‐ and Hatchery‐Origin Steelhead Spawning Naturally in a Small Pacific Northwest Coastal Stream

Abstract Recent studies suggest that steelhead Oncorhynchus mykiss produced from local hatchery‐origin (HOR) adults have lower lifetime fitness than their natural‐origin (NOR) counterparts. To increase our understanding of this pattern, we compared age‐1 parr size and distribution produced by a local integrated population of HOR and NOR adults spawning naturally across a range of environmental conditions. Across 8 years, we used genetic parentage assignments and field measurements of parr in conjunction with creek temperature and flow data to find small, nonbiologically significant differences in size between parr of different parent origins. This suggests that parr produced by HOR adults are acquiring enough resources to grow at a rate similar to that of parr produced by NOR adults. In contrast to origin, we found strong positive associations between mean size of parr and annual mean water temperature and summer flow. Additionally, the distribution of parr was similar and HOR‐produced parr were not skewed relative to the location of the hatchery. Parr occupying the full extent of accessible and suitable habitat might be a positive outcome for hatchery programs seeking to supplement an existing population or replace an extirpated population. However, these results also imply that HOR fish could be competing with NOR fish for food and space, which might be less desirable if the goal of the hatchery program is harvest and not supplementation. Our results highlight the importance of clearly articulated goals for the hatchery program, as the observed pattern could be deemed a benefit or a risk depending on the hatchery's purpose. Lastly, projections for higher water temperatures and reduced summer flows, when considered in the context of the correlations we observed for size of parr, imply that coastal steelhead populations could start experiencing negative climate impacts with respect to steelhead parr growth metrics during the summer in the next few decades.

Kennedy, Benjamen M.↗

DOE OSTI2019

Linking human-building interactions in shared offices with personality traits

Occupant behavior influences office building energy performance. The level of human-building interactions (HBIs) in shared offices strongly influences building energy use and occupant well-being. This study explored the link between occupant personality types and their behaviors of sharing energy and environment control systems and interactions with their colleagues. Inspired by the Five-Factor Model (FFM), we classified HBI behaviors into four dimensions: willingness to share control, knowledge of control, group decision behavior, and adaptive strategies. These four variables can be mapped to the four personality traits proposed by the FFM: agreeableness, openness, extraversion, and conscientiousness. Our cluster analysis identified six behavioral patterns: average (17.7%), reserved (15.3%), environmentally friendly (16.6%), role model (24.2%), self-centered (17.2%), and mechanist (9.0%). We further applied association rules, a widely utilized machine learning technique, to discover how demographics, building-related contextual factors, and perception-attitudinal factors influence HBI behaviors. Country, control feature accessibility, and group dynamics were found to be the three most influential factors that determine occupants’ HBI behaviors. Finally, the study provides insights about building design and operation, as well as policy to promote socially and environmentally desirable HBI behaviors in a shared office environment.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

DOE OSTI2019

Implementation and assessment of resolution-dependent elastic incoherent neutron scattering measurements at a backscattering spectrometer for probing relaxations in complex systems

We introduce the use of a higher-order reflection, Si(333), of the silicon analyzer crystals at a backscattering spectrometer to implement analysis of the relaxation dynamics in the samples. Here, this is achieved by monitoring the temperature dependence of the neutron scattering intensity perceived as elastic when measured using Si(111), Si(311), and Si(333) reflections. As a test case, we use a sample with well-characterized, but complex, relaxation pattern, where the non-Lorentzian relaxation function is known to exhibit a set of parameters specific to each temperature point and scattering momentum transfer (Q) value. Even for this very general relaxation pattern, characterized by no constrains on the relaxation function parameters, we successfully map the relaxation times measured using the present approach onto those previously obtained from the full analysis of the quasielastic neutron scattering signal. Analysis of the Q-specific activation energies becomes possible for the Q values accessible simultaneously through Si(111), Si(311), and Si(333) reflections (in the present case, 0.9 Å –1 < Q < 1.9 Å –1 ). While the dedicated neutron spectrometers for this type of analysis are yet to be constructed, we show that the present-day backscattering spectrometers can be employed, under certain conditions, to analyze temperature dependence of the relaxation time in the samples not amenable to traditional full analysis of the quasielastic neutron scattering signal.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

DOE OSTI2026

Adsorption Hysteresis Under Control: Tuning Host–Guest Interactions via a Genetic Algorithm

Mesoporous adsorbent materials offer a large volumetric capacity; however, cyclic adsorption/desorption processes in these systems often suffer from hysteresis and may require a significant pressure swing to access this capacity. To mitigate hysteresis, a proposed strategy is to include nucleation sites on the walls of the mesoporous material to facilitate droplet and bubble formation, lowering the free energy barriers to the respective phase transitions. It is unclear, however, what combination of adsorbate− adsorbent interactions and spatial patterning would be beneficial for a given application, considering that improvements to some sorption properties may come at the expense of other attributes. To understand these interconnected observables, we examine two model systems, planar-slit and cylindrical pores with tunable interaction sites, using GPU-accelerated transition matrix Monte Carlo simulations. The simulations provide a free energy map of the pressure−adsorption space in a matter of minutes, which we use to track adsorption isotherm characteristics as a function of adsorbent properties. We then leverage the rapid acquisition of simulation data to construct a genetic algorithm to iteratively modify interaction sites of the slit-pore wall to minimize the hysteresis of this system without sacrificing uptake. We find that the adsorption branch of the isotherm is easily modulated via the average host−guest interaction strength, but desorption is only adjustable if there is a suitable bubble nucleation site. Within the context of a slit-pore system, we identify relative interaction strengths and patch sizes required to gain control over both branches of the hysteresis loop.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2018

Photonic spin Hall effect in bilayer graphene moiré superlattices

The formation of a superstructure—with a related moiré pattern—plays a crucial role in the extraordinary optical and electronic properties of twisted bilayer graphene, including the recently observed unconventional superconductivity. Here we present an interdisciplinary approach to determine the moiré angle in twisted bilayer graphene based on the photonic spin Hall effect. Here, we show that the photonic spin Hall effect exhibits clear fingerprints of the underlying moiré pattern, and the associated light beam shifts are well beyond current experimental sensitivities in the near-infrared and visible ranges. By discovering the dependence of the frequency position of the maximal photonic spin Hall effect shift on the moiré angle, we argue that the latter could be unequivocally accessed via all-optical far-field measurements. We also disclose that, when combined with the Goos-Hänchen effect, the spin Hall effect of light enables the complete determination of the electronic conductivity of the bilayer. Altogether our findings demonstrate that subwavelength spin-orbit interactions of light provide an unprecedented toolset for investigating optoelectronic properties of multilayer two-dimensional van der Waals materials.

36 MATERIALS SCIENCE↗

DOE OSTI2017

Study of shot noise in photoresists for extreme ultraviolet lithography through comparative analysis of line edge roughness in electron beam and extreme ultraviolet lithography

In this paper, the influence of the absorption shot noise on line edge roughness (LER) of photoresists for extreme ultraviolet (EUV) lithography is studied experimentally through the comparative analysis of LER obtained by EUV (92 eV photons) and 100 keV e-beam lithography. Techniques for performing EUV and e-beam lithography with a matched image log slope for a fair comparison of LER values are described. Measurements of absorption of 100 keV electrons estimated through a transmissive electron energy loss spectroscopy measurement with a 120 keV electron beam showed that despite having access to core levels in the material (e.g., 284 eV edge in carbon), these electrons mostly just excite the energy levels less than 100 eV in the resist, with a mean deposited energy of 35 eV. By combining the incident flux and the absorption probabilities, the absorbed quanta for patterning of 50 nm half-pitch line/space features was found to be similar between the two patterning technologies.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

DOE OSTI2019

Species-Specific Shifts in Diurnal Sap Velocity Dynamics and Hysteretic Behavior of Ecophysiological Variables During the 2015–2016 El Niño Event in the Amazon Forest

Current climate change scenarios indicate warmer temperatures and the potential for more extreme droughts in the tropics, such that a mechanistic understanding of the water cycle from individual trees to landscapes is needed to adequately predict future changes in forest structure and function. In this study, we contrasted physiological responses of tropical trees during a normal dry season with the extreme dry season due to the 2015–2016 El Niño-Southern Oscillation (ENSO) event. We quantified high resolution temporal dynamics of sap velocity (V s ), stomatal conductance (g s ) and leaf water potential (Ψ L ) of multiple canopy trees, and their correlations with leaf temperature (T leaf ) and environmental conditions [direct solar radiation, air temperature (T air ) and vapor pressure deficit (VPD)]. The experiment leveraged canopy access towers to measure adjacent trees at the ZF2 and Tapajós tropical forest research (near the cities of Manaus and Santarém). The temporal difference between the peak of g s (late morning) and the peak of VPD (early afternoon) is one of the major regulators of sap velocity hysteresis patterns. Sap velocity displayed species-specific diurnal hysteresis patterns reflected by changes in T leaf . In the morning, T leaf and sap velocity displayed a sigmoidal relationship. In the afternoon, stomatal conductance declined as T leaf approached a daily peak, allowing Ψ L to begin recovery, while sap velocity declined with an exponential relationship with Tleaf. In Manaus, hysteresis indices of the variables T leaf -T air and Ψ L -T leaf were calculated for different species and a significant difference (p < 0.01, α = 0.05) was observed when the 2015 dry season (ENSO period) was compared with the 2017 dry season (“control scenario”). In some days during the 2015 ENSO event, T leaf approached 40°C for all studied species and the differences between T leaf and T air reached as high at 8°C (average difference: 1.65 ± 1.07°C). Generally, T leaf was higher than T air during the middle morning to early afternoon, and lower than T air during the early morning, late afternoon and night. Our results support the hypothesis that partial stomatal closure allows for a recovery in Ψ L during the afternoon period giving an observed counterclockwise hysteresis pattern between Ψ L and T leaf .

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2024

Custom Accessors: Enabling Scalable Data Ingestion, (Re-)Organization, and Analysis on Distributed Systems

The emerging class of high velocity and high volume data analytic workflows comprise interwoven data ingestion, organization, and processing stages, with ingestion and organization steps often contributing comparable or even higher computational costs than actual processing steps. Since complex workflows consist of a variety of phases that view and use data differently, being able to construct efficient, scalable, distributed data structures (arrays, vectors, sets, maps, and multi-maps) is essential and requires custom methods to extend and shrink containers, analyze and position data, and, maintain globallyconsistent meta-data. In this paper, we propose a novel datastructure access paradigm based on the concept of Accessors. At a high level, accessors are customizable callable objects that can modify the behavior of insert, read, update, and delete operations for distributed containers while preserving atomicity guarantees. Accessors provide a very clean and natural way to implement a variety of programming patterns, e.g., conditional insertion/deletion and cascading computations, which would be otherwise hard (or even impossible) to express in parallel and distributed settings without using locks. We demonstrate the practicality and usefulness of our approach with two representative use cases and study the performance of these applications on a distributed High-Performance Computing system. Our analysis highlights that our proposed abstraction allows for an effective overlapping and concurrent execution of different workflow steps (e.g., data ingestion and analysis), which in a conventional analytics pipeline would execute sequentially, contributing cumulatively to the overall latency.

Castellana, Vito G. [BATTELLE (PACIFIC NW LAB)] (O↗

DOE OSTI2022

Atomically engineered cobaltite layers for robust ferromagnetism

Emergent phenomena at heterointerfaces are directly associated with the bonding geometry of adjacent layers. Effective control of accessible parameters, such as the bond length and bonding angles, offers an elegant method to tailor competing energies of the electronic and magnetic ground states. In this study, we construct unit-thick syntactic layers of cobaltites within a strongly tilted octahedral matrix via atomically precise synthesis. The octahedral tilt patterns of adjacent layers propagate into cobaltites, leading to a continuation of octahedral tilting while maintaining substantial misfit tensile strain. These effects induce severe rumpling within an atomic plane of neighboring layers, further triggering the electronic reconstruction between the splitting orbitals. First-principles calculations reveal that the cobalt ions transit to a higher spin state level upon octahedral tilting, resulting in robust ferromagnetism in ultrathin cobaltites. This work demonstrates a design methodology for fine-tuning the lattice and spin degrees of freedom in correlated quantum heterostructures by exploiting epitaxial geometric engineering.

36 MATERIALS SCIENCE↗

DOE OSTI2019

A Design Document: Custom Analytical Tools and Automation for the Industrial Hygienist

This report outlines an approach for developing a modular and scalable web-based application suite, Internal Data Access and Visualization (I-DAV), that would be developed to meet the specific analytic requirements for Industrial Hygienist (IH) analysts and tank vapors Subject Matter Expert’s (SME) at the Hanford site. Through interviews and requirements elicitation with IH analyst, and on-site in depth review of workflow patterns and expected outcomes, PNNL has developed a framework for proposed collection of interdependent goal oriented software applications. Commercial off the shelf applications, which require only minimal custom code, were deployed this year as a mechanism of rapid prototyping and providing proof of concept. This report describes these efforts and accomplishments to date, as well as concepts for future applications and general enhancement of the DAV and core concepts for the I-DAV. Additional content was integrated into this report as of March 2019. Updated content was added to reflect the inclusion of I-DAV concepts and ideas, and refined versions of original concepts set forth as the work commenced and continued through the first half of FY19. New and refined concepts have been the product of ongoing weekly meetings, outreach, and elicitation with WRPS.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

DOE OSTI2019

A Design Document: Custom Analytical Tools and Automation for the Industrial Hygienist

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2023

Autonomous Intelligence Measurements and Sensor Systems (AIMS): Gaussian Processes in Remote Sensing: Literature Review

Power grid resilience and reliability is crucial to supporting critical infrastructure. Service interruptions can have devastating consequences to communication, emergency, and transportation services, just to name a few. In addition to infrastructure, power services are crucial to everyday life. Nearly every element of modern-day living relies on a stable and functioning power grid - heating and cooling systems to lighting, refrigeration, telecommunications, and internet access. Interruptions in the power supply can range from minor inconveniences, such as the temporary loss of internet or television services, to more significant problems, like the inability to access medical equipment or emergency services during critical situations. As climate conditions worsen, the reliability of the power grid becomes even more significant. Extreme weather events, such as hurricanes, wildfires, or severe storms, can cause serious damage to power infrastructure, leading to prolonged power outages. Rising temperatures and changing weather patterns can strain the grid, resulting in increased demand for electricity, stressing transmission and distribution systems.

24 POWER TRANSMISSION AND DISTRIBUTION↗

DOE OSTI2014

Hierarchically Ordered Nanopatterns for Spatial Control of Biomolecules

We present the development and study of a benchtop, high-throughput, and inexpensive fabrication strategy to obtain hierarchical patterns of biomolecules with sub-50 nm resolution. A diblock copolymer of polystyrene-b-poly(ethylene oxide), PS-b-PEO, is synthesized with biotin capping the PEO block and 4-bromostyrene copolymerized within the polystyrene block at 5 wt %. These two handles allow thin films of the block copolymer to be postfunctionalized with biotinylated biomolecules of interest and to obtain micropatterns of nanoscale-ordered films via photolithography. The design of this single polymer further allows access to two distinct superficial nanopatterns (lines and dots), where the PEO cylinders are oriented parallel or perpendicular to the substrate. Moreover, we present a strategy to obtain hierarchical mixed morphologies: a thin-film coating of cylinders both parallel and perpendicular to the substrate can be obtained by tuning the solvent annealing and irradiation conditions.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2015

The pineapple genome and the evolution of CAM photosynthesis

Pineapple (Ananas comosus (L.) Merr.) is the most economically valuable crop possessing crassulacean acid metabolism (CAM), a photosynthetic carbon assimilation pathway with high water-use efficiency, and the second most important tropical fruit. We sequenced the genomes of pineapple varieties F153 and MD2 and a wild pineapple relative, Ananas bracteatus accession CB5. The pineapple genome has one fewer ancient whole-genome duplication event than sequenced grass genomes and a conserved karyotype with seven chromosomes from before the ρ duplication event. The pineapple lineage has transitioned from C 3 photosynthesis to CAM, with CAM-related genes exhibiting a diel expression pattern in photosynthetic tissues. CAM pathway genes were enriched with cis-regulatory elements associated with the regulation of circadian clock genes, providing the first cis-regulatory link between CAM and circadian clock regulation. Lastly, we found pineapple CAM photosynthesis evolved by the reconfiguration of pathways in C 3 plants, through the regulatory neofunctionalization of preexisting genes and not through the acquisition of neofunctionalized genes via whole-genome or tandem gene duplication.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2019

Real-Time Selective Sequencing with RUBRIC: Read Until with Basecall and Reference-Informed Criteria

Abstract The Oxford MinION, the first commercial nanopore sequencer, is also the first to implement molecule-by-molecule real-time selective sequencing or “Read Until”. As DNA transits a MinION nanopore, real-time pore current data can be accessed and analyzed to provide active feedback to that pore. Fragments of interest are sequenced by default, while DNA deemed non-informative is rejected by reversing the pore bias to eject the strand, providing a novel means of background depletion and/or target enrichment. In contrast to the previously published pattern-matching Read Until approach, our RUBRIC method is the first example of real-time selective sequencing where on-line basecalling enables alignment against conventional nucleic acid references to provide the basis for sequence/reject decisions. We evaluate RUBRIC performance across a range of optimizable parameters, apply it to mixed human/bacteria and CRISPR/Cas9-cut samples, and present a generalized model for estimating real-time selection performance as a function of sample composition and computing configuration.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2022

Extending in situ X-ray Temperature Diagnostics to Internal Components

Time-resolved X-ray thermometry is an enabling technology for measuring temperature and phase change of components. However, current diagnostic methods are limited in their ability due to the invasive nature of probes or the requirement of coatings and optical access to the component. Our proposed developments overcome these challenges by utilizing X-rays to directly measure the objects temperature. Variable-Temperature X-ray Diffraction (VT-XRD) was performed over a wide range of temperatures and diffraction angles and was performed on several materials to analyze the patterns of the bulk materials for sensitivity. "High-speed" VT-XRD was then performed for a single material over a small range of diffraction angles to see how fast the experiments could be performed, whilst still maintaining peaks sufficiently large enough for analysis.

36 MATERIALS SCIENCE↗

DOE OSTI2019

The Genetic Architecture of Shoot and Root Trait Divergence Between Mesic and Xeric Ecotypes of a Perennial Grass

Environmental heterogeneity can drive patterns of functional trait variation and lead to the formation of locally adapted ecotypes. Plant ecotypes are often differentiated by suites of correlated root and shoot traits that share common genetic, developmental, and physiological relationships. For instance, although plant water loss is largely governed by shoot systems, root systems determine water access and constrain shoot water status. To evaluate the genetic basis of root and shoot trait divergence, we developed a recombinant inbred population derived from mesic and xeric ecotypes of the perennial grass Panicum hallii. Our study sheds light on the genetic architecture underlying the relationships between root and shoot traits. We identified several genomic “hotspots” which control suites of correlated root and shoot traits, thus indicating genetic coordination between plant organ systems in the process of ecotypic divergence. Genomic regions of colocalized quantitative trait locus (QTL) for the majority of shoot and root growth related traits were independent of colocalized QTL for shoot and root resource acquisition traits. The allelic effects of individual QTL underscore ecological specialization for drought adaptation between ecotypes and reveal possible hybrid breakdown through epistatic interactions. These results have implications for understanding the factors constraining or facilitating local adaptation in plants.

epistasis↗

DOE OSTI2016

Parameter-free determination of the exchange constant in thin films using magnonic patterning

An all-electrical method is presented to determine the exchange constant of magnetic thin films using ferromagnetic resonance. For films of 20 nm thickness and below, the determination of the exchange constant A, a fundamental magnetic quantity, is anything but straightforward. Among others, the most common methods are based on the characterization of perpendicular standing spin-waves. These approaches are however challenging, due to (i) very high energies and (ii) rather small intensities in this thickness regime. In the presented approach, surface patterning is applied to a permalloy (Ni{sub 80}Fe{sub 20}) film and a Co{sub 2}Fe{sub 0.4}Mn{sub 0.6}Si Heusler compound. Acting as a magnonic crystal, such structures enable the coupling of backward volume spin-waves to the uniform mode. Subsequent ferromagnetic resonance measurements give access to the spin-wave spectra free of unquantifiable parameters and, thus, to the exchange constant A with high accuracy.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗