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At least 343 records · Page 19

Wind Energy and Wildlife Pre- and Post-Construction Project at Pantex Plant

From 2009-2017, we conducted pre- and post-construction monitoring of wildlife at the Pantex Plant before and after construction of five wind turbines on the plant in 2014-2015. Pre-construction acoustic monitoring for bats was conducted at five sites on Pantex. Acoustic (here after Anabat) files were downloaded 30 times with Anabat files recorded from 6/21/2010 through 1/17/2014. The resulting data include over 3,000,000 files and we hope to analyze them in the future. We were never successful recording acoustic data after 2014 (post-construction). This is despite numerous attempts to trouble shoot our acoustic monitors. Wind damage to cables going from the body of the monitor to their microphones could not be repaired or replaced while towers were standing. Sampling of breeding birds was accomplished through point counts conducted at sites selected for turbine construction and others selected as control sites. Precipitation varied greatly over the course of the study, from a low of 17.81 cm (7.01 inches) during 2011 to a high of 87.96 cm (34.63 inches) during 2015. The pre-construction portion of the project was characterized by fairly extreme drought starting in 2011. Total precipitation for 2011 and 2012 was just 49.12 cm (19.34 inches), less than 50% of the average for a two-year period. The impact of this drought on nesting grassland birds manifest as low nesting species richness and abundance. In 2011 and 2012, 20 and 17 species were documented during point counts, respectively. Post-construction sampling followed the wet year of 2015 (87.96 cm, 34.63 inches). Species richness of nesting birds in 2016 and 2017 was considerably higher than during the drought, 40 and 37 species, respectively. We suspect changes in resource availability associated with relief from drought starting after 2015 was responsible for the recovery/increase in species detected during the breeding season; less importantly any changes from installation of turbines or changes in surface management (e.g., row-crop type).

54 ENVIRONMENTAL SCIENCES↗

Sun Grant/DOE Regional Feedstock Partnership: Final Technical Report

The U.S. Department of Energy (DOE) and the Sun Grant Initiative initiated the Regional Feedstock Partnership (referred to as the Partnership) in 2007 primarily to address information gaps associated with the likelihood for realization of the sustainable and reliable production of a billion-tons of biomass annually to support the U.S. bioenergy industry by the year 2030. Publication of The Technical Feasibility of a Billion-Ton Annual Supply (Perlack et al., 2005) in 2005, with its associated yield assumptions, led to the realization that the yield goals and assumptions utilized in that analysis required careful validation. To achieve the overall goal of validating key yield assumptions, the following objectives were developed: 1. Establishment of replicated field trials across regions to determine the impact of crop residue removal (primarily corn and small grains) on future grain yields and soil health. 2. Establishment of replicated field trials of some of the most promising dedicated energy crops (herbaceous annuals and perennials, as well as woody perennials) to demonstrate the potential performance of these feedstocks across the U.S. 3. Assessment of feedstock resources to be used to estimate a sustainable national supply potential. Teams composed of representatives from Land Grant Universities, USDA ARS, DOE National Laboratories, industry, and other federal agencies were identified and assembled to address each of these objectives. For Objective 1, members of the USDA ARS’ Resilient Economic Agricultural Practices (REAP) team combined with university personnel to leverage on-going work and established new trials to determine sustainable corn residue removal rates. In addition, universities across the continental U.S. conducted surveys of published past research to define parameters for the use of cereal grain residue (primarily wheat) as a biomass feedstock. For Objective 2, and based on input from DOE, USDA, Land Grant university scientists, and others, several herbaceous and woody energy crop species were selected for new or further evaluation across wide geographic areas as cellulosic feedstock sources. Species teams were organized to assess the yield potential of candidate herbaceous feedstocks including sorghum, energycane, Miscanthus x giganteus (hereafter referred to as miscanthus), switchgrass, and mixed perennial species (primarily grasses and some legumes) on Conservation Reserve Program (CRP) land. Woody species will be critical components of the bioenergy sector; therefore, species teams were also organized for shrub willow and hybrid poplar (Populus spp.). Field trials of each species were utilized to determine yield potential across the U.S. For Objective 3, a GIS resource team was organized with representatives from each of the five Sun Grant regions. While some regional assessments were made, the multi-institutional team decided that the group from Oregon State University would utilize their PRISM ELM model to estimate national yield potential of the various species evaluated. The following are key outcomes and impacts • The Partnership demonstrated the production potential of diverse herbaceous and woody feedstocks across much of the U.S. for 5-7 consecutive growing seasons. Long-term studies such as this are not commonly possible due to limitations in funding cycles. • Long-term field trials were valuable in demonstrating the importance of agronomic management practices and genetic resources to yield of sorghum, switchgrass, miscanthus, energycane, CRP mixed perennial grasses, poplar, and willow. • National yield potential maps were developed for all species evaluated in the Partnership. • Sustainable corn stover removal rates were quantified for use by producers, harvesters, and commercial lignocellulosic biorefineries. • Data from the Partnership field trials not only validated initial Billion Ton estimates, but were instrumental in developing both the Billion Ton Update in 2011, and especially the 2016 Billion Ton Report. • The Partnership provided the opportunity to assemble and conserve a poplar germplasm collection that contains more than 20,000 clones for use in breeding programs. New clones resulting from crosses made using this germplasm collection have resulted in significantly improved cultivars that could be scaled up and deployed. • Further validation of improved yields of new varieties/cultivars of biomass sorghum, energycane, hybrid poplars, and shrub willows was produced by the Partnership. • The Partnership demonstrated the potential of energycane in northern parts of the southeastern U.S., particularly in relation to sugarcane varieties. • For certain feedstocks (e.g., CRP mixed grasses, switchgrass, willow, and poplar), production economics were ascertained through Partnership field trials. • Biomass samples collected as part of the Partnership are also being used to populate Idaho National Laboratory’s Bioenergy Feedstock Library. • Because of the size and scope of the Partnership, workforce development was a key component and outcome. Numerous undergraduate students (25), graduate students (15 MS and 8 PhD), and postdoctoral researchers (7) were trained by Partnership participants. This will help to prepare individuals for careers in the emerging fields of plant breeding, biomass production, feedstock supply logistics, and biomass conversion processes. • More than 130 scientific publications have been authored by Partnership team members. Numerous other presentations, outreach publications, book chapters, and websites have also been developed to further the continued development of the bioeconomy.

09 BIOMASS FUELS↗

Enhanced Performance Fast Reactors with Engineered Passive Safety Systems

This report summarizes the work and results of NEUP Project #15-8251, "Enhanced Performance Fast Reactors with Engineered Passive Safety System," performed from 2015-2018 at UC Berkeley and Argonne National Laboratory. This project concerns the incorporation of a novel engineered passive safety system, called the Autonomous Reactivity Control (ARC) system, into Sodium-cooled Fast Reactors (SFRs) to improve their transient and economic performance. The first part of this project consisted of fleshing out the basic principles and the manufacturing process for an SFR fuel assembly with the ARC system installed, with the details provided in high-quality, step-by-step CAD drawings. Once the detailed design is laid out, high-fidelity simulations were performed to optimize the dimensions of important ARC system components and to quantify the standalone time-response of ARC systems in a typical SFR environment. These high-fidelity simulations were used to create reduced-order models of ARC system response which could be incorporated into the SAS4A/SASSYS-1 whole-core transient models. In order to accurately account for the time-response of ARC systems in whole-core transient simulations, modifications were made to the SAS4A/SASSYS-1 transient code. These new capabilities were tested and incorporated into the production version of the code, and have been used extensively in this analysis. Before performing whole-core transient calculations, the two reference cores selected for this study to cover a wide design space were simulated and characterized. The two reference cores, (1) a medium-sized oxide-fueled Advanced Burner Reactor and (2) a large metal-fueled Breed-and-Burn core, challenge conventional means of achieving passive safety. Because the two cores vary substantially, simulating the ARC system in both allows for conclusions to be drawn about the applicability of ARC systems in different SFRs. Once both cores were fully characterized, transient calculations were performed to understand the complicated interplay between the ARC system and other inherent reactivity feedback mechanisms. By performing parametric studies of the transient behavior, ARC system designs that best improve transient performance in each core were identified. Once transient improvements were established, the transient calculations were extended to improve reactor economics through design modifications. Upon establishing the potential benefits of ARC system inclusion, the study examines the negative neutronic implications of incorporating ARC systems into the reference cores. The study concludes by discussing a number of knowledge gaps that exist which may have important implications for ARC system implementation. Ultimately, the results of this project indicate that ARC systems may provide an effective means to improve transient performance in certain types of systems. The transient simulations in the oxide Advanced Burner Reactor showed that significant margin to coolant boiling and fuel melting could be gained through the use of a properly designed ARC system, thus improving inherent safety. While oscillatory behavior was induced in the transient response for certain combinations of ARC system parameters, the oscillation-free design space that can be effectively used to improve performance was found to be large, and the additional margin was demonstrated to allow economical improvements to the core design. Conversely, difficulties were encountered in the Breed-and-Burn core due to fundamental aspects of the core design. The combination of a particularly strong positive coolant void feedback and the use of metallic fuel allowed for diverging oscillations to manifest in response to certain transient initiators, and in the end it was found that the current ARC system design could not simultaneously enable passive safety in all transients examined. In order for complete passive safety to be achieved, a mechanism for slowing the reverse actuation of ARC systems is necessary. Regardless, the standard ARC system was able to improve the performance of two out of the three examined transients by increasing the margin to boiling in Loss of Heat Sink transients and avoiding boiling in Transient Overpower accidents. Additionally, no significant barriers to implementation were found, although the issue of tritium production should be closely monitored in any core incorporating ARC systems. Still, a number of technology gaps exist, and these are discussed at the conclusion of the report to recommend directions for future work.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

Quantifying phenotypic and genetic diversity of Miscanthus sacchariflorus to facilitate knowledge-directed improvement of M. ×giganteus (M. sinensis × M. sacchariflorus) and sugarcane (Final Report)

Bioenergy crops help reduce America’s reliance on fossil fuels, and mitigate global warming. Miscanthus ×giganteus (Mxg) is a promising bioenergy crop because it produces high yields, needs few inputs, and grows well during the cool weather of early spring and late fall when few other warm-season grasses can. However, only a single, sterile vegetatively propagated cultivar of Mxg is currently available in the U.S. Such a reliance on only one cultivar is risky, because the emergence of a virulent disease or pest could damage or kill all plantings. Additionally, it should be possible to breed new Mxg cultivars that have even higher yields and are better adapted to U.S. environments than the current cultivar. Mxg is an interspecific hybrid of the parental species M. sacchariflorus (Msa) and M. sinensis (Msi). Msa is naturally found from central China to eastern Russia, in Korea, and in Japan. Msa includes the tallest and most cold-hardy populations of all Miscanthus, but little had been known about genetic diversity of this species. We collected more than 600 individuals of Msa from throughout its natural range. Using thousands of molecular markers, we identified six distinct genetic groups of Msa, three of which were tetraploid (N China/Korea/Russia, S Japan, and N Japan) and three of which were diploid (Yangtze, N China, and Korea/NE China/Russia). Field trials were conducted at six locations to evaluate yield-potential and adaptation. Some accessions were observed to have exceptional height, yield potential and tolerance to chilling temperatures. These data and accessions of Msa will be useful for breeding improved cultivars of Miscanthus for biomass production. This study resulted in the publication of ten papers in peer-reviewed scientific journals.

09 BIOMASS FUELS↗

Domestic Safeguards Material Control and Accountancy Considerations for Molten Salt Reactors

Molten salt reactors (MSRs) are a class of nuclear reactor designs with features and operational characteristics that vary significantly more than the class of light water reactors (LWRs). MSR design concepts can be broadly categorized as solid-fueled reactors with molten salt as the coolant, liquid-fueled reactors with fuel dissolved in molten salt coolant and liquid-fueled reactors with fuel dissolved in molten salt that is contained in distinct fuel tubes with a nonfissile coolant. Proposed MSR concepts include features that are specific to each design. MSR concepts vary widely across these design features, including the physical, chemical, and isotopic composition of fresh and irradiated fuel. Operational neutron energy spectrums and breeding ratios also vary significantly across design concepts. Some concepts are burner reactors designed to transmute the spent nuclear fuel from LWRs or pressurized heavy water reactors (PHWRs), while others are breeder reactors designed to breed fissile 233 U from naturally occurring fertile 232 Th. Some MSR concepts are designed to be a part of a once-through fuel cycle, while others involve chemical separation. Those that include plans to recycle the fuel differ by whether the chemical processing would be done onsite, as a process connected to the fuel salt itself, or offsite at a reprocessing facility similar to how LWR or PHWR spent fuel is reprocessed in some countries. Each overall design concept contains various aspects of each of these features to produce a unique facility

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

Safeguards for the Lithium Fluoride Thorium Reactor: A Preliminary Nuclear Material Control and Accounting Assessment

This report was prepared by Oak Ridge National Laboratory (ORNL) for Flibe Energy Inc. (FEI), a US-based advanced reactor company founded in 2011 and headquartered in Huntsville, Alabama. FEI is developing the lithium-fluoride thorium reactor (LFTR), which is a modern two-fluid molten salt reactor (MSR) design operating on a thorium/ 233 U fuel cycle. FEI intends for LFTR to become a self-sustaining clean energy source that can create or breed its own fuel from thorium. Each LFTR is intended to breed enough fissile material to compensate for the amount it consumes. Consequently it would not require fissile replenishment during its operational lifetime. This self-sustaining nature would eliminate the need for uranium enrichment infrastructure to support LFTRs after the first generation.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Introgressions of novel diseases resistance genes from Miscanthus into energycane

Sugarcane (Saccharum) is among the world’s leading bioenergy crops. However, modern sugarcane cultivars are derived from a relatively small set of founder genotypes, which has contributed to cultivar susceptibility to diseases. Miscanthus is a close relative of sugarcane that is genetically diverse and a potential source of genes for improving sugarcane. We found that Miscanthus is a source of resistance to four major diseases of sugarcane and we crossed these disease-resistance genes into a predominantly sugarcane genetic background (BC1 generation). Additionally, we found that Miscanthus could also confer genes for chilling-tolerant photosynthesis to sugarcane, which would be highly advantageous for production of energycane in subtropical environments, like the southern coastal plain of the US. Using advanced modeling techniques, we found that standard marker-assisted selection could be effective for breeding resistance conferred by a small number of genes each with large effect (i.e. vertical resistance), but to breed for many genes each of small effect (i.e. horizontal resistance), genomic selection would be the better strategy. Lastly, we learned that Miscanthus can be induced to flower sooner by giving the plants short days (long nights) but that the ideal day length for a given accession depends on its adaptation to its latitude of origin, with tropical accessions requiring shorter days to flower than accessions from high latitudes. This information will facilitate plant breeders’ ability to make crosses between Miscanthus and sugarcane, and enable greater use of Miscanthus as a genetic resource to improve sugarcane.

09 BIOMASS FUELS↗

Design and Assessments of Liquid Metal Systems for a Fusion Power Reactor

This three-year research program at UCLA builds on the Fusion Engineering System Study (FESS) and has the major goal of identifying and accessing the most critical MHD/Mass & Heat Transfer phenomena associated with LM MHD flows in fusion breeding/cooling applications. The computed results and their analyses provide a strong basis to overcome present design limitations and will eventually lead to feasible, more effective solutions for LM systems of a fusion power reactor, such as breeding blankets and LM plasma facing components (PFCs). The project focuses on three research thrusts: Identification and characterization of the most important generic issues common to LM breeders (hereinafter called “Blanket”: ~47% of the resources); Design, implementation and assessments of two LM breeding-blanket concepts, DCLL and HCLL, for particular fusion devices, such as the US Fusion Nuclear Science Facility (FNSF) or the Fusion Pilot Plant (FPP) (hereinafter called “System Studies”: ~40% of the resources); Design and analysis of LM (Li) divertor concepts for FNSF or FPP, including scoping and detailed 2D and 3D computations (hereinafter called “LM PFC”: ~13% of the resources).

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

DEEPER: An Intergrated Platform for Deeper Roots

Crops with deeper roots would have multiple benefits, including better drought tolerance, reduced requirement for nitrogen fertilizer, and better sequestration of atmospheric CO 2 . DEEPER is an integrated platform of phenomic, genomic, and in silico technologies to generate maize lines with deeper roots. DEEPER is: LEADER (Leaf Elemental Accumulation from Deep Roots) is a breakthrough technology to nondestructively measure rooting depth by using the plant itself as a sensor. LEADER uses handheld X-ray Fluorescence spectrometry to quantify foliar accumulation of elements that are differentially distributed in the soil profile. LEADER is nondestructive and is orders of magnitude cheaper, faster, and more precise than any competing assay of rooting depth in the field. LEADER is able to distinguish deep-rooted from shallow-rooted maize lines in the field without the need for costly and noisy soil coring. RootRobot/DIRT3D, to automatically phenotype root architecture in any field, combining RootRobot, a mechatronics platform to excavate, clean, section, and image mature root crowns, with DIRT3D, software to quantify architectural traits in 3D. Anatomics, a high-throughput platform to phenotype root anatomy, combining LAT 2.0, a technology for 3D imaging of root anatomy and composition, with RootScan3D, software to automatically extract 3D anatomical and cell wall composition metrics from LAT 2.0 output. Using this platform we discovered two novel root traits, parenchyma cell wall thickness and multiseriate cortical sclerenchyma, that improve rooting depth and drought tolerance in maize and wheat. OpenSimRoot/Deep, software to simulate root interaction with hard subsoils. Using this platform we discovered novel concepts regarding how to increase crop rooting depth by modulating how individual root axes respond to hard soil. DeepGenes, a toolkit of genes, parent lines, and genomic selection strategies to enable breeding hybrids with deeper roots. We discovered 3 novel root genes that increase rooting depth in maize and wheat. DEEPER discovered novel root phenotypes for deeper rooting, and delivered validated ideotypes for deeper-rooted maize; novel technologies to rapidly assess root depth, root architecture and anatomy in field-grown plants; novel software tools for root modeling and 3D image analysis of root architecture and anatomy; and validated genes and genomic selection models to deploy traits for deeper rooting in maize breeding. Each DEEPER technology is transformative in its own right, and exceeds existing technologies. They are mutually synergistic, deployable for field-grown plants, and are ready for application. The phenotyping and modeling technologies are readily applicable to many crops, and genetic leads in maize may have utility in other grasses. Taken as a whole they represent a transformative platform to develop deeper-rooted crops, with greater drought tolerance, reduced fertilizer requirement, and greater carbon sequestration.

59 BASIC BIOLOGICAL SCIENCES↗

Tritium Extraction from FLiBe using a Permeation Against Vacuum (PAV): Impact of Surface Potentials, Currents, and Coupling PAV to Sacrificial Anodes

Savannah River National Laboratory (SRNL) is exploring a concept of pairing a LiF-BeF2 (FLiBe) immersed Permeation Against Vacuum (PAV) tritium extraction system with a sacrificial anode. Several fusion concepts utilize FLiBe for tritium breeding, and breeding of tritium would occur from neutron interactions with the Li component, creating corrosive TF and/or T2. In absence of a redox buffered system, the TF would be able to attack containment materials until neutralized. One way to neutralize TF is to contact it with an active metal such as Be or Li which would preferentially combine with the fluorine in the TF to form BeF2 or LiF, respectively, and resulting in T2. When the active metal (e.g., Be) is oxidized, it will provide electrons, when T in TF is reduced and forms T2, it needs electrons. SRNL proposes to electrically link these two reactions and with the PAV to help drive the reactions faster than on their own and potentially increase T2 dissociation. In a soluble redox salt buffered system, it is expected that with sufficient buffering, T2, may form more rapidly and the core components would be more protected, but the soluble redox salt buffer would need to be occasionally regenerated, which could be accomplished by again contacting the salt with an active metal such as Be or Li, although in this case the cathodic reaction would be electrons coming from the shift in oxidative state of the redox buffer. The exploration of potential and current effects on the PAV and impacts of redox agents will be discussed.

Olson, Luke C.↗

Experimental Investigations into the Corrosion of Alloy 625 Using NaCl-PuCl3 Molten Salt in a Natural Circulation Microloop

Molten salt reactors (MSRs) can potentially revolutionize the nuclear industry by providing a path to a near-zero nuclear waste fuel cycle, contributing to more sustainable energy sources. As a plethora of MSR developers in the United States work toward an aggressive commercialization timeline, many of their fueled-salts—notably, chloride-based compositions—have limited operational testing with nuclear material. Licensing and operating these reactors require an understanding of corrosion effects on reactor materials of construction under operational conditions. The TerraPower Molten Chloride Fast Reactor (MCFR) is a liquid-fueled chloride-salt fast reactor which has received notable interest from the utility sector based on its desirable economic characteristics. The reactor operates at low pressure but does not require the use of highly reactive chemicals, leading to a reduced use of concrete and steel during construction. Additionally, liquid fuel allows for inherently stable behavior and natural circulation during a loss-of-site-power scenario. MCFR can be refueled while operating which makes it compatible with variable generation sources such as wind and solar. MCFR is a breed-and-burn in-situ reactor that does not implement any chemical processing or separations in the fuel cycle. Only mechanical filtration of noble metals and off-gassing of noble gases are utilized while the actinides stay mixed with the fuel at all times. The MCFR will require technology development to reach commercialization. With a breed-and-burn in-situ reactor like MCFR, the transmutation of fertile U-238 to fissile Pu-239 allows for much greater fuel utilization.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

From Farm to Flight: CoverCress as a Low Carbon Intensity Cash Cover Crop for Sustainable Aviation Fuel Production. A Review of Progress Towards Commercialization

Thlaspi arvense L. (Field Pennycress; pennycress) is being converted into a winter-annual oilseed crop that confers cover crop benefits when grown throughout the 12 million-hectares U.S. Midwest. To ensure a fit with downstream market demand, conversion involves not only improvements in yield and maturity through traditional breeding, but also improvements in the composition of the oil and protein through gene editing tools. The conversion process is similar to the path taken to convert rapeseed into Canola. In the case of field pennycress, the converted product that is suitable as a rotational crop is called CoverCress™ as marketed by CoverCress Inc. or golden pennycress if marketed by others. Off-season integration of a CoverCress crop into existing corn and soybean hectares would extend the growing season on established croplands and avoid displacement of food crops or ecosystems while yielding up to 1 billion liters of seed oil annually by 2030, with the potential to grow to 8 billion liters from production in the U.S. Midwest alone. The aviation sector is committed to carbon-neutral growth and reducing emissions of its global market, which in 2019 approached 122 billion liters of consumption in the U.S. and 454 billion liters globally. The oil derived from a CoverCress crop is ideally suited as a new bioenergy feedstock for the production of drop-in Sustainable Aviation Fuel (SAF), renewable diesel, biodiesel and other value-added coproducts. Through a combination of breeding and genomics-enabled mutagenesis approaches, considerable progress has been made in genetically improving yield and other agronomic traits. With USDA-NIFA funding and continued public and private investments, improvements to CoverCress germplasm and agronomic practices suggest that field-scale production can surpass 1,680 kg ha -1 (1,500 lb ac -1 ) in the near term. At current commodity prices, economic modeling predicts this level of production can be profitable across the entire supply chain. Two-thirds of the grain value is in oil converted to fuels and chemicals, and the other one-third is in the meal used as an animal feed, industrial applications, and potential plant-based protein products. In addition to strengthening rural communities by providing income to producers and agribusinesses, cultivating a CoverCress crop potentially offers a myriad of ecosystem services. The most notable service is water quality protection through reduced nutrient leaching and reduced soil erosion. Biodiversity enhancement by supporting pollinators’ health is also a benefit. While the efforts described herein are focused on the U.S., cultivation of a CoverCress crop will likely have a broader application to regions around the world with similar agronomic and environmental conditions.

09 BIOMASS FUELS↗

Genome-Wide Association Study for Identifying Loci that Affect Fillet Yield, Carcass, and Body Weight Traits in Rainbow Trout (Oncorhynchus mykiss)

Fillet yield (FY, %) is an economically-important trait in rainbow trout aquaculture that affects production efficiency. Despite that, FY has received little attention in breeding programs because it is difficult to measure on a large number of fish and cannot be directly measured on breeding candidates. The recent development of a high-density SNP array for rainbow trout has provided the needed tool for studying the underlying genetic architecture of this trait. A genome-wide association study (GWAS) was conducted for FY, body weight at 10 (BW10) and 13 (BW13) months post-hatching, head-off carcass weight (CAR), and fillet weight (FW) in a pedigreed rainbow trout population selectively bred for improved growth performance. The GWAS analysis was performed using the weighted single-step GBLUP method (wssGWAS). Phenotypic records of 1447 fish (1.5 kg at harvest) from 299 full-sib families in three successive generations, of which 875 fish from 196 full-sib families were genotyped, were used in the GWAS analysis. A total of 38,107 polymorphic SNPs were analyzed in a univariate model with hatch year and harvest group as fixed effects, harvest weight as a continuous covariate, and animal and common environment as random effects. A new linkage map was developed to create windows of 20 adjacent SNPs for use in the GWAS. The two windows with largest effect for FY and FW were located on chromosome Omy9 and explained only 1.0–1.5% of genetic variance, thus suggesting a polygenic architecture affected by multiple loci with small effects in this population. One window on Omy5 explained 1.4 and 1.0% of the genetic variance for BW10 and BW13, respectively. Three windows located on Omy27, Omy17, and Omy9 (same window detected for FY) explained 1.7, 1.7, and 1.0%, respectively, of genetic variance for CAR. Among the detected 100 SNPs, 55% were located directly in genes (intron and exons). Nucleotide sequences of intragenic SNPs were blasted to the Mus musculus genome to create a putative gene network. The network suggests that differences in the ability to maintain a proliferative and renewable population of myogenic precursor cells may affect variation in growth and fillet yield in rainbow trout.

54 ENVIRONMENTAL SCIENCES↗

ParaStell: parametric modeling and neutronics support for stellarator fusion power plants

The three-dimensional variation inherent to stellarator geometries and fusion sources motivates three-dimensional modeling to obtain accurate results from computational modeling in support of design and analysis of first wall, blanket, and shield (FWBS) systems. Manually constructing stellarator fusion power plant geometries in computer-aided design (CAD) and defining the corresponding fusion source can be cumbersome and challenging. The open-source parametric modeling toolset ParaStell has been developed to automate construction of such geometries in low-fidelity. Low-fidelity modeling is useful during the conceptual phase of engineering design as a means of rapidly exploring the design space of a given device. The modeling capability of ParaStell includes in-vessel components and magnets, for any given stellarator configuration, using a parametric definition and plasma equilibrium data. Furthermore, the toolset automates the generation of detailed, tetrahedral neutron source definitions and DAGMC geometries for use in neutronics modeling. ParaStell assists rapid design iteration, parametric study, and design optimization of stellarator fusion cores. As a demonstration of the design iteration capability, the effect of the three-dimensional parameter space on tritium breeding and magnet shielding is investigated, using the WISTELL-D configuration as a design basis. Blanket and shield thicknesses are varied in three dimensions, using the space available between the plasma edge and magnet coils as a constraint. The corresponding effects on tritium breeding ratio and magnet heating are tallied using the open-source Monte Carlo particle transport code OpenMC. The inclusion of additional and higher-fidelity modeling capabilities is planned for ParaStell’s future, as well as its implementation in machine-driven optimization.

Moreno, Connor↗

Population genomic analysis reveals differential evolutionary histories and patterns of diversity across subgenomes and subpopulations of Brassica napus L.

The allotetraploid species Brassica napus L. is a global crop of major economic importance, providing canola oil (seed) and vegetables for human consumption and fodder and meal for livestock feed. Characterizing the genetic diversity present in the extant germplasm pool of B. napus is fundamental to better conserve, manage and utilize the genetic resources of this species. We used sequence-based genotyping to identify and genotype 30,881 SNPs in a diversity panel of 782 B. napus accessions, representing samples of winter and spring growth habits originating from 33 countries across Europe, Asia, and America. We detected strong population structure broadly concordant with growth habit and geography, and identified three major genetic groups: spring (SP), winter Europe (WE), and winter Asia (WA). Subpopulation-specific polymorphism patterns suggest enriched genetic diversity within the WA group and a smaller effective breeding population for the SP group compared to WE. Interestingly, the two subgenomes of B. napus appear to have different geographic origins, with phylogenetic analysis placing WE and WA as basal clades for the other subpopulations in the C and A subgenomes, respectively. Finally, we identified 16 genomic regions where the patterns of diversity differed markedly from the genome-wide average, several of which are suggestive of genomic inversions. The results obtained in this study constitute a valuable resource for worldwide breeding efforts and the genetic dissection and prediction of complex B. napus traits.

58 GEOSCIENCES↗

Generating Novel Aroma Phenotypes Using Commercial Wine Samples to Characterize an F1 Population

Due to their disease tolerance and cold hardy nature, interspecific hybrid grapes are widely grown in the Midwestern and Northeastern United States, with additional interest worldwide in the face of increased abiotic and biotic stresses from climate change. However, the aroma profile of these hybrids is unique and generally less popular in comparison with Vitis vinifera grapes. One of the challenges in any phenotyping project is first defining the traits of interest. As wine quality was our ultimate metric of interest, the aroma profile of commercial wines produced from the parents of a breeding population ( Vitis aestivalis derived ‘Norton’ x V. vinifera . ‘Cabernet Sauvignon’) was first assessed for traits of interest. We investigated 11 commercial wines each of Norton, a popular hybrid in Missouri and Cabernet Sauvignon (Cab) for their volatile profiles using the more inclusive metabolomics-based workflow. We then analyzed 21 Norton and 21 Cab grapes from different sites and vintages for the free and bound volatile compounds using HS-SPME-GCMS to validate the differences in wine. The GCMS data was processed using XCMS software to find features that were different between the two cultivars. The two cultivars were found to have differences in their volatile profiles, with 304 features different for wine volatiles, 418 features different for free volatiles, and 302 features different for bound volatiles at 0.05 significance level and with at least a 1.5-fold change between the two cultivars. Those features were used to identify several odor-active compounds in both grapes and wines, including β-damascenone, β-ionone, eugenol, 1,1,6-trimethyl-1,2-dihydronaphthalene (TDN), and methyl salicylate. Some of the identified compounds were higher in Norton than Cab; however, several features were higher in Cab. Using the identified aroma compounds as markers, we phenotyped an F1 population of Norton and Cab. The F1 population was found to be segregating for many aroma compounds with some genotypes demonstrating an even higher concentration of aroma volatiles than either of the parents. Ultimately, using commercially available samples paired with untargeted analysis proved to be an efficient way to determine phenotypes of interest for further analysis and may offer an easy way to choose potential parents with desired traits for breeding.

59 BASIC BIOLOGICAL SCIENCES↗

Image-based time series analysis to establish differential disease progression for two Fusarium head blight pathogens in oat spikelets with variable resistance

Oat-based value-added products have increased their value as healthy foodstuff. Fusarium head blight (FHB) infections and the mycotoxins accumulated to the oat seeds, however, pose a challenge to oat production. The FHB infections are predicted to become more prevalent in the future changing climates and under more limited use of fungicides. Both these factors increase the pressure for breeding new resistant cultivars. Until now, however, genetic links in oats against FHB infection have been difficult to identify. Therefore, there is a great need for more effective breeding efforts, including improved phenotyping methods allowing time series analysis and the identification of molecular markers during disease progression. To these ends, dissected spikelets of several oat genotypes with different resistance profiles were studied by image-based methods during disease progression by Fusarium culmorum or F. langsethiae species. The chlorophyll fluorescence of each pixel in the spikelets was recorded after inoculation by the two Fusarium spp., and the progression of the infections was analyzed by calculating the mean maximum quantum yield of PSII (F v /F m ) values for each spikelet. The recorded values were (i) the change in the photosynthetically active area of the spikelet as percentage of its initial size, and (ii) the mean of F v /F m values of all fluorescent pixels per spikelet post inoculation, both indicative of the progression of the FHB disease. The disease progression was successfully monitored, and different stages of the infection could be defined along the time series. The data also confirmed the differential rate of disease progression by the two FHB causal agents. In addition, oat varieties with variable responses to the infections were indicated.

oats↗

Longitudinal genome-wide association study reveals early QTL that predict biomass accumulation under cold stress in sorghum

Sorghum bicolor is a promising cellulosic feedstock crop for bioenergy due to its high biomass yields. However, early growth phases of sorghum are sensitive to cold stress, limiting its planting in temperate environments. Cold adaptability is crucial for cultivating bioenergy and grain sorghum at higher latitudes and elevations, or for extending the growing season. Identifying genes and alleles that enhance biomass accumulation under early cold stress can lead to improved sorghum varieties through breeding or genetic engineering. We conducted image-based phenotyping on 369 accessions from the sorghum Bioenergy Association Panel (BAP) in a controlled environment with early cold treatment. The BAP includes diverse accessions with dense genotyping and varied racial, geographical, and phenotypic backgrounds. Daily, non-destructive imaging allowed temporal analysis of growth-related traits and water use efficiency (WUE). A genome-wide association study (GWAS) was performed to identify genomic intervals and genes associated with cold stress response. The GWAS identified transient quantitative trait loci (QTL) strongly associated with growth-related traits, enabling an exploration of the genetic basis of cold stress response at different developmental stages. This analysis of daily growth traits, rather than endpoint traits, revealed early transient QTL predictive of final phenotypes. The study identified both known and novel candidate genes associated with growth-related traits and temporal responses to cold stress. The identified QTL and candidate genes contribute to understanding the genetic mechanisms underlying sorghum's response to cold stress. These findings can inform breeding and genetic engineering strategies to develop sorghum varieties with improved biomass yields and resilience to cold, facilitating earlier planting, extended growing seasons, and cultivation at higher latitudes and elevations.

59 BASIC BIOLOGICAL SCIENCES↗