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At least 1,315 records · Page 73

Differences in resource use lead to coexistence of seed-transmitted microbial populations

Seeds are involved in the vertical transmission of microorganisms in plants and act as reservoirs for the plant microbiome. They could serve as carriers of pathogens, making the study of microbial interactions on seeds important in the emergence of plant diseases. We studied the influence of biological disturbances caused by seed transmission of two phytopathogenic agents, Alternaria brassicicola Abra43 (Abra43) and Xanthomonas campestris pv. campestris 8004 (Xcc8004), on the structure and function of radish seed microbial assemblages, as well as the nutritional overlap between Xcc8004 and the seed microbiome, to find seed microbial residents capable of outcompeting this pathogen. According to taxonomic and functional inference performed on metagenomics reads, no shift in structure and function of the seed microbiome was observed following Abra43 and Xcc8004 transmission. This lack of impact derives from a limited overlap in nutritional resources between Xcc8004 and the major bacterial populations of radish seeds. However, two native seed-associated bacterial strains belonging to Stenotrophomonas rhizophila displayed a high overlap with Xcc8004 regarding the use of resources; they might therefore limit its transmission. The strategy we used may serve as a foundation for the selection of seed indigenous bacterial strains that could limit seed transmission of pathogens.

59 BASIC BIOLOGICAL SCIENCES↗

Maturing global CO 2 storage resources on offshore continental margins to achieve 2DS emissions reductions

Most studies on CO 2 emissions reduction strategies that address the ‘two-degree scenario’ (2DS) recognize a significant role for CCS. For CCS to be effective, it must be deployed globally on both existing and emerging energy systems. For nations with large-scale emissions, offshore geologic CO 2 storage provides an attractive and efficient long-term strategy. While some nations are already developing CCS projects using offshore CO 2 storage resources, most geographic regions have yet to begin. This paper demonstrates the geologic significance of global continental margins for providing broadly-equitable, geographically-relevant, and high-quality CO 2 storage resources. We then use principles of pore-space utilization and subsurface pressure constraints together with analogs of historic industry well deployment rates to demonstrate how the required storage capacity can be developed as a function of time and technical maturity to enable the global deployment of offshore storage for facilitating 2DS. Our analysis indicates that 10–14 thousand CO 2 injection wells will be needed globally by 2050 to achieve this goal.

58 GEOSCIENCES↗

Behavioral state resource selection in invasive wild pigs in the Southeastern United States

Elucidating correlations between wild pig ( Sus scrofa ) behavior and landscape attributes can aid in the advancement of management strategies for controlling populations. Using GPS data from 49 wild pigs in the southeastern U.S., we used hidden Markov models to define movement path characteristics and assign behaviors (e.g., resting, foraging, travelling). We then explored the connection between these behaviors and resource selection for both sexes between two distinct seasons based on forage availability (i.e., low forage, high forage). Females demonstrated a crepuscular activity pattern in the high-forage season and a variable pattern in the low-forage season, while males exhibited nocturnal activity patterns across both seasons. Wild pigs selected for bottomland hardwoods and dense canopy cover in all behavioral states in both seasons. Males selected for diversity in vegetation types while foraging in the low-forage season compared to the high-forage season and demonstrated an increased use of linear anthropogenic features across seasons while traveling. Wild pigs can establish populations and home ranges in an array of landscapes, but our results demonstrate male and female pigs exhibit clear differences in movement behavior and there are key resources associated with common behaviors that can be targeted to improve the efficiency of management programs.

54 ENVIRONMENTAL SCIENCES↗

Operational resilience metrics for power systems with penetration of renewable resources

Abstract Modern power grid is evolving towards carbon neutrality by deploying increasing amount of renewable energy resources. However, the impact of renewable generation on power system planning and operation is not sufficiently investigated, especially the capability of renewable penetrated power systems to resist and recover from major disturbances, which is a critical concern for system operators. Novel metrics and evaluation methodologies are needed to depict systems’ ability in response to events caused by natural disasters, and quantitatively evaluate system performance in various time scales. In this paper, operational resilience metrics are proposed for power systems with penetration of renewable energy resources based on transient stability principles. A systematic methodology is proposed to quantitatively assess the evolution of system performance during various stages of the disaster process. Based on the proposed metrics, a resilience‐oriented disaster management strategy is designed and validated using the modified IEEE 39‐bus test system. The simulation results demonstrate the validity of the proposed metrics and strategy, and show that the system resilience is enhanced during the mitigation of fault conditions.

Gui, Jianzhong↗

Producing Madgraph5_aMC@NLO gridpacks and using TensorFlow GPU resources in the CMS HTCondor Global Pool

The CMS experiment has an HTCondor Global Pool, composed of more than 200K CPU cores available for Monte Carlo production and the analysis of da.The submission of user jobs to this pool is handled by either CRAB, the standard workflow management tool used by CMS users to submit analysis jobs requiring event processing of large amounts of data, or by CMS Connect, a service focused on final stage condor-like analysis jobs and applications that already have a workflow job manager in place. The latest scenario canbring cases in which workflows need further adjustments in order to efficiently work in a globally distributed pool of resources. For instance, the generation of matrix elements for high energy physics processes via Madgraph5_aMC@NLO and the usage of tools not (yet) fully supported by the CMS software, such as Ten-sorFlow with GPUsupport, are tasks with particular requirements. A special adaption, either at the pool factory level (advertising GPU resources) or at the execute level (e.g: to handle special parameters that describe certain needs for the remote execute nodes during submission) is needed in order to adequately work in the CMS global pool. This contribution describes the challenges and efforts performed towards adaptingsuch workflows so they can properly profit from the Global Pool via CMS Connect.

Bockelman, Brian Paul↗

Experience with dynamic resource provisioning of the CMS online cluster using a cloud overlay

The primary goal of the online cluster of the Compact Muon Solenoid (CMS) experiment at the Large Hadron Collider (LHC) is to build event data from the detector and to select interesting collisions in the High Level Trigger (HLT) farm for offline storage. With more than 1500 nodes and a capacity of about 850 kHEPSpecInt06, the HLT machines represent similar computing capacity of all the CMS Tier1 Grid sites together. Moreover, it is currently connected to the CERN IT datacenter via a dedicated 160 Gbps network connection and hence can access the remote EOS based storage with a high bandwidth. In the last few years, a cloud overlay based on OpenStack has been commissioned to use these resources for the WLCG when they are not needed for data taking. This online cloud facility was designed for parasitic use of the HLT, which must never interfere with its primary function as part of the DAQ system. It also allows to abstract from the different types of machines and their underlying segmented networks. During the LHC technical stop periods, the HLT cloud is set to its static mode of operation where it acts like other grid facilities. The online cloud was also extended to make dynamic use of resources during periods between LHC fills. These periods are a-priori unscheduled and of undetermined length, typically of several hours, once or more a day. For that, it dynamically follows LHC beam states and hibernates Virtual Machines (VM) accordingly. Finally, this work presents the design and implementation of a mechanism to dynamically ramp up VMs when the DAQ load on the HLT reduces towards the end of the fill.

97 MATHEMATICS AND COMPUTING↗

I/O performance studies of analysis workloads on production and dedicated resources at CERN

The recent evolutions of the analysis frameworks and physics data formats of the LHC experiments provide the opportunity of using central analysis facilities with a strong focus on interactivity and short turnaround times, to complement the more common distributed analysis on the Grid. In order to plan for such facilities, it is essential to know in detail the performance of the combination of a given analysis framework, of a specific analysis and of the installed computing and storage resources. This contribution describes performance studies performed at CERN, using the EOS disk-based storage, either directly or through an XCache instance, from both batch resources and highperformance compute nodes which could be used to build an analysis facility. A variety of benchmarks, both synthetic and based on real-world physics analyses and their corresponding input datasets, are utilized. In particular, the RNTuple format from the ROOT project is put to the test and compared to the latest version of the TTree format, and the impact of caches is assessed. In addition, we assessed the difference in performance between the use of storage system specific protocols, like XRootd, and FUSE. The results of this study are intended to be a valuable input in the design of analysis facilities, at CERN and elsewhere.

Sciabà, Andrea↗

Using the ATLAS experiment software on heterogeneous resources

With the large dataset expected from 2030 onwards by the HL-LHC at CERN, the ATLAS experiment is reaching the limits of the current data processing model in terms of traditional CPU resources based on x86_64 architectures and an extensive program for software upgrades towards the HL-LHC has been set up. The ARM CPU architecture is becoming a competitive and energy efficient alternative. Accelerators like GPUs are available in any recent HPC. In the past years ATLAS has successfully ported its full data processing and simulation software framework Athena to ARM and has invested significant effort in porting parts of the reconstruction and simulation algorithms to GPUs. We report on the successful usage of the ATLAS experiment offline and online software framework Athena on ARM and GPUs through the PanDA workflow management system at various WLCG sites. Furthermore we report on performance optimizations of the builds for ARM CPUs and the GPU integration efforts. We will discuss performance comparisons of different ARM and x86_64 architectures on WLCG resources and Cloud compute providers like GCP and AWS using ATLAS productions workflows as used in the Hep-Score23 benchmark suite.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Uncertainty analysis in geospatial merit matrix–based hydropower resource assessment

Hydraulic head and mean annual streamflow, two main input parameters in hydropower resource assessment, are not measured at every point along the stream. Translation and interpolation are used to derive these parameters, resulting in uncertainties. This study estimates the uncertainties and their effects on model output parameters: the total potential power and the number of potential locations (stream-reach). These parameters are quantified through Monte Carlo Simulation (MCS) linking with a geospatial merit matrix based hydropower resource assessment (GMM-HRA) Model. The methodology is applied to flat, mild, and steep terrains. Results show that the uncertainty associated with the hydraulic head is within 20% for mild and steep terrains, and the uncertainty associated with streamflow is around 16% for all three terrains. Output uncertainty increases as input uncertainty increases. However, output uncertainty is around 10% to 20% of the input uncertainty, demonstrating the robustness of the GMM-HRA model. Hydraulic head is more sensitive to output parameters in steep terrain than in flat and mild terrains. Furthermore, mean annual streamflow is more sensitive to output parameters in flat terrain.

13 HYDRO ENERGY↗

Small-Scale Irrigation: Improving Food Security under Changing Climate and Water Resource Conditions in Ethiopia

We develop a new systems modeling tool that integrates knowledge from hydrology, agriculture, and economics to understand the effect of small-scale irrigation on food security and groundwater sustainability in Ethiopia. Irrigation is an effective tool to mitigate climate impacts and improve agricultural yields. Small-scale irrigation, such as decentralized groundwater irrigation, is well suited for developing countries where smallholder farming communities are widely dispersed and can only afford small infrastructure investment. We study the underlying interdependencies between food and water systems in Ethiopia, where small-holder agriculture is the foundation of the nation’s economy and climate variability has led to great challenges to its food security. Our coupled market and crop model with groundwater module captures the interdependencies of climate, water availability (including irrigation), crop yield, farmland allocation, crop production, transport and consumption based on a system approach across multiple spatial scales. We study the implication of small-scale irrigation to Ethiopia’s food security and water resource conditions as a “what-if” question by comparing an irrigation scenario to the calibrated baseline in 2015, a year of significant drought and crop failure over a large portion of Ethiopia. Our model offers fresh insights into geographic disparities in outcomes that are driven by baseline climate variability, soil fertility, and market conditions. In general, we find that small-scale irrigation can potentially improve food security through increases in food consumption, but it requires policy support to direct the increases of production to domestic consumption while maintaining a sustainable groundwater condition. By using Ethiopia as an example, we show the strength of our model to study how water infrastructure resources support critical functions and service in water and food systems.

Zhang, Ying↗

Limited and time-delayed internal resource allocation generates oscillations and chaos in the dynamics of citrus crops

Alternate bearing or masting is a yield variability phenomenon in perennial crops. The complex dynamics in this phenomenon have stimulated much ecological research. Motivated by data from an eight-year experiment with forty-eight individual trees, we explored the mechanism inherent to these dynamics in Satsuma mandarin (Citrus unshiu Marc.). By integrating high-resolution imaging technology, we found that the canopy structure and reproduction output of individual citrus crops are mutually dependent on each other. Furthermore, it was revealed that the mature leaves in early season contribute their energy to the fruiting of the current growing season, whereas the younger leaves show a delayed contribution to the next growing season. We thus hypothesized that the annual yield variability might be caused by the limited and time-delayed resource allocation in individual plants. A novel lattice model based on this hypothesis demonstrates that this pattern of resource allocation will generate oscillations and chaos in citrus yield.

60 APPLIED LIFE SCIENCES↗

Using multiple high-resolution datasets to benchmark the energy exascale earth system model (E3SM) for renewable resource assessment

The United States is accelerating its shift toward a renewable energy system. However, renewable resources, which harness energy from the Earth system, are susceptible to both present-day climate variability and future climate change. For example, variations in regional climate can alter renewable energy production patterns and site viability. The use of high-resolution climate model projections can therefore facilitate and may be critical to long-term planning of renewable energy investments. However, climate models must first be validated for renewable resource assessment. This research employs multiple high-spatiotemporal-resolution datasets to assess the capability of the Department of Energy’s (DOE) Energy Exascale Earth System Model version 2 North American Regionally Refined Model (E3SMv2-NARRM) for predicting multi-year climatological values of solar and wind energy capacity factors in the continental U.S., with a focus on regional and seasonal variability. Present-day E3SMv2-NARRM simulations are compared with reported utility-scale production data obtained from the Energy Information Administration (EIA). In addition, E3SMv2-NARRM data are evaluated against non-climate benchmark models from the National Renewable Energy Laboratory, including the Wind Integration National Dataset Toolkit and the National Solar Radiation Database (NSRDB), as well as three wind energy datasets from PLUSWIND. Our analysis indicates that solar capacity factors from E3SM closely match those from the NSRDB dataset. However, both datasets tend to overestimate values by 10% in comparison to EIA data. Furthermore, biases in wind capacity factors within E3SM are notably pronounced in the West Coast regions, where the seasonal cycle diverges from EIA data.

Energy forecasting, Capacity factor, Renewable ene↗

Population structure limits the use of genomic data for predicting phenotypes and managing genetic resources in forest trees

There is overwhelming evidence that forest trees are locally adapted to climate. Thus, genecological models based on population phenotypes have been used to measure local adaptation, infer genetic maladaptation to climate, and guide assisted migration. However, instead of phenotypes, there is increasing interest in using genomic data for gene resource management. We used whole-genome resequencing and common-garden experiments to understand the genetic architecture of adaptive traits in black cottonwood. We studied the potential of using genome-wide association studies (GWAS) and genomic prediction to detect causal loci, identify climate-adapted phenotypes, and inform gene resource management. We analyzed population structure by partitioning phenotypic and genomic (single-nucleotide polymorphism) variation among 840 genotypes collected from 91 stands along 16 rivers. Most phenotypic variation (60 to 81%) occurred among populations and was strongly associated with climate. Population phenotypes were predicted well using genomic data (e.g., predictive abilityr> 0.9) but almost as well using climate or geography (r> 0.8). In contrast, genomic prediction within populations was poor (r< 0.2). We identified many GWAS associations among populations, but most appeared to be spurious based on pooled within-population analyses. Hierarchical partitioning of linkage disequilibrium and haplotype sharing suggested that within-population genomic prediction and GWAS were poor because allele frequencies of causal loci and linked markers differed among populations. Given the urgent need to conserve natural populations and ecosystems, our results suggest that climate variables alone can be used to predict population phenotypes, delineate seed zones and deployment zones, and guide assisted migration.

Science & Technology - Other Topics↗

Financial-technical co-design for capital-intensive, resource-responsive energy systems

Because of their capital-intensive operation, wind energy systems that are competitive in terms of the cost of the energy that they produce lead to risk-reward trade-offs that make their business cases less favorable than those of conventional energy generation technologies. However, wind energy systems tend to be designed to maximize energy production or minimize cost of energy rather than to maximize their business cases. In this work, we attempt to exploit designs specifically tailored to business cases. We develop a novel framework for analyzing energy systems that ties their design variables to monthly operating incomes using simple models and historical hourly market and resource data. Using this approach, we demonstrate that for a wind site with abundant wind resource in the California Independent System Operator market, we can control the trade-off between mean and 5th percentile monthly returns by choosing the specific power of the turbine at a fixed modeled initial capital cost. Our framework gives a measure of the risk-reward spectrum of energy generation assets that could be built at a given site with respect to the sub-annual resource/market variation.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗

Investigating resource-efficient neutron/gamma classification ML models targeting eFPGAs

There has been considerable interest and resulting progress in implementing machine learning (ML) models in hardware over the last several years from the particle and nuclear physics communities. A big driver has been the release of the Python package, hls4ml, which has enabled porting models specified and trained using Python ML libraries to register transfer level (RTL) code. So far, the primary end targets have been commercial field-programmable gate arrays (FPGAs) or synthesized custom blocks on application specific integrated circuits (ASICs). However, recent developments in open-source embedded FPGA (eFPGA) frameworks now provide an alternate, more flexible pathway for implementing ML models in hardware. These customized eFPGA fabrics can be integrated as part of an overall chip design. In general, the decision between a fully custom, eFPGA, or commercial FPGA ML implementation will depend on the details of the end-use application. In this work, we explored the parameter space for eFPGA implementations of fully-connected neural network (fcNN) and boosted decision tree (BDT) models using the task of neutron/gamma classification with a specific focus on resource efficiency. We used data collected using an AmBe sealed source incident on Stilbene, which was optically coupled to an OnSemi J-series silicon photomultiplier (SiPM) to generate training and test data for this study. We investigated relevant input features and the effects of bit-resolution and sampling rate as well as trade-offs in hyperparameters for both ML architectures while tracking total resource usage. The performance metric used to track model performance was the calculated neutron efficiency at a gamma leakage of 10 -3 . The results of the study will be used to aid the specification of an eFPGA fabric, which will be integrated as part of a test chip.

47 OTHER INSTRUMENTATION↗

The impact of regional resources and technology availability on carbon dioxide removal potential in the United States

To achieve net zero carbon emissions by mid-century, the United States may need to rely on carbon dioxide removal (CDR) to offset emissions from difficult-to-decarbonize sectors and/or shortfalls in near-term mitigation efforts. CDR can be delivered using many approaches with different requirements for land, water, geologic carbon storage capacity, energy, and other resources. The availability of these resources varies by region in the U.S. suggesting that CDR deployment will be uneven across the country. Using the global change analysis model for the United States (GCAM-USA), we modeled six classes of CDR and explored their potential using four scenarios: a scenario where all the CDR pathways are available (Full Portfolio), a scenario with restricted carbon capture and storage (Low CCS), a scenario where the availability of bio-based CDR options is limited (Low Bio), and a scenario with constraints on enhanced rock weathering (ERW) capabilities (Low ERW). We find that by employing a diverse set of CDR approaches, the U.S. could remove between 1 and 1.9 GtCO 2 /yr by midcentury. In the Full Portfolio scenario, direct air carbon capture and storage (DACCS) predominates, delivering approximately 50% of CO 2 removal, with bioenergy with carbon capture and storage contributing 25%, and ERW delivering 11.5%. Texas and the agricultural Midwest lead in CDR deployment due to their abundant agricultural land and geological storage availability. In the Low CCS scenario, reliance on DACCS decreases, easing pressure on energy systems but increasing pressure on the land. In all cases CDR deployment was found to drive important impacts on energy, land, or materials supply chains (to supply ERW, for example) and these effects were generally more pronounced when fewer CDR technologies were available.

54 ENVIRONMENTAL SCIENCES↗

MetaHCR: a web-enabled metagenome data management system for hydrocarbon resources

The ever-increasing metagenomic data necessitate appropriate cataloguing in a way that facilitates the comparison and better contextualization of the underlying investigations. To this extent, information associated with the sequencing data as well as the original sample and the environment where it was obtained from is crucial. To date, there are not any publicly available repositories able to capture environmental metadata pertaining to hydrocarbon-rich environments. As such, contextualization and comparative analysis among sequencing datasets derived from these environments is to a certain degree hindered or cannot be fully evaluated. The metagenomics data management system for hydrocarbon resources (MetaHCRs) enables the capturing of marker gene and whole metagenome sequencing data as well as over 300 contextual attributes associated with samples, organisms, environments and geological properties, among others. Moreover, MetaHCR implements the Minimum Information about any Sequence–hydrocarbon resource specification from the Genomic Standards Consortium; it integrates a user-friendly web interface and relational database model, and it enables the generation of complex custom search. MetaHCR has been tested with 36 publicly available metagenomic studies, and its modular architecture can be easily customized for other types of environmental and metagenomics studies.

59 BASIC BIOLOGICAL SCIENCES↗

Harmonizing model organism data in the Alliance of Genome Resources

The Alliance of Genome Resources (the Alliance) is a combined effort of 7 knowledgebase projects: Saccharomyces Genome Database, WormBase, FlyBase, Mouse Genome Database, the Zebrafish Information Network, Rat Genome Database, and the Gene Ontology Resource. The Alliance seeks to provide several benefits: better service to the various communities served by these projects; a harmonized view of data for all biomedical researchers, bioinformaticians, clinicians, and students; and a more sustainable infrastructure. The Alliance has harmonized cross-organism data to provide useful comparative views of gene function, gene expression, and human disease relevance. The basis of the comparative views is shared calls of orthology relationships and the use of common ontologies. The key types of data are alleles and variants, gene function based on gene ontology annotations, phenotypes, association to human disease, gene expression, protein–protein and genetic interactions, and participation in pathways. The information is presented on uniform gene pages that allow facile summarization of information about each gene in each of the 7 organisms covered (budding yeast, roundworm Caenorhabditis elegans, fruit fly, house mouse, zebrafish, brown rat, and human). The harmonized knowledge is freely available on the alliancegenome.org portal, as downloadable files, and by APIs. We expect other existing and emerging knowledge bases to join in the effort to provide the union of useful data and features that each knowledge base currently provides.

59 BASIC BIOLOGICAL SCIENCES↗