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DOE OSTI2023

High-Throughput Electrochemical Characterization of Aqueous Organic Redox Flow Battery Active Material

The development of redox-active organics for flow batteries providing long discharge duration energy storage requires an accurate understanding of molecular lifetimes. Herein we report the development of a high-throughput setup for the cycling of redox flow batteries. Using common negolyte redox-active aqueous organics, we benchmark capacity fade rates and compare variations in measured cycling behavior of nominally identical volumetrically unbalanced compositionally symmetric cells. We propose figures of merit for consideration when cycling sets of identical cells, and compare three common electrochemical cycling protocols typically used in battery cycling: constant current, constant current followed by constant voltage, and constant voltage. Redox-active organics exhibiting either high or low capacity fade rates are employed in the cell cycling protocol comparison, with results analyzed from over 50 flow cells.

Electrochemistry↗

DOE OSTI2026

JGI Archive and Metadata Organizer (JAMO) v2.0.0

JAMO (JGI Archive and Metadata Organizer) helps researchers keep large collections of scientific files organized, findable, and safe. It lets you submit files with consistent, template-driven metadata, bundle related files into sets, and track them as a group instead of one by one. As data ages, JAMO automatically moves it from fast disk to cost-saving tape and can bring it back when needed, keeping storage lean without losing access. A simple web/CLI workflow supports submitting, checking status, retrying, and updating metadata. Compared with generic storage, JAMO's strengths are: clear, searchable metadata tuned for science; set-level organization that mirrors real projects; and built-in lifecycle care (archive, purge, restore) so you don't have to manage those steps yourself.

Cassol, Daniela [Lawrence Berkeley National Labora↗

DOE OSTI2024

Organic carbon feedbacks to soil structure in Profundihumic and Haplic Ferralsols in Campinas, Sao Paulo, Brazil

Increasing soil organic matter content coincides with increasing soil porosity and decreasing bulk density, but the mechanisms that lead to changes in soil structure are unclear. We quantified and compared soil characteristics across two contrasting soils (heavily weathered ferralsols in Brazil) to clarify the effects of organic matter content on soil porosity. We found that high organic matter content fosters higher biologic activity, including root growth and animal burrowing, which in turn increase soil porosity and decreases bulk density.This dataset includes soil physical, morophological, and chemical variables from 6 soil profiles were sampled in Campinas, Sa ̃o Paulo state, southeastern Brazil to 1 m depth. Sites are regenerated mixed savanna and rainforest in the protected area of Viracopos Airport in Campinas, lightly grazed by cattle.This dataset includes soil color, bulk density, texture (percent sand, silt, clay, and coarse fragments as well as class), soil pH, cation exchange capacity, C stock, C concentration, N stock, N concentration, delta 13C, Delta 14C, and soil porosity in Excel and csv format.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2026

Model Data Archive Associated with Manuscript "Fire-altered Carbon Pools Create Disturbance Memory in Stream Dissolved Organic Carbon"

This data package supports the publication “Fire-altered Carbon Pools Create Disturbance Memory in Stream Dissolved Organic Carbon” by Li et al. (2026). The package contains processed model inputs, configuration files, restart files, simulation outputs, scripts, and visualization products used to evaluate post-fire dissolved organic carbon (DOC) dynamics in the Naches River Watershed, Washington, USA, following the 2021 Schneider Springs Fire. The modeling workflow couples ELM-BGC, the biogeochemistry-enabled Energy Exascale Earth System Model Land Model; ATS, the Advanced Terrestrial Simulator for integrated surface-subsurface hydrology; and PFLOTRAN, a reactive transport model for multicomponent aqueous geochemistry. Together, these models simulate how wildfire-induced changes in vegetation, litter, coarse woody debris, and soil organic matter influence DOC production, transport, and reaction from burned hillslopes to stream networks. The archive includes preprocessed meteorological, geospatial, hydrologic, and biogeochemical forcing data; ELM-BGC-derived DOC source terms; ATS mesh files; PFLOTRAN reactive-transport inputs; model configuration files; spin-up and transient restart files; watershed-scale diagnostic outputs; stream concentration time series; and figures or visualization files used to inspect and reproduce key results. File types include Hierarchical Data Format 5 (HDF5) files for gridded forcing and model-coupling data, model input and configuration files for ELM-BGC, ATS, and PFLOTRAN, restart and simulation-output files generated by the modeling workflow, tabular or time-series diagnostic outputs, scripts for post-processing and figure generation, and image or visualization products associated with the manuscript. Use of the package depends on the intended task. Re-running the simulations requires the relevant modeling software, including ELM-BGC, ATS, and PFLOTRAN as ATS's geochemical engine. Inspecting outputs and reproducing figures requires Python with scientific plotting libraries such as Matplotlib, and three-dimensional model outputs may be viewed with ParaView. Geographic information system files or maps may be inspected with ArcGIS Pro or comparable GIS software. The data package is intended to enable traceability, reuse, and partial reproduction of the coupled land-to-watershed hydro-biogeochemical modeling workflow used to test how wildfire disturbance affects terrestrial carbon pools and downstream DOC dynamics.

ATS↗

DOE OSTI2023

Molecular redox-active organic materials for electrochemical carbon capture

Abstract This prospective is a forward-looking outlook for researchers investigating electrochemical carbon capture utilizing molecular redox-active organic materials, with the following objectives: (1) identifying the essential components of an electrochemical carbon capture system, (2) introducing design principles for the system utilizing redox-active organic materials, encompassing their physicochemical properties and other critical factors, (3) presenting representative examples, and (4) promoting further experimental and theoretical studies on the application of redox-active organic materials for electrochemical carbon capture. Graphical abstract

Seo, Hyowon (ORCID:0000000295691902)↗

DOE OSTI2023

AmeriFlux FLUXNET-1F US-RGo Glenn County Organic Rice Farm

This is the AmeriFlux Management Project (AMP) created FLUXNET-1F version of the carbon flux data for the site US-RGo Glenn County Organic Rice Farm. This is the FLUXNET version of the carbon flux data for the site US-RGo Glenn County Organic Rice Farm produced by applying the standard ONEFlux (1F) software. Site Description - Organically farmed medium-grain brown rice field in Glenn County, California. Part of a five-year, ground-truthing field study under the DOE ARPA-E SMARTFARM project. Field check is approx. 7 ha in size (1,250 ft by 250 ft), part of a 75+ acre site in several checks with commercial rice over rice rotation on Tehama silt loam, management practices include winter cover crops and AWD.

Schuppenhauer, Michael R.↗

DOE OSTI2020

Investigating Secondary Aerosol Processes in the Amazon through Molecular-level Characterization of Semi-Volatile Organics

In areas where biogenic emissions are oxidized in the presence of anthropogenic pollutants, it has become increasingly apparent that secondary organic aerosol (SOA) formation from biogenic volatile organic compounds (BVOCs) is substantially enhanced. The Amazon forest is the dominant source of BVOCs globally, and the forest is rapidly being converted to urban and agricultural uses. We participated in a collaborative field study located in the Amazon region around Manaus, Brazil, in 2014 (Green Ocean Amazon; GoAmazon). This study was designed to comprehensively examine how BVOC emissions (specifically, the most highly emitted non-methane hydrocarbon, isoprene, and lesser studied sesquiterpenes) and their interaction with anthropogenic pollution (i.e., nitrogen oxides, sulfur dioxide, and black carbon) alter the atmosphere’s oxidative capacity, influence secondary aerosol formation, atmospheric composition and, ultimately, affect the earth’s radiation balance and climate. We provide the first hourly, in-situ measurement of 30 sesquiterpenes and 4 diterpenes, roughly estimating that sesquiterpene oxidation contributes to 10-14% of ozone reactive loss by terpenes and at least 0.4–5% (median 1 %) of total submicron OA mass. However, this is likely a low-end estimate, as evidence for additional unaccounted sesquiterpenes and their oxidation products clearly exists. We also provide new perspectives on sulfate, NO x , and particle acidity influencing isoprene-derived SOA, comparing the central Amazon environment with Southeastern U.S.A. summer, representing clean to polluted conditions, respectively. We find that summed concentrations of isoprene-derived SOA tracers correlated with particulate sulfate spanning three orders of magnitude, suggesting that 1 μg m -3 reduction in sulfate corresponds with at least ~0.5 μg m -3 reduction in isoprene-derived SOA. We also find that SOA mass derived from isoprene oxidation in the presence of NO x is primarily comprised of aerosol sulfate bound with isoprene oxidation products (i.e. organosulfates), ~97% in the Amazon and ~55% in the Southeastern U.S. We infer under natural conditions in high isoprene emission regions, preindustrial aerosol sulfate was almost exclusively isoprene-derived organosulfates, which are traditionally thought as representative of anthropogenic influence. We further report the first field observations showing that particle acidity impacts the distribution of isoprene oxidation tracers in the gas and particle phases, providing physicochemical insight into isoprene SOA formation chemistry. Coupled with other co-located measurements by the DOE Atmospheric Radiation Measurement (ARM) team and collaborating PIs at our measurement site (called T3), on the G1 aircraft, and at additional field sites (T0, T1, T2) this data set has been used to understand emission, oxidation, and particle formation pathways at the molecular level, to elucidate how these pathways change when influenced by anthropogenic sources, and to evaluate their importance for the atmospheric budget of aerosols and the earth’s radiation balance on regional scales. Recommendations: Further constraint of the role of sesquiterpenes on ozone (O 3 ) reactivity and SOA formation is limited by the availability of authentic standards and synthesized compounds of sesquiterpenes and their oxidation products. Future research efforts should focus on making such standards available via custom synthesis to allow for accurate quantification and focused oxidation experiments that will fully elucidate the chemistry of these compounds in the atmosphere. Further, reductions in aerosol sulfate (via SO 2 emissions control) continues to be one of the most effective methods to reduce SOA formation from isoprene, but the concerted role of ammonia (NH 3 ) gas emissions from (agricultural) industry and other sources requires more investigation to better understand the role of aerosol acidity in SOA formation and potential controls. As GoAmazon particles can be more acidic compared to areas with greater anthropogenic NH 3 emissions, this promotes relatively greater organosulfate (OS) formation from isoprene even in the presence of NO x . Because OS and inorganic sulfate differ in water uptake properties, this implies preindustrial aerosol sulfate (albeit less abundant) may have been less reflective than current earth system models assume. Further research should investigate the radiative impacts of organic vs inorganic sulfate in aerosols to improve model representation. Finally, future work (currently underway) should include constraint of the contributions of monoterpene (C 10 H 16 ) BVOCs and biomass burning VOCs as precursors to SOA formation in the region as well as their impacts on radiative forcing in the climate system.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2021

Understanding How Organizations Handle Cybersecurity

If there is anything we can learn from the media, it is the frequency and severity of cyber-attacks is increasing and there are not enough qualified people to combat the risk organizations are facing. Current estimates say there are 3.5 million available cybersecurity related jobs globally and there has been a 350% growth in cybersecurity jobs since 2013 (Group, 2020). The Idaho Cyber Research Project (ICRP) is focused on finding an implementing solution to the problems in the workforce development pipeline. Our team consists of Cohort 2 of the ICRP, we are tasked with solving issues faced by organizations hiring new cyber personnel. To provide solutions to these issues we focused our research on four components of workforce availability and competency: resume and transcript analysis, apprenticeships, cyber incident response plan development, and adversarial mindset training. From this research we have produced the following focus areas and subsequent steps for each component of workforce capability: transcript and knowledge skills abilities (KSA) focused analysis, cybersecurity apprenticeships programs, the value of an adversarial mindset, and a guide to setting up cyber incident response plans for underprepared organizations. These solutions can be further developed and implemented to reduce the gap in workforce demand and talent.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2024

Support of US Burning Plasma Organization (Final Technical Report)

The objective of the project described here was to support and increase the effectiveness of the US Burning Plasma Organization. This a national organization of scientists and engineers in magnetic fusion energy, established in 2005 at the request of the DOE Office of Fusion Energy Sciences, which serves to “Advance the scientific understanding of burning plasmas and ensure the greatest benefit from a burning plasma experiment by coordinating relevant U.S. fusion research with broad community participation.” It has grown to over 420 members from over 70 institutions, primarily across the US but with some associate members from other countries. The project was divided into two tasks. The first supported leadership activities in the USBPO by the Deputy Director, Dr. Amanda Hubbard. Responsibilities included chairing regular meetings of the USBPO Research Committee, communicating with the USBPO membership via emails and web seminars, forming and overseeing activities of Task Groups, and ensuring good communication about activities of the International Tokamak Physics Activity. A task group report on ‘Recommendations for ITER Experimental Operation, U.S. Team Formation and Participation’ was completed. Hubbard organized a series of highly popular web seminars for the burning plasma community, on a range of topics attracting a large number of participants from diverse institutions. Hubbard ended her term as Deputy Director in May, 2020. She subsequently received the Secretary of Energy’s Appreciation award for her service to USBPO. The second task supported the communications functions of the USBPO, led by Communications Coordinator, Mark London. Communications are critical for the effective operation of the USBPO, given it consists of members at many widely scattered institutions, and conducts its business almost entirely using remote tools. MIT has hosted and maintained the USBPO website, mailing lists, and discussion forums and provided member support, and videoconferencing support. MIT has continued this support following this grant, with funding incorporated into a broader Cooperative Agreement.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

DOE OSTI2024

Commentary: Duckweeds as model organisms for metabolic studies

Duckweeds have many practical applications, for example in human nutrition, as animal feed, in the production of bioplastics or vaccines, and phytoremediation (Acosta et al., 2021). Under most conditions, they reproduce asexually which provides genetically uniform material with predictable patterns of growth that make them ideal as sentinel organisms for phytotoxicity testing (Park et al., 2021). Asexual growth also results in high biomass production which makes duckweeds promising candidates as biofuel feedstocks (Acosta et al., 2021; Liang et al., 2023). In addition, duckweed species like Lemna minor and Spirodela polyrhiza are also reemerging as model organisms in plant biology as high-quality full genome assemblies and other genomic resources become available (Chang et al., 2016; Acosta et al., 2021). We argue that duckweed species are particularly of interest for the study of primary plant metabolism. Primary metabolism concerns the part of metabolism that is directly involved in the growth and development of plants, and which tends to be highly conserved among plant species. What makes duckweeds particularly attractive is that when grown on liquid media more precise control of physiological conditions can be attained relative to growth of plants in soil. Also, due to their relatively simple anatomical structure and asexual reproduction of fronds by budding, precise characterization of the physiological state under study is possible through one simple metric, i.e., the specific growth rate (rate of dry weight increase per existing dry weight), which can be incorporated relatively easily into metabolic models. This is not possible for land plants, such as Arabidopsis, because over the course of their life cycle, they go through multiple growth stages and phases of anatomical differentiation, which are much more complex to quantify. Furthermore, duckweeds can grow on organic substrates under heterotrophic or photomixotrophic conditions that facilitate isotope tracer studies. For example, in a previous study on duckweed by one of the authors, Lemna gibba (L). was grown on glucose with a position-specific 13 C-label that can be detected and resolved by Mass Spectrometry or Nuclear Magnetic Resonance spectrometry. Using this approach, the 13 C-label was traced into biomass compounds formed from glucose, particularly isoprenoid compounds. Some of the resulting labeling patterns were in apparent disagreement with predictions based on known metabolic pathways for the biosynthesis of isopentenyl pyrophosphate, the universal building block for isoprenoids, (Lichtenthaler et al., 1997). From this data it was deduced that isoprenoid compounds such as carotenoids and isoprenoid chains of phytol and plastoquinone, synthesized in the chloroplast, are produced via a previously unreported plant metabolic pathway, now known as the methylerythitol/deoxyxylulose-5-phosphate pathway (Lichtenthaler et al., 1997).

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2023

Organic Evaporation, Oxidation, and Hydrolysis Testing in Support of Hanford Sample-and-Send

The Hanford site has approximately 56 million gallons of radioactive mixed waste stored in 156 unretrieved underground storage tanks. The Hanford Waste Treatment and Immobilization Plant (WTP) is being built to treat and immobilize the tank waste. The baseline method for immobilization of Low Activity Waste (LAW) through the WTP is vitrification, but additional immobilization capacity is needed to supplement the initial LAW melters. An alternative cementitious waste form is being investigated for that future immobilization method. However, one impediment to a cementitious waste form is the presence of Land Disposal Restricted (LDR) organic chemicals in tank waste, which are regulated on a concentration-based standard in the final waste form. Hence, if the quantity of organics in LAW is high enough, they must be destroyed or removed to make a waste form compatible with disposal in a mixed low level waste landfill. This work evaluates potential avenues for treatment of LDR organics to eliminate the impediment and permit possible use of a cementitious waste form.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

DOE OSTI2025

Development of emerging model microorganisms: Megasphaera elsdenii for biomass and organic acid upgrading to fuels and chemicals

The metabolic diversity of microorganisms in nature represents a largely untapped source of valuable compounds that are difficult or impossible to produce in the limited number of available model systems. Efforts to produce longer-chain alcohols, such as hexanol, in organisms like Escherichia coli have met with limited success; production of C6 and larger products remains low, highlighting the challenges of extending chain elongation pathways beyond a single cycle. Megasphaera elsdenii naturally condenses acetyl-CoA to efficiently generate C4–C8 organic acids, making it a promising candidate for producing fuels and chemicals from lactate and plant-derived carbohydrates. This high native flux through the chain elongation pathway offers the potential for higher yields and titers of medium-chain products, such as hexanol, compared to conventional hosts. Recent advances—most notably the development of a transformation method for M. elsdenii—have further opened the organism to detailed physiological studies and bioengineering. While full development of M. elsdenii as a hexanol-producing platform was not achieved, significant progress was made in understanding its metabolism and building foundational genetic tools for future engineering.

60 APPLIED LIFE SCIENCES↗

DOE OSTI2026

Cyber-Informed Engineering (CIE) for Standard Development Organizations [Slides]

SDO stands for Standard Development Organization. For our purposes, an SDO is an organization whose primary activities are developing, coordinating, promulgating, revising, amending, issuing, or publishing standards. These standards are crucial for interoperability, safety, quality, and innovation across various industries and technologies. In the context of our discussion, when we refer to an "SDO," we are specifically targeting these organizations as our primary audience. The purpose is to provide an overview of CIE and how SDOs can apply its concepts in standards development and updates.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2024

Dataset for "Enrichment of phosphates, lead, and mixed soil-organic particles in INPs at the Southern Great Plains site"

Ice nucleating particles (INPs) are rare particles that initiate primary ice formation, a critical step required for subsequent important cloud microphysical processes that ultimately govern cloud phase and cloud radiative properties. Laboratory studies have found that organic-rich dusts, such as those found in soils, are more efficient INPs compared to mineral dust. However, the atmospheric relevance of these organic-rich dusts are not well understood, particularly in regions with significant agricultural activity. The Agricultural Ice nuclei at the Southern Great Plains field campaign (AGINSGP) was conducted in rural Oklahoma to investigate how soil dusts contribute to INP populations in the Great Plains. We present chemical characterization of ambient and ice crystal residual particles from a single day of sampling using single particle mass spectrometry (SPMS) and scanning microscopy. Ambient particle concentrations were primarily carbonaceous or secondary aerosol, while dust particles were enhanced in the residual particles. Dust particles measured during residual sampling contained elevated signals for phosphate ($^{63}$PO$_2^-$ and $^{79}$PO$_3^-$) and lead ($^{208}$Pb$_2^+$). Nitrate was slightly depleted relative to ambient dust, and strong sulfate signals were not seen in the residual particles measured by the miniSPLAT. The residual and ambient particles measured by the miniSPLAT were approximately the same size, though this may be a reflection of the SPMS size-dependent transmission efficiency and not that of physical truth. This study shows that organic-rich soils may be important contributors to the ambient INP population in agricultural regions.

Cornwell, Gavin C↗

DOE OSTI2020

Rapid growth of anthropogenic organic nanoparticles greatly alters cloud lifecycle in the Amazon rainforest

Atmospheric nanoparticles can significantly influence Earth’s climate if they grow to sizes large enough to nucleate cloud droplets. While the contribution of extremely low volatility vapors to nanoparticle growth has been discussed extensively, the role of semivolatile organics has been largely overlooked. Here we examine the growth and impacts of air pollution nanoparticles from an isolated metropolis amidst the Amazon rainforest. Although extremely low volatility organics are necessary for the initial growth of nanoparticles, model analysis suggests that dynamic gas-particle partitioning of semivolatile oxidation products of anthropogenic and natural hydrocarbons is predominantly responsible for the observed rapid growth to 50 nm. Furthermore, cloud-resolving simulations demonstrate that the grown particles appreciably modify shallow cloud droplet size distribution, suppress precipitation, and enhance the transition to deep clouds. With condensable semivolatile organics typically formed in greater proportion, similar nanoparticle growth and impacts on clouds could likely occur in heavily urbanized forested regions globally.

Zaveri, Rahul A↗

DOE OSTI2020

DATASET: Rapid growth of anthropogenic organic nanoparticles greatly alters cloud lifecycle in the Amazon rainforest

Zaveri, Rahul A↗

DOE OSTI2023

3′ RNA-seq is superior to standard RNA-seq in cases of sparse data but inferior at identifying toxicity pathways in a model organism

The application of RNA-sequencing has led to numerous breakthroughs related to investigating gene expression levels in complex biological systems. Among these are knowledge of how organisms, such as the vertebrate model organism zebrafish (Danio rerio), respond to toxicant exposure. Recently, the development of 3' RNA-seq has allowed for the determination of gene expression levels with a fraction of the required reads compared to standard RNA-seq. While 3' RNA-seq has many advantages, a comparison to standard RNA-seq has not been performed in the context of whole organism toxicity and sparse data. Here, we examined samples from zebrafish exposed to perfluorobutane sulfonamide (FBSA) with either 3' or standard RNA-seq to determine the advantages of each with regards to the identification of functionally enriched pathways. We found that 3' and standard RNA-seq showed specific advantages when focusing on annotated or unannotated regions of the genome. We also found that standard RNA-seq identified more differentially expressed genes (DEGs), but that this advantage disappeared under conditions of sparse data. We also found that standard RNA-seq had a significant advantage in identifying functionally enriched pathways via analysis of DEG lists but that this advantage was minimal when identifying pathways via gene set enrichment analysis of all genes. These results show that each approach has experimental conditions where they may be advantageous. Our observations can help guide others in the choice of 3' RNA-seq vs standard RNA sequencing to query gene expression levels in a range of biological systems.

3’ RNA-seq↗

DOE OSTI2023

Non-reactive facet specific adsorption as a route to remediation of chlorinated organic contaminants

The present work quantifies metal-contaminant interactions between palladium substrates and three salient chlorinated organic contaminants, namely trichloroethylene 1,3,5-trichlorobenzene (TCB), and 3,3′,4,4′-tetrachlorobiphenyl (PCB77). Given that Pd is one of the conventional catalytically active materials known for contaminant removal, maximizing catalytic efficiency through optimal adsorption dynamics reduces the cost of remediation of contaminants that are persistent water pollutants chronically affecting public health. Adsorption efficiency analyses from all-atom molecular dynamics (MD) simulations advance the understanding of reaction mechanisms available from density functional theory (DFT) calculations to an extractable feature scale that can fit the parametric design of supported metal catalytic systems and feed into high throughput catalyst selection. Data on residence time, site-specific adsorption, binding energies, packing geometries, orientation profiles, and the effect of adsorbate size show the anomalous behaviour of organic contaminant adsorption on the undercoordinated {110} surface as compared to the {111} and {100} surfaces. The intermolecular interaction within contaminants from molecular dynamics simulation exhibits refreshing results than ordinary single molecule density functional theory calculation. Since complete adsorption and dechlorination is an essential step for chlorinated organic contaminant remediation pathways, the presented profiles provide essential information for designing efficient remediation systems through facet-controlled palladium nanoparticles.

Guo, Hao↗