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NASA NTRS2023

Modeling Global Indices for Estimating Non-Photosynthetic Vegetation Cover

Non-photosynthetic vegetation (NPV) includes plant litter, senesced leaves, and crop residues. NPV plays an essential role in terrestrial ecosystem processes, and is an important indicator of drought severity, ecosystem disturbance, agricultural resilience, and wildfire danger. Current moderate spatial resolution multispectral satellite systems (e.g., Landsat and Sentinel-2) have only a single band in the 2000–2500 nm shortwave infrared “SWIR2” range where non-pigment biochemical constituents of NPV, including cellulose and lignin, have important spectral absorption features. Thus, these current systems have suboptimal capabilities for characterizing NPV cover. This research used simulated spectral mixtures accounting for variability among NPV and soils to evaluate globally-appropriate hyperspectral and multispectral indices for estimation of fractional NPV cover. The Continuum Interpolated NPV Depth Index (CINDI), a weighted ratio index measuring lignocellulose absorption near 2100 nm, was found to produce the lowest error in estimating NPV cover. CINDI was less sensitive to variability in soil spectra and green vegetation cover than competing indices. While CINDI was sensitive to the relative water content of soil and NPV, this sensitivity allowed for correcting error in estimated NPV cover as water content increased. CINDI bands were less capable than Dual Absorption NPV Index (DANI) bands for maintaining continuity with the heritage Landsat SWIR2 band, but combining multiple CINDI bands demonstrated adequate continuity. Three SWIR2 bands with band centers at 2038, 2108, and 2211 nm can provide superior capabilities for future moderate resolution multispectral/superspectral systems targeting NPV monitoring, including the next generation Landsat mission (Landsat Next). These bands and the associated CINDI index provide potential for global NPV monitoring using a constellation of future superspectral sensors and imaging spectrometers, with applications including improving soil management, preventing land degradation, evaluating impacts of drought, mapping ecosystem disturbance, and assessing wildfire danger.

Index optimization↗

NASA NTRS2017

Representing Water Scarcity in Future Agricultural Assessments

Globally, irrigated agriculture is both essential for food production and the largest user of water. A major challenge for hydrologic and agricultural research communities is assessing the sustainability of irrigated croplands under climate variability and change. Simulations of irrigated croplands generally lack key interactions between water supply, water distribution, and agricultural water demand. In this article, we explore the critical interface between water resources and agriculture by motivating, developing, and illustrating the application of an integrated modeling framework to advance simulations of irrigated croplands. We motivate the framework by examining historical dynamics of irrigation water withdrawals in the United States and quantitatively reviewing previous modeling studies of irrigated croplands with a focus on representations of water supply, agricultural water demand, and impacts on crop yields when water demand exceeds water supply. We then describe the integrated modeling framework for simulating irrigated croplands, which links trends and scenarios with water supply, water allocation, and agricultural water demand. Finally, we provide examples of efforts that leverage the framework to improve simulations of irrigated croplands as well as identify opportunities for interventions that increase agricultural productivity, resiliency, and sustainability.

Irrigated Agriculture; Crop Model; Hydrologic Mode↗

DOE OSTI2024

Trade can buffer climate-induced risks and volatilities in crop supply

Climate change is intensifying the frequency and severity of extreme events, posing challenges to food security. Corn, a staple crop for billions, is particularly vulnerable to heat stress, a primary driver of yield variability. While many studies have examined climate impact on average corn yields, little attention has been given to the climate impact on production volatility. This study investigates the future volatility and risks associated with global corn supply under climate change, evaluating the potential benefits of two key adaptation strategies: irrigation and market integration. A statistical model is employed to estimate corn yield response to heat stress and utilize NEX-GDDP-CMIP6 climate data to project future production volatility and risks of substantial yield losses. Three metrics are introduced to quantify these risks: Sigma (σ), the standard deviation of year-on-year yield change, which reflects overall yield volatility; Rho (ρ), the risk of substantial loss, defined as the probability of yield falling below a critical threshold; and Beta (β), a relative risk coefficient that captures the volatility of a region's corn production compared to the globally integrated market. The analysis reveals a concerning trend of increasing year-on-year yield volatility (σ) across most regions and climate models. This volatility increase is significant for key corn-producing regions like Brazil and the United States. While irrigated corn production exhibits a smaller rise in volatility, suggesting irrigation as a potential buffer against climate change impacts, it is not a sustainable option as it can cause groundwater depletion. On the other hand, global market integration reduces overall volatility and market risks significantly with less sustainability concerns. Furthermore, these findings highlight the importance of a multidimensional approach to adaptation in the food sector. While irrigation can benefit individual farmers, promoting global market integration offers a broader solution for fostering resilience and sustainability across the entire food system.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗

DOE OSTI2025

Natural variation in growth and yield to waterlogging across climate-diverse pennycress accessions

Many winter annual crops, such as pennycress ( Thlaspi arvense L.), are subjected to heavy precipitation events during their growing season. Therefore, it is essential to identify pennycress accessions with natural variation in flooding resilience. We used climate modeling data to assess spring soil moisture levels in the geographic origins of 471 natural pennycress accessions. We selected 34 accessions with variation in predicted soil moisture and tested survivability under prolonged waterlogging at the rosette stage. It took seven weeks for the first accessions to die, indicating that pennycress is hardy to prolonged waterlogging at the vegetative stage. Furthermore, we chose ‘susceptible’ and ‘tolerant’ accessions to waterlog for one week at the reproductive stage, the growth stage aligned with spring rainfall. Six accessions had significantly reduced seed weight at maturity and two had minimal impacts on growth and seed yield after waterlogging and can be further explored for adaptive traits.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2026

Plant Design for a Developing Bioeconomy Workshop Report: Frontier Science for the Bioeconomy Workshop Series

Recent advances in fundamental plant biology research, synthetic biology, and artificial intelligence (AI) are unlocking powerful new capabilities in plant biodesign, offering unprecedented potential to reimagine plants as programmable platforms for resource-efficient production of bioenergy, biomaterials, chemicals, and more. The U.S. Department of Energy (DOE) convened the Plant Design for a Developing Bioeconomy virtual workshop on March 12 through 14, 2025, to bring together leaders across plant science, engineering, and computation to assess the current landscape and define a bold vision for future research. Discussions during the workshop built upon findings included in DOE’s Biological and Environmental Research (BER) workshop report Overcoming Barriers in Plant Transformation: A Focus on Bioenergy Crops (U.S. DOE 2024; genomicscience. energy.gov/plant-transformation). Participants identified critical knowledge gaps, technical barriers, and emerging opportunities in the design and engineering of plant systems to support a robust, resilient domestic bioeconomy aligned with DOE’s mission.

09 BIOMASS FUELS↗

DOE OSTI2022

Transcriptome Mining Provides Insights into Cell Wall Metabolism and Fiber Lignification in Agave tequilana Weber

Resilience of growing in arid and semiarid regions and a high capacity of accumulating sugar-rich biomass with low lignin percentages have placed Agave species as an emerging bioenergy crop. Although transcriptome sequencing of fiber-producing agave species has been explored, molecular bases that control wall cell biogenesis and metabolism in agave species are still poorly understood. Here, through RNAseq data mining, we reconstructed the cellulose biosynthesis pathway and the phenylpropanoid route producing lignin monomers in A. tequilana, and evaluated their expression patterns in silico and experimentally. Most of the orthologs retrieved showed differential expression levels when they were analyzed in different tissues with contrasting cellulose and lignin accumulation. Phylogenetic and structural motif analyses of putative CESA and CAD proteins allowed to identify those potentially involved with secondary cell wall formation. RT-qPCR assays revealed enhanced expression levels of AtqCAD5 and AtqCESA7 in parenchyma cells associated with extraxylary fibers, suggesting a mechanism of formation of sclerenchyma fibers in Agave similar to that reported for xylem cells in model eudicots. Overall, our results provide a framework for understanding molecular bases underlying cell wall biogenesis in Agave species studying mechanisms involving in leaf fiber development in monocots.

59 BASIC BIOLOGICAL SCIENCES↗

NASA NTRS2023

Uncovering Unique Molecular Adaptations in the Arabidopsis Thaliana Cvi-0 Ecotype

This research proposal aims to investigate the unique molecular adaptations exhibited by Arabidopsis Thaliana, specifically focusing on the Cape Verde Islands (Cvi-0) ecotype, in response to microgravity conditions. The study examines data from NASA’s Open Science Data Repository and applies a multifaceted RNAseq analysis pipeline using tools in the UseGalaxy.org open platform. Through transcriptomic analysis, differential gene expression patterns were identified in Cvi-0, revealing an absence of heat shock protein (HSP) upregulation and an upregulation of Rubisco Activase (RCA) and chloroplast-related pathways. To test the hypothesis that these adaptations may contribute to Cvi-0’s increased adaptability in microgravity, a three-fold experimental design is proposed. Four experimental groups will be cultivated under simulated microgravity and ground control conditions, including Cvi-0, Col-0, and genetically modified Col-0 with silenced HSP genes, and genetically modified Col-0 with upregulated RCA gene. Growth parameters will be measured to assess plant resilience, and RNA sequencing will provide transcriptomic data for pathway analysis. Anticipated outcomes include improved markers of plant health (mass, growth, etc.) of Cvi-0 in simulated microgravity and enhanced resilience in genetically altered Col-0 variants, providing insights into potential mechanisms of adaptation. This research would bear significance for space agriculture, nutrition for extended space missions, and sustainable terrestrial crop enhancement. Moreover, the insights gained could reshape crop engineering on Earth, enhancing robustness to climate induced stresses and bolstering global food security. The proposal’s trajectory blends scientific curiosity with practical applicability, forging a path towards sustainable food production and improving human exploration beyond our planet.

GL4HS↗

DOE OSTI2024

The Potential for Solar Farms to Protect Crops Against Extreme Weather Events

With climate change posing serious risks to crop production, solar PV has the potential to protect agriculture against extreme climate events. This concept has significant implications for agrivoltaics, but large gaps exist in the physical understanding of the climate resiliency that solar PV can bring to agriculture, and current studies focus on one-off designs ideal to protect against specific climate events. This study investigates key climate events that threaten agriculture throughout the year, including winter, spring, and summer climate threats.

Williams, Henry J↗

NASA NTRS2002

Effects of Interannual Climate Variability on Water Availability and Productivity in Capoeira and Crops Under Traditional and Alternative Shifting Cultivation

Regenerating forests play an important role in long-term carbon sequestration and sustainable landuse as they act as potentially important carbon and nutrient sinks during the shifting agriculture fallow period. The long-term functioning of capoeira. is increasingly threatened by a shortening fallow period during shifting cultivation due to demographic pressures and associated increased vulnerability to severe climatic events. Declining productivity and functioning of fallow forests of shifting cultivation combined with progressive loss of nutrients by successive burning and cropping activities has resulted in declining agricultural productivity. In addition to the effects of intense land use practices, droughts associated with El Nino events are becoming more frequent and severe in moist tropical forests and negative effects on capoeira productivity could be considerable. In Igarape-Acu (near Belem, Para), we hypothesize that experimental alternative landuse/clearing practices (mulching and fallow vegetation improvement by planting with fast-growing leguminous tree species) may make capoeira and agriculture more resilient to the effects of agricultural pressures and drought through (1) increased biomass, soil organic matter and associated increase in soil water storage, and nutrient retention and (2) greater rooting depth of trees planted for fallow improvement. This experimental practice (moto mechanized chop-and-mulch with fallow improvement) has resulted increased soil moisture during the cropping phase, reduced loss of nutrients and organic matter, and higher rates of secondary-forest biomass accumulation. We present preliminary data on water relations during the dry season of 2001 in capoeira and crops for both traditional slash-and-burn and alternative chop-and-mulch practices. These data will be used to test IKONOS data for the detection of moisture status differences. The principal goal of the research is to determine the extent to which capoeira and agricultural fields are susceptible to extreme climate events (drought) under contrasting landuse/clearing practices.

Guild, Liane S.↗

DOE OSTI2022

Radial–axial transport coordination enhances sugar translocation in the phloem vasculature of plants

Abstract Understanding mass transport of photosynthates in the phloem of plants is necessary for predicting plant carbon allocation, productivity, and responses to water and thermal stress. Several hypotheses about optimization of phloem structure and function and limitations of phloem transport under drought have been proposed and tested with models and anatomical data. However, the true impact of radial water exchange of phloem conduits with their surroundings on mass transport of photosynthates has not been addressed. Here, the physics of the Munch mechanism of sugar transport is re-evaluated to include local variations in viscosity resulting from the radial water exchange in two dimensions (axial and radial) using transient flow simulations. Model results show an increase in radial water exchange due to a decrease in sap viscosity leading to increased sugar front speed and axial mass transport across a wide range of phloem conduit lengths. This increase is around 40% for active loaders (e.g. crops) and around 20% for passive loaders (e.g. trees). Thus, sugar transport operates more efficiently than predicted by previous models that ignore these two effects. A faster front speed leads to higher phloem resiliency under drought because more sugar can be transported with a smaller pressure gradient.

58 GEOSCIENCES↗

DOE OSTI2025

Gene editing to enhance biotic stress tolerance in sugarcane

Sugarcane (Saccharum spp.) contributes approximately 80% of global sugar production and 40% of biofuel while serving as a promising feedstock for bioproducts (Brant et al., 2025). However, productivity faces mounting challenges from biotic threats including fungal, viral and bacterial diseases (Rott, 2018). Traditional breeding approaches are severely constrained by sugarcane’s complex polyploid genome containing 10–12 copies of "hom(oe)ologous genes within an approximately 10 Gb genome (Healey et al., 2024), extending breeding cycles to 12–15 years. Genome editing has revolutionized crop improvement by enabling targeted modifications without necessarily introducing foreign DNA, potentially circumventing regulatory hurdles while accelerating variety development (Li et al., 2022a). For sugarcane, these technologies offer unprecedented opportunities to enhance biotic stress resilience while improving yield and quality. This article examines current progress and prospects for developing biotic stress-tolerant sugarcane through gene editing, emphasizing technical advances, promising gene targets, and strategic approaches for trait stacking.

CRISPR-Cas systems↗

NASA NTRS2020

Riley County Water Resources Project Summary - Comparing Runoff Curve Calculation Methods to Inform Local Resiliency Initiatives in Riley County, Kansas

Riley County, Kansas, has observed increased levels of flooding, potentially due to changes in land use/land cover (LULC) and seasonal vegetation variation. This study contrasts two methods of generating runoff curve numbers (CN) from 2006-2020. (1) The traditional Soil Conservation Service CN calculation method uses a look-up table and tracked LULC to determine runoff changes. These tables allow for land cover-specific CN and account for various farming techniques but lack flexibility in calculations for various seasons or plant health. (2) A dynamic method employs normalized difference vegetation index (NDVI) compiled over the rainy season each year to calculate CN using seasonal vegetation. This method allows for a more precise analysis of runoff variability within and between rainy seasons because it can be updated with greater temporal detail and captures higher spatial resolutions by using NDVI as a proxy for LULC. This study further uses inputs from the United States Geological Survey (USGS) National Land Cover Database (NLCD), the United States Department of Agriculture (USDA) Cropland Data Layer, and Landsat imagery to create more precise LULC raster datasets including both urban cover and crop-specific land use and curve number maps of the area. Results can guide decision makers in the City of Manhattan, Riley County Department of Planning and Development, Riley County Conservation District, the Kansas Forest Service, and the Kansas Department of Health and Environment toward informed decisions on resiliency strategies to address future flooding.

DEVELOP Project Summary↗

DOE OSTI2025

Agrivoltaics as a climate-smart and resilient solution for midday depression in photosynthesis in dryland regions

Global projections of increased temperature and aridity have exacerbated concerns over our potential to achieve Sustainable Development Goals associated with food, energy, and water futures. We evaluated the implications of an agrivoltaics approach—combining agriculture and solar photovoltaics—on the microclimate growing conditions of crop species. While agrivoltaics is being explored globally for its potential to reduce soil evaporation rates and impact yield, empirical research on the mechanistic drivers of the potential for agrivoltaics is needed. Agrivoltaics mitigated the midday depression in photosynthesis experienced by crops grown in hot and arid environments, which led to reduced water stress, equal or greater daily carbon assimilation, and equal or greater yield across all crops. Our findings indicate agrivoltaics could be a climate-smart agricultural approach, and the diurnal resolution of our data points towards mechanisms for optimizing agrivoltaic designs to align with Sustainable Development Goals for food and energy production and water savings.

14 SOLAR ENERGY↗

DOE OSTI2021

The tepary bean genome provides insight into evolution and domestication under heat stress

Tepary bean (Phaseolus acutifolis A. Gray), native to the Sonoran Desert, is highly adapted to heat and drought. It is a sister species of common bean (Phaseolus vulgaris L.), the most important legume protein source for direct human consumption, and whose production is threatened by climate change. Here, we report on the tepary genome including exploration of possible mechanisms for resilience to moderate heat stress and a reduced disease resistance gene repertoire, consistent with adaptation to arid and hot environments. Extensive collinearity and shared gene content among these Phaseolus species will facilitate engineering climate adaptation in common bean, a key food security crop, and accelerate tepary bean improvement.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2024

Elevated Temperature Effects on Protein Turnover Dynamics in Arabidopsis thaliana Seedlings Revealed by 15 N-Stable Isotope Labeling and ProteinTurnover Algorithm

Global warming poses a threat to plant survival, impacting growth and agricultural yield. Protein turnover, a critical regulatory mechanism balancing protein synthesis and degradation, is crucial for the cellular response to environmental changes. We investigated the effects of elevated temperature on proteome dynamics in Arabidopsis thaliana seedlings using 15 N-stable isotope labeling and ultra-performance liquid chromatography-high resolution mass spectrometry, coupled with the ProteinTurnover algorithm. Analyzing different cellular fractions from plants grown under 22 °C and 30 °C growth conditions, we found significant changes in the turnover rates of 571 proteins, with a median 1.4-fold increase, indicating accelerated protein dynamics under thermal stress. Notably, soluble root fraction proteins exhibited smaller turnover changes, suggesting tissue-specific adaptations. Significant turnover alterations occurred with redox signaling, stress response, protein folding, secondary metabolism, and photorespiration, indicating complex responses enhancing plant thermal resilience. Conversely, proteins involved in carbohydrate metabolism and mitochondrial ATP synthesis showed minimal changes, highlighting their stability. This analysis highlights the intricate balance between proteome stability and adaptability, advancing our understanding of plant responses to heat stress and supporting the development of improved thermotolerant crops.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2021

The future evolution of energy-water-agriculture interconnectivity across the US

Abstract Energy, water, and agricultural resources across the globe are highly interconnected. This interconnectivity poses science challenges, such as understanding and modeling interconnections, as well as practical challenges, such as efficiently managing interdependent resource systems. Using the US as an example, this study seeks to define and explore how interconnectivity evolves over space and time under a range of influences. Concepts from graph theory and input–output analysis are used to visualize and quantify key intersectoral linkages using two new indices: the ‘Interconnectivity Magnitude Index’ and the ‘Interconnectivity Spread Index’. Using the Global Change Analysis Model (GCAM-USA), we explore the future evolution of these indices under four scenarios that explore a range of forces, including socioeconomic and technological change. Analysis is conducted at both national and state level spatial scales from 2015 to 2100. Results from a Reference scenario show that resource interconnectivity in the US is primarily driven by water use amongst different sectors, while changes in interconnectivity are driven by a decoupling of the water and electricity systems, as power plants become more water-efficient over time. High population and GDP growth results in relatively more decoupling of sectors, as a larger share of water and energy is used outside of interconnected sector feedback loops. Lower socioeconomic growth results in the opposite trend. Transitioning to a low-carbon economy increases interconnectivity because of the expansion of purpose-grown biomass, which strengthens the connections between water and energy. The results highlight that while some regions may experience similar sectoral stress projections, the composition of the intersectoral connectivity leading to that sectoral stress may call for distinctly different multi-sector co-management strategies. The methodology we introduce here can be applied in diverse geographical and sectoral contexts to enable better understanding of where, when, and how coupling or decoupling between sectors could evolve and be better managed.

Khan, Zarrar (ORCID:0000000281478553)↗

NASA NTRSDate not supplied

Relating Land Cover Change to Runoff Distribution Using NASA Earth Observations in Riley County, Kansas

Riley County, Kansas, has observed increased levels of flooding, potentially due to changes in land use/land cover (LULC) and seasonal vegetation variation. This study contrasts two methods of generating runoff curve numbers (CN) from 2006-2020. (1) The traditional Soil Conservation Service CN calculation method uses a look-up table and tracked LULC to determine runoff changes. These tables allow for CN values specific to various land and crop cover types and account for various farming best practices but lack flexibility in calculations for various seasons or plant health. (2) A dynamic method employs normalized difference vegetation index (NDVI) compiled over the rainy season each year to calculate CN using seasonal vegetation. This method allows for a more precise analysis of runoff variability within and between rainy seasons because it can be updated with greater temporal detail and it captures higher spatial resolutions by using NDVI as a proxy for LULC. This study further uses inputs from the United States Geologic Survey (USGS) National Land Cover Database (NLCD), the United States Department of Agriculture (USDA) Cropland Data Layer, and Landsat imagery to create more precise LULC raster datasets including both urban cover and crop-specific land use and curve number maps of the area. Results can guide decision makers in the City of Manhattan, Riley County Department of Planning and Development, Riley County Conservation District, the Kansas Forest Service, and the Kansas Department of Health and Environment toward informed decisions on resiliency strategies to address future flooding.

Ella Griffith↗

DOE OSTI2025

A stable 15-member bacterial SynCom promotes Brachypodium growth under drought stress

Introduction: Rhizosphere microbiomes are known to drive soil nutrient cycling and influence plant fitness during adverse environmental conditions. Field-derived robust Synthetic Communities (SynComs) of microbes mimicking the diversity of rhizosphere microbiomes can greatly advance a deeper understanding of such processes. However, assembling stable, genetically tractable, reproducible, and scalable SynComs remains challenging. Methods: Here, we present a systematic approach using a combination of network analysis and cultivation-guided methods to construct a 15-member SynCom from the rhizobiome of Brachypodium distachyon. This SynCom incorporates diverse strains from five bacterial phyla. Genomic analysis of the individual strains was performed to reveal encoded plant growth-promoting traits, including genes for the synthesis of osmoprotectants (trehalose and betaine) and Na+/K+ transporters, and some predicted traits were validated by laboratory phenotypic assays. Results: The SynCom demonstrates strong stability both in vitro and in planta. Most strains encoded multiple plant growth-promoting functions, and several of these were confirmed experimentally. The presence of osmoprotectant and ion transporter genes likely contributed to the observed resilience of Brachypodium to drought stress, where plants amended with the SynCom recovered better than those without. We further observed preferential colonization of SynCom strains around root tips under stress, likely due to active interactions between plant root metabolites and bacteria. Discussion: Our results demonstrate that trait-informed construction of synthetic communities can yield stable, functionally diverse consortia that enhance plant resilience under drought. Preferential colonization near root tips points to active, localized plant-microbe signaling as a component of stress-responsive recruitment. This stable SynCom provides a scalable platform for probing mechanisms of plant-microbe interaction and for developing microbiome-based strategies to improve soil and crop performance in variable environments.

Yadav, Archana↗