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Derivation and Testing of Consumptive Water Use Fraction for Specialty Crops

The Crop Consumptive Use Fraction (CCUF) expresses beneficial water use in the form of seasonal evapotranspiration of applied water (ETAW), relative to total irrigation volume. The metric is an indicator of the efficiency of agricultural water use and is a recommended component for preparation of agricultural water management plans in California. An FAO-56 based web application has been developed to facilitate retrospective evaluation of ETAW, and hence CCUF, at field level. The current application is optimized for prevailing climate in four of the state’s main growing regions: San Joaquin Valley, Sacramento Valley, Central Coast, and North Coast. User inputs include crop type, soil texture, irrigation method, daily irrigation volume, daily rainfall, and seasonal start/stop dates to define the analysis period. Time series of fractional green canopy cover (Fc), based on Landsat and Sentinel-2 Earth-resource satellite observations, are imported from NASA’s Satellite Irrigation Management Support (SIMS) system. Grass reference evapotranspiration (ETo) time series are accessed from Spatial CIMIS (California Irrigation Management Information System). Daily crop height (h) is estimated as a simple function of typical maximum height for the given crop type (from FAO-56) and Fc. A vegetation density coefficient (Kd) is derived from Fc and h. Stomatal control factors during mid-and late-season are applied to tree and vine crops. Typical values for minimum daily relative humidity and mean daily windspeed, derived from historical CIMIS weather data, are used to correct for regional deviations from standard climate (defined as RHmin=45%, windspeed =2m/s). The resulting daily basal crop coefficient (Kcb) represents the ET of a well-watered crop with minimal soil evaporation, relative to ETo. A soil water balance sub-model for the top 0.1 m is used to calculate daily evaporation coefficients (Ke). A second sub-model applies to the root zone to calculate crop water stress coefficients (Ks) and effective precipitation (Pe), which is the fraction of rainfall that is available for crop use. Those coefficients are combined with Kcb and ETo to calculate daily ETc. ETAW is then derived as cumulative ETc less cumulative Pe. For verification purposes, sensor installations were used to measure seasonal ETc in commercial fields for several annual and perennial specialty crops by soil water balance and energy balance methods. Model estimates of seasonal ETc show mean absolute error of <10% compared to the ground measurements.

Derivation↗

DOE OSTI2017

20th century changes in carbon isotopes and water-use efficiency: tree-ring-based evaluation of the CLM4.5 and LPX-Bern models

Measurements of the stable carbon isotope ratio ( δ 13 C) on annual tree rings offer new opportunities to evaluate mechanisms of variations in photosynthesis and stomatal conductance under changing CO 2 and climate conditions, especially in conjunction with process-based biogeochemical model simulations. The isotopic discrimination is indicative of the ratio between the CO 2 partial pressure in the intercellular cavities and the atmosphere ( c i / c a ) and of the ratio of assimilation to stomatal conductance, termed intrinsic water-use efficiency (iWUE). We performed isotope-enabled simulations over the industrial period with the land biosphere module (CLM4.5) of the Community Earth System Model and the Land Surface Processes and Exchanges (LPX-Bern) dynamic global vegetation model. Results for C3 tree species show good agreement with a global compilation of δ 13 C measurements on leaves, though modeled 13 C discrimination by C3 trees is smaller in arid regions than measured. A compilation of 76 tree-ring records, mainly from Europe, boreal Asia, and western North America, suggests on average small 20th century changes in isotopic discrimination and in c i / c a and an increase in iWUE of about 27% since 1900. LPX-Bern results match these century-scale reconstructions, supporting the idea that the physiology of stomata has evolved to optimize trade-offs between carbon gain by assimilation and water loss by transpiration. In contrast, CLM4.5 simulates an increase in discrimination and in turn a change in iWUE that is almost twice as large as that revealed by the tree-ring data. Factorial simulations show that these changes are mainly in response to rising atmospheric CO 2 . The results suggest that the downregulation of c i / c a and of photosynthesis by nitrogen limitation is possibly too strong in the standard setup of CLM4.5 or that there may be problems associated with the implementation of conductance, assimilation, and related adjustment processes on long-term environmental changes.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2018

A Polyamide Inhibits Replication of Vesicular Stomatitis Virus by Targeting RNA in the Nucleocapsid

Polyamides have been shown to bind double-stranded DNA by complementing the curvature of the minor groove and forming various hydrogen bonds with DNA. Several polyamide molecules have been found to have potent antiviral activities against papillomavirus, a double-stranded DNA virus. By analogy, we reason that polyamides may also interact with the structured RNA bound in the nucleocapsid of a negative-strand RNA virus. For this work, Vesicular stomatitis virus (VSV) was selected as a prototype virus to test this possibility since its genomic RNA encapsidated in the nucleocapsid forms a structure resembling one strand of an A-form RNA duplex. One polyamide molecule, UMSL1011, was found to inhibit infection of VSV. To confirm that the polyamide targeted the nucleocapsid, a nucleocapsid-like particle (NLP) was incubated with UMSL1011. The encapsidated RNA in the polyamide-treated NLP was protected from thermo-release and digestion by RNase A. UMSL1011 also inhibits viral RNA synthesis in the intracellular activity assay for the viral RNA-dependent RNA polymerase. The crystal structure revealed that UMSL1011 binds the structured RNA in the nucleocapsid. The conclusion of our studies is that the RNA in the nucleocapsid is a viable antiviral target of polyamides. Since the RNA structure in the nucleocapsid is similar in all negative-strand RNA viruses, polyamides may be optimized to target the specific RNA genome of a negative-strand RNA virus, such as respiratory syncytial virus and Ebola virus.

59 BASIC BIOLOGICAL SCIENCES↗

NASA NTRS1990

Nitrogen nutrition and temporal effects of enhanced carbon dioxide on soybean growth

Plants grown on porous media at elevated CO2 levels generally have low concentrations of tissue N and often appear to require increased levels of external N to maximize growth response. This study determines if soybean [Glycine max (L.) Merr. Ransom'] grown hydroponically at elevated CO2 requires increases in external NO3- concentrations beyond levels that are optimal at ambient CO2 to maintain tissue N concentrations and maximize the growth response. This study also investigates temporal influences of elevated CO2 on growth responses by soybean. Plants were grown vegetatively for 34 d in hydroponic culture at atmospheric CO2 concentrations of 400, 650, and 900 microliters L-1 and during the final 18 d at NO3- concentrations of 0.5, 1.0, 5.0 and 10.0 mM in the culture solution. At 650 and 900 microliters L-1 CO2, plants had maximum increases of 31 and 45% in dry weight during the experimental period. Plant growth at 900 microliters L-1 CO2 was stimulated earlier than at 650 microliters L-1. During the final 18 d of the experiment, the relative growth rates (RGR) of plants grown at elevated CO2 declined. Elevated CO2 caused increases in total N and total NO3(-)-N content and leaf area but not leaf number. Enhancing CO2 levels also caused a decrease in root:shoot ratios. Stomatal resistance increased by 2.1- and 2.8-fold for plants at the 650 and 900 microliters L-1 CO2, respectively. Nitrate level in the culture solutions had no effect on growth or on C:N ratios of tissues, nor did increases in CO2 levels cause a decrease in N concentration of plant tissues. Hence, increases in NO3- concentration of the hydroponic solution were not necessary to maintain the N status of the plants or to maximize the growth response to elevated CO2.

NASA Program CELSS↗

DOE OSTI2025

Reducing Long‐Standing Surface Ozone Overestimation in Earth System Modeling by High‐Resolution Simulation and Dry Deposition Improvement

The overestimation of surface ozone concentration in low‐resolution global atmospheric chemistry and climate models has been a long‐standing issue. We first update the ozone dry deposition scheme in both high‐ (0.25°) and low‐resolution (1°) Community Earth System Model (CESM) version 1.3 runs, by adding the effects of leaf area index and correcting the sunlit and shaded fractions of stomatal resistances. With this update, 5‐year‐long summer simulations (2015–2019) using the low‐resolution CESM still exhibit substantial ozone overestimation (by 6.0–16.2 ppbv) over the U.S., Europe, eastern China, and ozone pollution hotspots. The ozone dry deposition scheme is further improved by adjusting the leaf cuticle conductance, reducing the mean ozone bias by 19%, and increasing the model resolution further reduces the ozone overestimation by 43%. We elucidate the mechanism by which model grid spacing influences simulated ozone, revealing distinctive pathways in urban versus rural areas. In rural areas, grid spacing mainly affects daytime ozone levels, where additional NO x emissions from nearby urban areas result in an ozone boost and overestimation in low‐resolution simulations. In contrast, over urban areas, daytime ozone overestimation follows a similar mechanism due to the influence of volatile organic compounds from surrounding rural areas. However, nighttime ozone overestimation is closely linked to weakened NO titration owing to the redistribution of urban NO x to rural areas. Additionally, stratosphere‐troposphere exchange may also contribute to reducing ozone bias in high‐resolution simulations, warranting further investigation. This optimized high‐resolution CESM may enhance understanding of ozone formation mechanisms, sources, and changes in a warming climate.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2019

Engineering CAM Photosynthetic Machinery into Bioenergy Crops for Biofuels Production in Marginal Environments

CAM provides an excellent opportunity to engineer enhanced photosynthetic performance and water-use efficiency (WUE) into bioenergy crops. Our vision was to understand the enzymatic and regulatory pathways required for CAM in order to engineer CAM photosynthetic machinery into Arabidopsis and Populus. Major advances were made in understanding the molecular “parts list” necessary for engineering CAM through the sequencing the genomes and transcriptomes of several model and agronomically important CAM species including Agave, Ananas, Clusia, Kalanchoe, Mesembryanthemum, and Opuntia. Comparison of diel co-expression network analyses in Agave, Ananas, and Kalanchoe with expression patterns in C 3 photosynthesis species revealed the rescheduling of gene expression associated with stomatal opening and closing and led to the identification of many candidate CAM-related genes for further functional testing. Both RNAi-mediated gene silencing and CRISPR/Cas genome editing for gene knockout were used to investigate over 70 CAM-related enzymes, regulatory kinases/phosphatases, and transporters and 25 transcription factors implicated in playing key regulatory roles in CAM. Knockdown of key C 4 cycle enzymes within the carboxylation and decarboxylation modules of CAM not only perturbed CAM itself, but also altered the expression of core circadian clock components demonstrating that loss of CAM function also perturbs the central circadian clock and alters the regulatory patterns of key guard cell signaling genes that are linked with the characteristic inverse pattern of stomatal opening and closing during CAM. An advanced system for joining D.AN fragments from a universal library was developed that automatically maintains open reading frames (ORFs) and does not require linkers, adaptors, regions of sequence homology, amplification (or mutation for domestication) of fragments to function systems for the construction of gene circuits. Alternatively, Gibson assembly was used to create gene circuits consisting of up to 15 unique gene expression cassettes expressing either the core C 4 cycle of CAM comprising carboxylation or decarboxylation modules or both modules together. The expression of each gene cassette was driven by a drought-stress inducible 5’ regulatory region or promoter (and cognate 3’ terminator region) from A. thaliana so that CAM gene expression would be enhanced under conditions of water-deficit stress. These gene circuits were introduced into the C 3 photosynthesis model species A. thaliana. Expression of the nocturnal carboxylation module resulted in increased biomass and seed yield arising from net CO 2 fixation at night and malate accumulation typical of a CAM plant along with daytime CO 2 fixation typical of a C 3 photosynthesis plant. To create a leaf anatomy suited for the optimal performance of CAM in a C 3 photosynthesis plant, increased tissue succulence was engineered in A. thaliana (and Nicotiana sylvestris), which also improved biomass and seed yield and drought attenuation and improved salinity tolerance. The basic CAM Biodesign principles described in this report can be extended to increase the productivity and WUE of food and bioenergy crops and are expected to have broad applicability and ensure sustainable biofuel feedstock production in the face of the global climate crisis.

59 BASIC BIOLOGICAL SCIENCES↗