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At least 1,459 records · Page 81

Data from a throughfall exclusion experiment: Fine root dynamics, morphology, chemistry, and AMF colonization across four lowland Panamanian forests

Fine roots regulate forest nutrient, carbon, and water cycling, yet their variation within and among tropical forests remains under-characterized. We quantified root productivity, disappearance, and stocks to 1 m using minirhizotron imaging, and we measured morphology, elemental composition [root carbon (C), root nitrogen (N), root phosphorus (P)], and arbuscular mycorrhizal fungi (AMF) colonization to 20 cm using ingrowth cores and sequential coring. Sampling took place in four distinct lowland Panamanian forests (32 plots; 8 per forest) from 2018 through 2022 under control and throughfall-exclusion (drought) treatments in the Panama Rainforest Changes with Experimental Drying (PARCHED) experiment.The dataset is presented as an Excel workbook with six tabs. The first tab is the data dictionary. Tab S1 contains ingrowth-core production and mortality, morphology and soil moisture. Tab S2 contains sequential-coring standing stocks with associated morphology and soil moisture. Tab S3 contains minirhizotron row data records to 1 m depth, including per-frame root length and diameter, normalized length metrics, and session timing. Tab S4 contains AMF colonization. Tab S5 contains fine-root chemistry at 0–10 cm, reporting %P, %C, %N, and C:N for samples collected via ingrowth cores and sequential-coring standing stocks. CSV mirrors for each tab are provided, and a KML file supplies coordinates for all 32 plots.Key variables span live and dead fine-root biomass (and coarse fractions where applicable), specific root length (SRL) and area (SRA), diameter, root tissue density (RTD), soil moisture, AMF colonization, root %N, %C, %P, and C:N, along with minirhizotron root length and diameter. Depth, season, treatment, and plot/site identifiers are included to support cross-tab integration and analysis from 0–100 cm (minirhizotron) and 0–20 cm (cores).Units are reported in-column and missing values are coded as NA. No special software is required to open or use the files (Excel, CSV, and KML compatible).

54 ENVIRONMENTAL SCIENCES↗

Power Plant Water Risk and Adaptive Measures Database

Project objective was to understand water-related constraints affecting conventional powerplant operations, specifically coal-fired power plants. Of concern were threats related to drought and flood affecting both water supply and ability of plant to discharge wastewater. Also of interest were adaptive measures taken to mitigate identified threats. This spreadsheet contains the responses provided by the power plant operators and owners. Data have been "sanitized" (e.g., random plant ID, binned location and generation capacity information) to ensure anonymity of individual power plants.

Adaptive Measures↗

Detecting Humanity's Imprint on Rainfall Patterns: An S&TR Preprint

It's the perfect storm. At a time when global demand for water is rising rapidly due to population growth, urbanization, industrial activities, and expanded use of crop irrigation systems, climate change may be altering the timing, location, and amount of rain and snow that fall on large swaths of the planet. Computational models indicate that increases in global surface temperatures will redistribute rainfall in two ways. First, warmer air, which holds more water vapor, will intensify existing precipitation and drought conditions. That is, more rain will fall in wet areas, and evaporation will increase in drier areas. Second, shifts in atmospheric circulation patterns will push storm paths and subtropical dry zones toward the poles. Worldwide changes to rainfall patterns could magnify existing problems with water scarcity, food shortage, and possibly even political instabilities, thereby transforming an environmental concern into a global security issue. Confirming that the predicted changes are occurring and determining whether human-induced (anthropogenic) forces, such as greenhouse-gas emissions and ozone depletion, or naturally occurring fluctuations are causing the pattern shifts may help policy makers develop strategies for mitigating or adapting to the changes. However, extracting this information from global precipitation data can be challenging.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Poplar Interactome: Project Final Report

The feedstock plant Poplar has many advantages over traditional crop plants. Not only Poplar needs low energy input and off season storage as compared to feedstocks such as corn, in the winter season Poplar biomass is stored on the stem/trunk, and Poplar plantations serve as large carbon sink. A key constraint to the expansion of cellulosic bioenergy sources such as in Poplar however, is the negative consequence of converting land use from food crops to energy crops. Therefore in order for Poplar to become a viable energy crop it needs to be grown mostly on marginal land unsuitable agricultural crops. For this we need a better understanding of abiotic stress and adaptation response in poplar. In the process we expected to find new and existing poplar genes and their function that respond to sustain abiotic stress. We carried out an extensive gene expression study on the control untreated and stress (drought, salinity, cold and heat) treated poplar plants. The samples were collected from the stem, leaf and root tissues. The RNA of protein coding genes and regulatory smallRNA genes were sequenced generating more than a billion reads. This is the first such known study in Poplar plants. These were used for quantification and genomic analysis to identify stress responsive genes in poplar. Based on the quantification and genomic analysis, a select set of genes were studied for gene-gene interactions to find their association to stress response. The data was also used to find novel stress responsive genes in poplar that were previously not identified in the Poplar reference genome. The data is made available to the public through the national and international genomic data archives.

59 BASIC BIOLOGICAL SCIENCES↗

Two Years of Vegetation Assessment at Project 57 for 2016 and 2018

During the late 1950s, the Atomic Energy Commission (AEC), now the U.S. Department of Energy (DOE), conducted a series of experiments in Emigrant Valley to determine if a nuclear device subjected to a large conventional explosives detonation would result in a nuclear yield. One of these tests, Project 57, disseminated plutonium across the ground surface. Plutonium isotopes dispersed across the land surface can adhere to soil particles, particularly fine soil materials. Plutonium can be redistributed beyond the Contamination Area (CA) boundary by both wind and water. In 2016 and 2018, a vegetation assessment investigated the variation in vegetation cover of the CA to evaluate the potential influence of vegetation on aeolian (wind) transport of soil particles. Results showed the perennial cover was relatively stable during the time period, increasing from 17 percent to 19 percent, which is typical shrub cover for Great Basin valley shrublands. However, annual plant cover varied dramatically between years, likely because of dry conditions during 2018. Annual plant cover was 17 percent in 2016 and less than 2 percent in 2018. Bare soil was greater than 60 percent in both years, which provided a source of potential sediment erosion during wind and precipitation events, and consequently sediment transport outside of the CA. Additionally, in 2016, part of the CA appeared to have burned several decades prior, and was dominated by both native and non-native annual plants. The burned area was mostly bare soil in 2018, which was also a potential source for sediment transport. The variability of annual plant cover and the potential for changes in the perennial plant cover because of fire or drought mortality suggests future sediment transport from the Project 57 study site could vary dramatically over time.

54 ENVIRONMENTAL SCIENCES↗

The Brachypodium ENCODE Project – from sequence to function: Predicting physiological responses in grasses to facilitate engineering of biofuel crops

The overarching goal of this proposal was to gain deep knowledge of chromatin dynamics and gene networks related to stress responses in grasses. To accomplish this goal our Brachypodium ENCODE project (1) coupled drought-focused physiological analysis with multiple layers of ENCODE ‘omics’ profiling; (2) obtained fundamental information about the Brachypodium transcriptome, epigenome, chromatin dynamics, and gene regulatory networks; and (3) elucidated the regulatory dynamics of gene networks that can be manipulated to increase energy grass crop productivity.

09 BIOMASS FUELS↗

Systems Analysis of the Physiological and Molecular Mechanisms of Sorghum Nitrogen Use Efficiency, Water Use Efficiency and Interactions with the Soil Microbiome (Final Report for DE-SC0014395)

The specific project objectives were to: 1) Conduct deep census surveys of root microbiomes concurrent with phenotypic characterizations of a diverse panel of sorghum genotypes across multiple years to define the microbes associated with the most productive lines under drought and low nitrogen conditions. 2) Associate systems-level genotypic, microbial, and environmental factors with improved sorghum performance using robust statistical approaches. 3) Develop culture collections of sorghum root/leaf associated microbes that recapitulate root-enriched sequences defined in the census. 4) Perform controlled environment experiments for in-depth characterization and hypothesis testing of G sorghum x G microbe x E interactions . Validate physiological mechanisms, map genetic loci for stress tolerance, and determine the persistence of optimal microbial strains under greenhouse and field conditions.

59 BASIC BIOLOGICAL SCIENCES↗

Genetic_and_epigenetic_signatures_of_Populus_Trichocarpa_in_response_to_abiotic_stress

Plants respond to abiotic stresses such as drought, heat, and salinity through both shared and stress-specific regulatory pathways. However, the role of epigenetic mechanisms, particularly DNA methylation, in modulating these responses is still underexplored. Here, we integrated transcriptome profiling with whole-genome bisulfite sequencing (WGBS) to investigate the dynamic relationship between gene expression and DNA methylation in Populus trichocarpa during brief early-stage exposure to abiotic stress. Each stress elicited distinct transcriptional and methylation signatures; however, a subset of conserved stress-responsive genes was commonly regulated across treatments. Approximately 5% of differentially expressed genes also displayed differential methylation patterns, suggesting a coordinated role for DNA methylation in regulating gene expression. Motif enrichment analysis of differentially methylated regions revealed binding sites of key transcription factor families, including ERF, bHLH, and ABF, highlighting potential role for methylation in modulating transcription factor targeting. Furthermore, we identified stress-inducible molecular markers with potential applications in early stress detection and functional dissection of gene regulatory pathways. Together, these findings provide new insights into the coordinated genetic and epigenetic responses to abiotic stress and provide a foundation for developing biosensors and breeding strategies to enhance stress resilience woody plants.

CBI↗

Exopolysaccharide is required for motility, stress tolerance, and plant colonization by the endophytic bacterium Paraburkholderia phytofirmans PsJN

Paraburkholderia phytofirmans PsJN is an endophytic bacterium and has been shown to promote the growth and health of many different plants. Exopolysaccharide (EPS) plays important roles in plant-bacteria interaction and tolerance to environmental stresses. However, the function of EPS in PsJN and its interaction with plants remain largely unknown. In this study, a deletion mutation of bceQ gene, encoding a putative flippase for the EPS biosynthesis, was introduced in the genome of PsJN. The ΔbceQ mutant produced a significantly lower level of EPS than the wild type strain in culture media. Compared to the wild type PsJN, the ΔbceQ mutant was more sensitive to desiccation, UV damage, salt (NaCl) and iron (FeCl 3 ) stresses, and bacteriophage infection. More importantly, the mutation of bceQ decreased the endophytic colonization of PsJN in camelina (Camelina sativa) and pea (Camelina sativa) under plant drought stress conditions. To the best of our knowledge, this is the first report that EPS production is required for the maximal colonization of an endophytic bacterium in the plant tissues under stress conditions.

59 BASIC BIOLOGICAL SCIENCES↗

Determination of Leaf Water Content by Visible and Near-Infrared Spectrometry and Multivariate Calibration in Miscanthus

Leaf water content is one of the most common physiological parameters limiting efficiency of photosynthesis and biomass productivity in plants including Miscanthus. Therefore, it is of great significance to determine or predict the water content quickly and non-destructively. In this study, we explored the relationship between leaf water content and diffuse reflectance spectra in Miscanthus . Three multivariate calibrations including partial least squares (PLS), least squares support vector machine regression (LSSVR), and radial basis function (RBF) neural network (NN) were developed for the models of leaf water content determination. The non-linear models including RBF_LSSVR and RBF_NN showed higher accuracy than the PLS and Lin_LSSVR models. Moreover, 75 sensitive wavelengths were identified to be closely associated with the leaf water content in Miscanthus . The RBF_LSSVR and RBF_NN models for predicting leaf water content, based on 75 characteristic wavelengths, obtained the high determination coefficients of 0.9838 and 0.9899, respectively. The results indicated the non-linear models were more accurate than the linear models using both wavelength intervals. These results demonstrated that visible and near-infrared (VIS/NIR) spectroscopy combined with RBF_LSSVR or RBF_NN is a useful, non-destructive tool for determinations of the leaf water content in Miscanthus , and thus very helpful for development of drought-resistant varieties in Miscanthus .

59 BASIC BIOLOGICAL SCIENCES↗

A systems genetic analysis identifies putative mechanisms and candidate genes regulating vessel traits in poplar wood

Wood is the water conducting tissue of tree stems. Like most angiosperm trees, poplar wood contains water-conducting vessel elements whose functional properties affect water transport and growth rates, as well as susceptibility to embolism and hydraulic failure during water stress and drought. Here we used a unique hybrid poplar pedigree carrying genomically characterized chromosomal insertions and deletions to undertake a systems genomics analysis of vessel traits. We assayed gene expression in wood forming tissues from clonal replicates of genotypes covering dosage quantitative trait loci with insertions and deletions, genotypes with extreme vessel trait phenotypes, and control genotypes. A gene co-expression analysis was used to assign genes to modules, which were then used in integrative analyses to identify modules associated with traits, to identify putative molecular and cellular processes associated with each module, and finally to identify candidate genes using multiple criteria including dosage responsiveness. These analyses identified known processes associated with vessel traits including stress response, abscisic acid and cell wall biosynthesis, and in addition identified previously unexplored processes including cell cycle and protein ubiquitination. We discuss our findings relative to component processes contributing to vessel trait variation including signaling, cell cycle, cell expansion, and cell differentiation.

59 BASIC BIOLOGICAL SCIENCES↗

Xeric Tree Populations Exhibit Delayed Summer Depletion of Root Starch Relative to Mesic Counterparts

Research linking soil moisture availability to nonstructural carbohydrate (NSC) storage suggests greater NSC reserves promote survival under acute water stress, but little is known about how NSC allocation responds to long-term differences in water availabilty. We hypothesized populations experiencing chronic or frequent water stress shift carbon allocation to build greater NSC reserves for increased survival probability during drought relative to populations rarely experiencing water stress. Over a year, we measured soluble sugar and starch concentrations from branches, stems, and coarse roots of mature Pinus palustris trees at two sites differing in long-term soil moisture availability. Xeric and mesic populations exhibited a cycle of summer depletion-winter accumulation in root starch. Xeric populations reached a maximum root starch concentration approximately 1–2 months later than mesic populations, indicating delayed summer depletion. Xeric and mesic populations reached the same minimum root starch at similar times, suggesting extended winter accumulation for xeric populations. These results suggest seasonal mobilization from root starch is compressed into a shorter interval for xeric populations instead of consistently greater reserves as hypothesized. Seasonal trends differed little between xeric and mesic populations for starch and sugars, suggesting the importance of roots in seasonal carbon dynamics and the primacy of starch for storage. If roots are the primary organ for longterm storage, then our results suggest that whole-plant mobilization and allocation respond to chronic differences in water availability.

54 ENVIRONMENTAL SCIENCES↗

Decline in Seasonal Snow during a Projected 20-Year Dry Spell

Snowpack loss in midlatitude mountains is ubiquitously projected by Earth system models, though the magnitudes, persistence, and time horizons of decline vary. Using daily downscaled hydroclimate and snow projections, we examine changes in snow seasonality across the U.S. Pacific Southwest region during a simulated severe 20-year dry spell in the 21st century (2051–2070) developed as part of the 4th California Climate Change Assessment to provide a “stress test” for water resources. Across California’s mountains, substantial declines (30–100% loss) in median peak annual snow water equivalent accompany changes in snow seasonality throughout the region compared to the historic period. We find that 80% of historic seasonal snowpacks transition to ephemeral conditions. Subsetting empirical-statistical wildfire projections for California by snow seasonality transition regions indicates a two-to-four-fold increase in the area burned, consistent with recent observations of high elevation wildfires following extended drought conditions. By analyzing six of the major California snow-fed river systems, we demonstrate snowpack reductions and seasonality transitions result in concomitant declines in annual runoff (47–58% of historical values). The negative impacts to statewide water supply reliability by the projected dry spell will likely be magnified by changes in snowpack seasonality and increased wildfire activity.

54 ENVIRONMENTAL SCIENCES↗

Real-Time and Rapid Respiratory Response of the Soil Microbiome to Moisture Shifts

Microbial response to changing environmental factors influences the fate of soil organic carbon, and drought has been shown to affect microbial metabolism and respiration. We hypothesized that the access of microbes to different carbon pools in response to dry–rewet events occurs sequentially at different rates. We amended desiccated soils with 13 C-labeled glucose and measured the rates of 12 CO 2 and 13 CO 2 respiration in real time after rewetting. Using these differentiated 12 CO 2 and 13 CO 2 respiration rate soils after rewetting, we were able to deduce when microbes are accessing different pools of carbon. Immediately upon rewetting, respiration of 12 CO 2 occurred first, with negligible 13 CO 2 respiration. Appreciable metabolism and respiration of the added 13 C glucose did not occur until 15 min after rewetting. We conclude that, while all carbon pools are being accessed in the first 9 h after rewetting, the rate and timing at which new and existing carbon pools are being accessed varies. Within this study, using stable isotope-labeled substrates to discern which carbon pools are metabolized first uniquely illustrates how microorganisms access different carbon pools which has implications into understanding how carbon metabolism can further affect climate, carbon sequestration, and soil health.

59 BASIC BIOLOGICAL SCIENCES↗

Direct and indirect effects of environmental variability on growth and survivorship of pre‐reproductive Joshua trees, Yucca brevifolia Engelm. (Agavaceae)

Premise of study: Accurate demographic information about long-lived plant species is important for understanding responses to large-scale disturbances, including climate change. It is challenging to obtain these data from desert perennial plants because seedling establishment is exceptionally rare, and estimates of survival are lacking for their vulnerable early stages. Desert wildfires, urbanization, and climate change influence the persistence of the long-lived Yucca brevifolia. Quantitative demographic attributes are crucial for understanding how populations will respond to disturbances and where populations will recede or advance under future climate scenarios. Methods: We measured survival in a cohort of 53 pre-reproductive Y. brevifolia at Yucca Flat, Nevada, USA, for 22 yr and recorded their growth, nurse-plant relationships, and herbivory. Key results: Herbivory by black-tailed jackrabbits (Lepus californicus) caused severe losses of plants during the first and second years (45% and 31%, respectively). Surviving plants experienced <2.5% annual mortality. Survival for the population was 19% over 22 yr. Plants <25 cm in height had lower life expectancy. Average growth rate (± SD) for plants that survived to the last census was 3.12 ± 1.96 cm yr -1 ), and growth rates were positively associated with precipitation. Thirty-year-old Y. brevifolia had not yet reproduced. Conclusions: A rare establishment event for Y. brevifolia during 1983-1984, triggered by above-average summer rainfall, provided a unique opportunity to track early survival and growth. Infrequent but acute episodes of herbivory during drought influenced demography for decades. Variability in survival among young Y. brevifolia indicates that size-dependent demographic variables will improve forecasts for this long-lived desert species under predicted regional climate change.

54 ENVIRONMENTAL SCIENCES↗

Avian community composition in response to high explosive testing operations at Los Alamos National Laboratory in Northern New Mexico

Breeding bird abundance, species richness, evenness, diversity, composition, productivity, and survivorship were determined near a high-explosive detonation site at Los Alamos National Laboratory, New Mexico, USA, during pre-operation (1997-1999) and operation (2000-2014) periods. The operation periods consisted of detonations (<23 kg in yield and <3 per breeding season) in open air (2000-2002), within foam containment (2003-2006) and within steel vessel containment (2007-2014) systems; the latter two were employed to reduce noise and dispersal of high-explosives residues. A total of 2952 bird captures, representing 80 species, was recorded during 18 years of mist net operations using the Monitoring Avian Productivity and Survivorship protocol. Individuals captured were identified to species, aged, sexed, and banded during May through August of each year. There were no significant differences (p > 0.05) in mean avian abundance and species evenness in any of the operation periods as compared with the pre-operation period. Species richness and diversity were significantly higher (p < 0.05) during the vessel containment period (2007-2014) than the pre-operation period. The time period of this study coincided with a wildfire (2000), a bark beetle infestation (2002), and two periods of drought (Nov 1999-Mar 2004 and Dec 2005-Dec 2014) that affected the study area. Furthermore, analysis of aerial photos determined that the average percent canopy cover of mature ponderosa pines (Pinus ponderosa) within 100 feet of mist net sites declined from 12% to 3% between 1991 and 2014 and the percent cover of shrubs slightly increased.

54 ENVIRONMENTAL SCIENCES↗