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All sourcesNASA NTRSDOE OSTI
DOE OSTI2023

Widespread spring phenology effects on drought recovery of Northern Hemisphere ecosystems

The time required for an ecosystem to recover from severe drought is a key component of ecological resilience. The phenology effects on drought recovery are, however, poorly understood. These effects centre on how phenology variations impact biophysical feedbacks, vegetation growth and, ultimately, recovery itself. Using multiple remotely sensed datasets, we found that more than half of ecosystems in mid- and high-latitudinal Northern Hemisphere failed to recover from extreme droughts within a single growing season. Earlier spring phenology in the drought year slowed drought recovery when extreme droughts occurred in mid-growing season. Delayed spring phenology in the subsequent year slowed drought recovery for all vegetation types (with importance of spring phenology ranging from 46% to 58%). The phenology effects on drought recovery were comparable to or larger than other well-known postdrought climatic factors. These results strongly suggest that the interactions between vegetation phenology and drought must be incorporated into Earth system models to accurately quantify ecosystem resilience.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2020

Multiple elements of soil biodiversity drive ecosystem functions across biomes

The role of soil biodiversity in regulating multiple ecosystem functions is poorly understood, limiting our ability to predict how soil biodiversity loss might affect human wellbeing and ecosystem sustainability. Furthermore, combining a global observational study with an experimental microcosm study, we provide evidence that soil biodiversity (bacteria, fungi, protists and invertebrates) is significantly and positively associated with multiple ecosystem functions. These functions include nutrient cycling, decomposition, plant production, and reduced potential for pathogenicity and belowground biological warfare. Our findings also reveal the context dependency of such relationships and the importance of the connectedness, biodiversity and nature of the globally distributed dominant phylotypes within the soil network in maintaining multiple functions. Moreover, our results suggest that the positive association between plant diversity and multifunctionality across biomes is indirectly driven by soil biodiversity. Together, our results provide insights into the importance of soil biodiversity for maintaining soil functionality locally and across biomes, as well as providing strong support for the inclusion of soil biodiversity in conservation and management programmes.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2021

Reduced ecosystem resilience quantifies fine-scale heterogeneity in tropical forest mortality responses to drought

Sensitivity of forest mortality to drought in carbon-dense tropical forests remains fraught with uncertainty, while extreme droughts are predicted to be more frequent and intense. Here, in this study, the potential of temporal autocorrelation of high-frequency variability in Landsat Enhanced Vegetation Index (EVI), an indicator of ecosystem resilience, to predict spatial and temporal variations of forest biomass mortality is evaluated against in situ census observations for 64 site-year combinations in Costa Rican tropical dry forests during the 2015 ENSO drought. Temporal autocorrelation, within the optimal moving window of 24 months, demonstrated robust predictive power for in situ mortality (leave-one- out cross-validation R 2 = 0.54), which allows for estimates of annual biomass mortality patterns at 30 m resolution. Subsequent spatial analysis showed substantial fine-scale heterogeneity of forest mortality patterns, largely driven by drought intensity and ecosystem properties related to plant water use such as forest deciduousness and topography. Highly deciduous forest patches demonstrated much lower mortality sensitivity to drought stress than less deciduous forest patches after elevation was controlled. Our results highlight the potential of high-resolution remote sensing to “fingerprint” forest mortality and the significant role of ecosystem heterogeneity in forest biomass resistance to drought.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

Embracing fine-root system complexity in terrestrial ecosystem modeling

Projecting the dynamics and functioning of the biosphere requires a holistic consideration of whole-ecosystem processes. However, biases toward leaf, canopy, and soil modeling since the 1970s have constantly left fine-root systems being rudimentarily treated. As accelerated empirical advances in the last two decades establish clearly functional differentiation conferred by the hierarchical structure of fine-root orders and associations with mycorrhizal fungi, a need emerges to embrace this complexity to bridge the data-model gap in still extremely uncertain models. In this work, we propose a three-pool structure comprising transport and absorptive fine roots with mycorrhizal fungi (TAM) to model vertically resolved fine-root systems across organizational and spatial–temporal scales. Emerging from a conceptual shift away from arbitrary homogenization, TAM builds upon theoretical and empirical foundations as an effective and efficient approximation that balances realism and simplicity. A proof-of-concept demonstration of TAM in a big-leaf model both conservatively and radically shows robust impacts of differentiation within fine-root systems on simulating carbon cycling in temperate forests. Theoretical and quantitative support warrants exploiting its rich potentials across ecosystems and models to confront uncertainties and challenges for a predictive understanding of the biosphere. Echoing a broad trend of embracing ecological complexity in integrative ecosystem modeling, TAM may offer a consistent framework where modelers and empiricists can work together toward this grand goal.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

Spatial Study 2022: Water Column, Sediment, and Total Ecosystem Respiration Rates across the Yakima River Basin, Washington, USA (v2)

This dataset supports a broader study examining the drivers of spatial variability in sediment respiration rates in the Yakima River Basin and is associated with the manuscript “Sediment-associated processes account for most of the spatial variation in ecosystem respiration in the Yakima River basin” submitted to Nature Communications Earth & Environment (Garayburu-Caruso et al., in review). The dataset provides ecosystem metabolism estimates generated from streamMetabolizer (Appling et al.; 2018) using data collected during the same five-week period at 48 sites within multiple rivers throughout the Yakima River Basin in Washington, USA. Additionally, it includes the scripts used for the analysis and producing the figures in the manuscript. The contents include streamMetabolizer inputs and outputs and additional relevant data needed to generate the main manuscript results. The data included are: total ecosystem respiration, water respiration, calculated sediment-associated respiration, gross primary production outputs from the river corridor model for the Yakima River Basin, median grain size (d50), depth, dissolved oxygen, water temperature, pressure, and annual oxygen consumption. The associated GitHub repository can be found at https://github.com/river-corridors-sfa/SSS_metabolism. Samples collected during this study were labeled as “Second Spatial Study” or “SSS.” Raw time series sensor data, total suspended solids, and depth data from SSS were published at https://data.ess-dive.lbl.gov/datasets/doi:10.15485/1969566. A subset of data from the SSS samples were published in the contiguous United States (CONUS)-Scale Model-Sample (CM) study data package available at https://data.ess-dive.lbl.gov/view/doi:10.15485/1923689 that presents data from across the CONUS. They include dissolved organic carbon (DOC, measured as non-purgeable organic carbon, NPOC), total nitrogen (TN), grain size, aerobic sediment respiration, dissolved oxygen (DO), and temperature. Parent IDs and Site IDs are consistent between the SSS and CM data packages, and they can be mapped directly so data across packages can be used together. Field metadata for the samples in this da This dataset is comprised of one main data folder with four subfolders. The main data folder contains of (1) file-level metadata; (2) data dictionary; (3) total/water column/sediment respiration; (4) gross primary production (GPP); (5) median grain size (d50); and (6) annual oxygen consumption. The “Figures” subfolder contains the figures used in the paper and all intermediate files (including geospatial files). The “Published_Data” contains a readme directing the user to download the public data to reproduce analyses and figures. The “Scripts” folder contains all scripts used in the analyses that were not part of running StreamMetabolizer. Lastly, the “Stream_Metabolizer” folder contains all files associated with running StreamMetabolizer including (1) model input files, (2) model output files, (3) processing scripts, (4) histogram plots of the outputs, and (5) an R project. All files are .csv, .pdf, .R, .Rmd, .Rproj, .html, .png, .txt, .qgz, .cpg, .dbf, .prj, .shp, .shp.ea.iso.xml, .shp.iso.xml, .shx, .sbn. ta package can be found at either link. We acknowledge the Yakama Nation as owners and caretakers of the lands where we collected these data. We thank the Confederated Tribes and Bands of the Yakama Nation Tribal Council and Yakama Nation Fisheries for working with us to facilitate sample collection and optimization of data usage according to their values and worldview.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Remote Sensing and GIS data at 1km-grid over Chesapeake Bay used in “He et al. 2024, Effects of spatial variability in vegetation phenology, climate, landcover, biodiversity, topography, and soil property on soil respiration across a coastal ecosystem”

The package contains the data layers used in “He et al. 2024, Effects of spatial variability in vegetation phenology, climate, landcover, biodiversity, topography, and soil property on soil respiration across a coastal ecosystem”. The study aims to use multi-source remote sensing and GIS datasets to investigate the spatial heterogeneity and identify spatial zones with similar environmental characteristics and understand the primary driving factors affecting soil respiration within sub-ecosystems of the coastal ecosystem. We employed unsupervised hierarchical clustering analysis to identify spatial regions with distinct environmental characteristics, then determined the main driving factors using Random Forest regression and SHapley Additive exPlanations (SHAP). Spatial data layers include soil respiration, kernel Normalized Difference Vegetation Index (kNDVI) computed from Harmonized Landsat 8 and Sentinel-2 time series, climate variables from the Daymet dataset, land cover, biodiversity, topographical metrics, soil property, and tidal elevation.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2025

Gap-filled methane and carbon dioxide fluxes across two ecosystem states at the US-OWC AmeriFlux site (2015−2016, 2020−2022)

This dataset contains gap-filled measurements of methane flux (FCH4), net ecosystem CO2 exchange (NEE) partitioned into gross primary productivity (GPP) and ecosystem respiration (RE), as well as latent heat flux (LE) from a Great Lakes coastal freshwater wetland at the US-OWC AmeriFlux site. The dataset covers the peak growing seasons (June−September) of 2015−2016, dominated by Typha spp., and 2020−2022, characterized by floating-leaved species (lotus and water lily). These data were generated to investigate how rising water levels and vegetation shifts influence CH4 and CO2 fluxes across two distinct ecosystem states in this wetland. The dataset, provided in CSV format, includes half-hourly gap-filled flux data from June to September for 2015, 2016, 2020, 2021, and 2022. The gap-filled data refers to measurements where missing values due to instrument issues or quality control were filled using artificial neural networks (ANNs).

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2025

COMPASS-FME Terrestrial Ecosystem Manipulation to Probe the Effects of Storm Treatments (TEMPEST) Experiment Tree Inventory

This is the tree inventory (diameter, species, and live/dead status) data from the Terrestrial Ecosystem Manipulation to Probe the Effects of Storm Treatments (TEMPEST) experimental site. This manipulative, ecosystem-scale TEMPEST experiment is part of the COMPASS-FME (Coastal Observations, Mechanisms, and Predictions Across Systems and Scales: Field Measurements and Experiments; see https://compass.pnnl.gov/FME/COMPASSFME) project. It addresses the potential for freshwater and estuarine-water disturbance events to alter tree function, species composition, and ecosystem processes in a deciduous coastal forest in eastern Maryland, USA. The experiment uses a large-unit (2000 m2), un-replicated experimental design, with three 50 m × 40 m plots serving as control, freshwater, and estuarine-water treatments.This dataset includes:- An overall dataset README file.- The tree inventory data in both "wide" and "long" forms. These contain the same information but are structured differently, with the former more useful for human viewers and the latter more amenable for programmatic analyses.- A key to the species/genus codes used, which follow the U.S. Department of Agriculture's PLANTS schema (https://plants.usda.gov/).- A copy of the R code used to generate the wide- and long-form data files.All files are comma-separated value (CSV) and no special software is required to read them.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2025

COMPASS-FME Terrestrial Ecosystem Manipulation to Probe the Effects of Storm Treatments (TEMPEST) Experiment Level 1 Sensor Data v2-1

This is the version 2-1 Level 1 (L1) data release for COMPASS-FME environmental sensors located at our Terrestrial Ecosystem Manipulation to Probe the Effects of Storm Treatments (TEMPEST) experimental site. This manipulative, ecosystem-scale TEMPEST experiment addresses the potential for freshwater and estuarine-water disturbance events to alter tree function, species composition, and ecosystem processes in a deciduous coastal forest in MD, USA. The experiment uses a large-unit (2000 m2), un-replicated experimental design, with three 50 m × 40 m plots serving as control, freshwater, and estuarine-water treatments. L1 data are close to raw, but are units-transformed and have out-of-instrument-bounds, out-of-service, and outlier flags added. Duplicates and missing data are removed but otherwise these data are not filtered, and have not been subject to any additional algorithmic or human QA/QC. Any scientific analyses of L1 data should be performed with care. **This dataset will be updated quarterly with new data for the duration of the project** This dataset includes: - An overall dataset README file that describes the current version, gives citation and contact information, etc. - Site- and year-specific folders, each holding variable-specific CSV (comma separated value) data files for each site and plot in that year. - Metadata files within each site-year folder provide full information on data units, expected ranges, contact information, detailed flood times, as well as a general description of the site. - Environmental sensor types that appear in the data files include weather (ClimaVUE50, CS, RM Young, and LI instruments in the graphs below); soil conditions (TEROS12); soil redox state (Redox); groundwater variables (AquaTROLL200 and AquaTROLL600); open water sondes (Exo); tree sap velocity (Sapflow); and system voltage and state (Datalogger). Data are normally logged every 15 minutes. Please see v2-1 TEMPEST L1 Sensor Package Quick Start.pdf for detailed information on data package structure, temporal coverage, and versioning. The TEMPEST flood events occurred on the following dates. They lasted for ~10 hours each day and delivered ~80,000 gallons to each plot; many data streams are available at 1 or 5 minute frequency during these periods. * Tests: Aug 25 (fresh plot) and Sep 9 (salt plot), 2021 * TEMPEST 1: June 22, 2022 * TEMPEST 2: June 6-7, 2023 * TEMPEST 3: June 11-13, 2024 This dataset was updated 2026-03-12: (i) data now go through 2025-12-31 (previous end was 2025-06-30) and (ii) dataset and file names updated to “…v2-1” (previously was “v2-0”).

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2026

COMPASS-FME Terrestrial Ecosystem Manipulation to Probe the Effects of Storm Treatments (TEMPEST) Experiment Level 2 Sensor Data v2-1

This is the version v2-1 Level 2 (L2) data release for COMPASS-FME environmental sensors located at our Terrestrial Ecosystem Manipulation to Probe the Effects of Storm Treatments (TEMPEST) experimental site. This manipulative, ecosystem-scale TEMPEST experiment addresses the potential for freshwater and estuarine-water disturbance events to alter tree function, species composition, and ecosystem processes in a deciduous coastal forest in MD, USA. The experiment uses a large-unit (2000 m2), un-replicated experimental design, with three 50 m × 40 m plots serving as control, freshwater, and estuarine-water treatments. Level 2 (L2) data consist of sensor observations from the COMPASS-FME synoptic sites, TEMPEST, and DELUGE. Compared to the L1 data, these are more consistent (always 15-minute timestamps for the entire year); better QA/QC’d (out of bounds, out of service, and extreme outlier values are removed); and more complete, with a gap-filled time series available alongside the main observations, and additional derived (calculated) variables. L2 data are intended to be rapidly and easily usable in analyses and simulations. However, algorithmic outlier identification always carries the risk of removing valid data, and Level 1 data may be more suitable for analyses that focus on variability or extreme events. This dataset includes: - An overall dataset README file that describes the current version, gives citation and contact information, etc. - Site- and year-specific folders, each holding variable-specific Parquet (a high performance, space efficient format; see https://parquet.apache.org) data files for each site and plot in that year. - Metadata files within each site-year folder provide full information on data units, expected ranges, contact information, detailed flood times, as well as a general description of the site. - Environmental sensor types that appear in the data files include weather (ClimaVUE50, CS, RM Young, and LI instruments in the graphs below); soil conditions (TEROS12); soil redox state (Redox); groundwater variables (AquaTROLL200 and AquaTROLL600); open water sondes (Exo); tree sap velocity (Sapflow); and system voltage and state (Datalogger). Data are reported every 15 minutes. Please see v2-1 TEMPEST L2 Sensor Package Quick Start.pdf for detailed information on data package structure, temporal coverage, and versioning. Data files are in Apache Parquet, a high performance, space efficient format for tabular data. These files can be read using R's `arrow` package (https://arrow.apache.org/docs/r/), with similar tools available in other languages. The TEMPEST flood events occurred on the following dates. They lasted for ~10 hours each day and delivered ~80,000 gallons to each plot; many data streams are available at 1 or 5 minute frequency during these periods. * Tests: Aug 25 (fresh plot) and Sep 9 (salt plot), 2021 * TEMPEST 1: June 22, 2022 * TEMPEST 2: June 6-7, 2023 * TEMPEST 3: June 11-13, 2024

EARTH SCIENCE > ATMOSPHERE > ATMOSPHERIC TEMPERATU↗
NASA NTRS2015

NASA COAST and OCEANIA Airborne Missions in Support of Ecosystem and Water Quality Research in the Coastal Zone

Worldwide, coastal marine ecosystems are exposed to land-based sources of pollution and sedimentation from anthropogenic activities including agriculture and coastal development. Ocean color products from satellite sensors provide information on chlorophyll (phytoplankton pigment), sediments, and colored dissolved organic material. Further, ship-based in-water measurements and emerging airborne measurements provide in situ data for the vicarious calibration of current and next generation satellite ocean color sensors and to validate the algorithms that use the remotely sensed observations. Recent NASA airborne missions over Monterey Bay, CA, have demonstrated novel above- and in-water measurement capabilities supporting a combined airborne sensor approach (imaging spectrometer, microradiometers, and a sun photometer). The results characterize coastal atmospheric and aquatic properties through an end-to-end assessment of image acquisition, atmospheric correction, algorithm application, plus sea-truth observations from state-of-the-art instrument systems. The primary goal of the airborne missions was to demonstrate the following in support of calibration and validation exercises for satellite coastal ocean color products: 1) the utility of a multi-sensor airborne instrument suite to assess the bio-optical properties of coastal California, including water quality; and 2) the importance of contemporaneous atmospheric measurements to improve atmospheric correction in the coastal zone. Utilizing an imaging spectrometer optimized in the blue to green spectral domain enables higher signal for detection of the relatively dark radiance measurements from marine and freshwater ecosystem features. The novel airborne instrument, Coastal Airborne In-situ Radiometers (C-AIR) provides measurements of apparent optical properties with high dynamic range and fidelity for deriving exact water leaving radiances at the land-ocean boundary, including radiometrically shallow aquatic ecosystems. Simultaneous measurements supporting empirical atmospheric correction of image data were accomplished using the Ames Airborne Tracking Sunphotometer (AATS-14). Flight operations are presented for the instrument payloads using the CIRPAS Twin Otter flown over Monterey Bay during the seasonal fall algal bloom in 2011 (COAST) and 2013 (OCEANIA) to support bio-optical measurements of phytoplankton for coastal zone research. Further, this airborne capability can be responsive to first flush rain events that deliver higher concentrations of sediments and pollution to coastal waters via watersheds and overland flow.

Airborne Equipment↗
NASA NTRS2012

Net Primary Production of Terrestrial Ecosystems from 2000 to 2009

The CASA (Carnegie-Ames-Stanford) ecosystem model has been used to estimate monthly carbon fluxes in terrestrial ecosystems from 2000 to 2009, with global data inputs from NASA's Terra Moderate Resolution Imaging Spectroradiometer (MODIS) vegetation cover mapping. Net primary production (NPP) flux for atmospheric carbon dioxide has varied slightly from year-to-year, but was predicted to have increased over short multi-year periods in the regions of the high-latitude Northern Hemisphere, South Asia, Central Africa, and the western Amazon since the year 2000. These CASA results for global NPP were found to be in contrast to other recently published modeling trends for terrestrial NPP with high sensitivity to regional drying patterns. Nonetheless, periodic declines in regional NPP were predicted by CASA for the southern and western Untied States, the southern Amazon, and southern and eastern Africa. NPP in tropical forest zones was examined in greater detail to discover lower annual production values than previously reported in many global models across the tropical rainforest zones, likely due to the enhanced detection of lower production ecosystems replacing primary rainforest.

Terrestiral ecosystems↗
NASA NTRS2019

Modeling Phenological Controls on Carbon Dynamics in Dryland Sagebrush Ecosystems

Dryland ecosystems play an important role in determining how precipitation anomalies affect terrestrial carbonfluxes at regional to global scales. Thus, to understand how climate change may affect the global carbon cycle,we must also be able to understand and model its effects on dryland vegetation. Dynamic Global VegetationModels (DGVMs) are an important tool for modeling ecosystem dynamics, but they often struggle to reproduceseasonal patterns of plant productivity. Because the phenological niche of many plant species is linked to bothtotal productivity and competitive interactions with other plants, errors in how process-based models representphenology hinder our ability to predict climate change impacts. This may be particularly problematic in drylandecosystems where many species have developed a complex phenology in response to seasonal variability in bothmoisture and temperature. Here, we examine how uncertainty in key parameters as well as the structure ofexisting phenology routines affect the ability of a DGVM to match seasonal patterns of leaf area index (LAI) andgross primary productivity (GPP) across a temperature and precipitation gradient. First, we optimized modelparameters using a combination of site-level eddy covariance data and remotely-sensed LAI data. Second, wemodified the model to include a semi-deciduous phenology type and added flexibility to the representation ofgrass phenology. While optimizing parameters reduced model bias, the largest gains in model performance wereassociated with the development of our new representation of phenology. This modified model was able to bettercapture seasonal patterns of both leaf area index (R2=0.75) and gross primary productivity (R2=0.84), thoughits ability to estimate total annual GPP depended on using eddy covariance data for optimization. The new modelalso resulted in a more realistic outcome of modeled competition between grass and shrubs. These findingsdemonstrate the importance of improving how DGVMs represent phenology in order to accurately forecastclimate change impacts in dryland ecosystems.

Ecosystem model Phenology Parameter optimization E↗
NASA NTRS2019

Multimodel Analysis of Future Land Use and Climate Change Impacts on Ecosystem Functioning

Land use and climate changes both affect terrestrial ecosystems. Here, we used three combinations of Shared Socioeconomic Pathways and Representative Concentration Pathways (SSP1xRCP26, SSP3xRCP60, and SSP5xRCP85) as input to three dynamic global vegetation models to assess the impacts and associated uncertainty on several ecosystem functions: terrestrial carbon storage and fluxes, evapotranspiration, surface albedo, and runoff. We also performed sensitivity simulations in which we kept either land use or climate (including atmospheric CO2) constant from year 2015 on to calculate the isolated land use versus climate effects. By the 2080–2099 period, carbon storage increases by up to 87 ± 47 Gt (SSP1xRCP26) compared to present day, with large spatial variance across scenarios and models. Most of the carbon uptake is attributed to drivers beyond future land use and climate change, particularly the lagged effects of historic environmental changes. Future climate change typically increases carbon stocks in vegetation but not soils, while future land use change causes carbon losses, even for net agricultural abandonment (SSP1xRCP26). Evapotranspiration changes are highly variable across scenarios, and models do not agree on the magnitude or even sign of change of the individual effects. A calculated decrease in January and July surface albedo (up to −0.021 ± 0.007 and −0.004 ± 0.004 for SSP5xRCP85) and increase in runoff (+67 ± 6 mm/year) is largely driven by climate change. Overall, our results show that future land use and climate change will both have substantial impacts on ecosystem functioning. However, future changes can often not be fully explained by these two drivers and legacy effects have to be considered.

land use change↗
DOE OSTI2023

A Processing and Analytics System for Microscopy Data Workflows: The Pycroscopy Ecosystem of Packages

Major advancements in fields as diverse as biology and quantum computing have relied on a multitude of microscopy techniques. Despite the considerable proliferation of these instruments, significant bottlenecks remain in terms of processing, analysis, storage, and retrieval of the acquired datasets. Aside from lack of file standards, individual domain-specific analysis packages are often disjoint from the underlying datasets, and thus keeping track of analysis and processing steps remains tedious for the end-user, hampering reproducibility. Here, in this study, the pycroscopy ecosystem of packages is introduced, an open-source python-based ecosystem underpinned by a common data model. The data model, termed the N-dimensional spectral imaging data format, is realized in pycroscopy's sidpy package. This package is built on top of dask arrays, thus leveraging dask array attributes, but expanding them to accelerate microscopy relevant analysis and visualization. Several examples of the use of the pycroscopy ecosystem to create workflows for data ingestion and analysis of scanning transmission electron microscopy (STEM) and scanning probe microscopy data are shown. Adoption of such standardized routines will be critical to usher in the next generation of autonomous instruments where processing, computation, and meta-data storage will be critical to overall experimental operations.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2023

Breaking the Ice: A Review of Phages in Polar Ecosystems

Bacteriophages, or phages, are viruses that infect and replicate within bacterial hosts, playing a significant role in regulating microbial populations and ecosystem dynamics. However, phages from extreme environments such as polar regions remain relatively understudied due to challenges such as restricted ecosystem access and low biomass. In this study, understanding the diversity, structure, and functions of polar phages is crucial for advancing our knowledge of the microbial ecology and biogeochemistry of these environments. In this review, we will explore the current state of knowledge on phages from the Arctic and Antarctic, focusing on insights gained from -omic studies, phage isolation, and virus-like particle abundance data. Metagenomic studies of polar environments have revealed a high diversity of phages with unique genetic characteristics, providing insights into their evolutionary and ecological roles. Phage isolation studies have identified novel phage–host interactions and contributed to the discovery of new phage species. Virus-like particle abundance and lysis rate data, on the other hand, have highlighted the importance of phages in regulating bacterial populations and nutrient cycling in polar environments. Overall, this review aims to provide a comprehensive overview of the current state of knowledge about polar phages, and by synthesizing these different sources of information, we can better understand the diversity, dynamics, and functions of polar phages in the context of ongoing climate change, which will help to predict how polar ecosystems and residing phages may respond to future environmental perturbations.

09 BIOMASS FUELS↗
DOE OSTI2022

Building an Integrated Ecosystem of Computational and Observational Facilities to Accelerate Scientific Discovery

Future scientific discoveries will rely on flexible ecosystems that incorporate modern scientific instruments, high performance computing resources, parallel distributed data storage, and performant networks across multiple, independent facilities. In addition to connecting physical resources, such an ecosystem presents many challenges in logistics and accessibility, especially in orchestrating computations and experiments that span across leadership computing systems and experimental instruments. Past efforts have typically been application-specific or limited to interfaces for computing resources. This paper proposes a general framework for integrating computation resources and instrument operations, addressing challenges in code development/execution, data staging and collection, software stack, control mechanisms, resource authorization and governance, and hardware integration. We also describe a demonstration use case wherein a Bayesian optimization algorithm running on an edge computing resource guides a scanning probe microscope to autonomously and intelligently characterize a material sample. This science edge ecosystem framework will provide a blueprint for federating multi-institutional, disparate resources and orchestrating scientific workflows across them to enable next-generation discoveries.

Somnath, Suhas↗
DOE OSTI2024

Native bee Pollination Ecosystem Services in Agricultural Wetlands and Riparian Protected Lands

Abstract Many freshwater wetlands and riparian systems are protected within agricultural landscapes. Yet, pollinator ecosystem services are seldom considered key ecosystem services provided by these conservation easements. The purpose of this study is to explore the extent of protected aquatic lands to provide pollination ecosystem services by assessing pollinator abundances, crop yield changes, and value estimations of increased soybean yields from a subset of common native solitary bees. We created a novel geodatabase of United States Department of Agriculture (USDA) conservation easements and used this database in the InVEST crop pollination model to model wild solitary bee pollination. We then estimated the monetary value of yield increases provided by pollinators. We found that wetland uplands provided the greatest potential for pollination services for ground nesting bees, followed by herbaceous and forested riparian respectively. Stem nesters preferred forested riparian, then upland habitats. In soybeans fields, we found wild pollinators can provide up to 5.5% yield response from current private aquatic conservation lands. The current landscape is not optimized to use wetlands and riparian conservation lands as pollinator habitat, but these results suggest protected aquatic lands can sustainably increase wild pollination services to agricultural crops if landscapes are managed, protected, and optimized with pollinator services as co-benefit.

Hinson, Audra L. (ORCID:0000000242314820)↗