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At least 343 records · Page 19

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NASA NTRS1991

Multispectral Image Processing for Plants

The development of a machine vision system to monitor plant growth and health is one of three essential steps towards establishing an intelligent system capable of accurately assessing the state of a controlled ecological life support system for long-term space travel. Besides a network of sensors, simulators are needed to predict plant features, and artificial intelligence algorithms are needed to determine the state of a plant based life support system. Multispectral machine vision and image processing can be used to sense plant features, including health and nutritional status.

Miles, Gaines E.↗

DOE OSTI2020

Deep Learning Prediction of Interspecies Interactions from Self-organized Spatiotemporal Patterns of Co-evolving Organisms

Microorganisms colonizing natural habits such as soils co-evolve to form specific spatial patterns through interspecies interactions. These self-organized patterns are a key ecological phenotype, which provides critical information on their interaction mechanisms. However, conventional network inference techniques that analyze species population data in bulk have yet to be extended to account for such spatial heterogeneity. Here we proposed supervised deep learning as a new network inference tool for predicting interspecies interactions from spatiotemporal patterns of microbial evolution. Due to lack of biological imaging data that can be used for training deep learning networks, we used in silico data generated from high-fidelity agent-based models to determine model structure and parameters. Even though networks were trained under simple configurations where interaction coefficients are assumed to be spatially invariant, we demonstrated that the resulting model can be utilized to successfully predict spatial variation of interactions in more complex domains (i.e., configured with a context-dependent mixture of interaction coefficients) as well as in simple domains without further training. In the further test against real biological data obtained through imaging experiments of a binary consortium (Pseudomonas fluorescens and a mutant of Escherichia coli), our model also predicted the dramatic shifts in interactions of the two organisms across different environmental contexts. Through various successful demonstrations in this work, the combined use of the agent-based model and machine learning algorithm provides a means to use new type of data - microscopic images - for extracting microbial interactions, therefore presenting itself as a useful tool for the analysis of more complex microbial community interactions.

Lee, Joon-Yong↗

DOE OSTI2023

Optimal Traffic Signal Control Using Priority Metric Based on Real-Time Measured Traffic Information

Optimizing traffic control systems at traffic intersections can reduce network-wide fuel consumption as well as improve traffic flow. While traffic signals have conventionally been controlled based on predetermined schedules, various adaptive control systems have been developed recently using advanced sensors such as cameras, radars, and LiDARs. By utilizing rich traffic information enabled by the advanced sensors, more efficient or optimal traffic signal control is possible in response to varying traffic conditions. This paper proposes an optimal traffic signal control method to minimize network-wide fuel consumption utilizing real-time traffic information provided by advanced sensors. This new method employs a priority metric calculated by a weighted sum of various factors, including the total number of vehicles, total vehicle speed, vehicle waiting time, and road preference. Genetic Algorithm (GA) is used as a global optimization method to determine the optimal weights in the priority metric. In order to evaluate the effectiveness of the proposed method, a traffic simulation model is developed in a high-fidelity traffic simulation environment called SUMO, based on a real-world traffic network. The traffic flow within this model is simulated using actual measured traffic data from the traffic network, enabling a comprehensive assessment of the novel optimal traffic signal control method in realistic conditions. The simulation results show that the proposed priority metric-based real-time traffic signal control algorithm can significantly reduce network-wide fuel consumption compared to the conventional fixed-time control and coordinated actuated control methods that are currently used in the modeled network. Additionally, incorporating truck priority in the priority metric leads to further improvements in fuel consumption reduction.

47 OTHER INSTRUMENTATION↗

DOE OSTI2025

Breeding of microbiomes conferring salt tolerance to plants

Microbiome breeding through host-mediated selection is a technique to artificially select for microbiomes conferring beneficial properties to plants. Using a systematic selection protocol that maximises the heritability of microbiome effects, transmission fidelity, and microbiome stability through multiple selection cycles, we previously developed root-associated microbial communities conferring sodium and aluminium tolerance to Brachypodium distachyon, a model for cereal crops. Here, we explore the physiological mechanisms underlying our selected microbiomes’ effect on plant fitness and analyse how our selection protocol shaped the composition and structure of these microbiomes. We analysed the effects of our selected microbiomes on plant fitness and tissue-nutrient concentration, then used 16S rRNA amplicon sequencing to examine microbial community composition and co-occurrence network patterns. Our sodium-selected microbiomes reduced leaf sodium concentration by ~ 50%, whereas the aluminium-selected microbiomes had no effect on leaf-tissue nutrient concentration, suggesting different mechanisms underlying the microbiome-mediated stress tolerance. By testing the selected microbiomes in a cross-fostering experiment, we show that our artificially selected microbiomes attained (a) ecological robustness contributing to transplantability (i.e. inheritance) of microbiome-encoded effects between plants; and (b) network features identifying key bacteria promoting salt-stress tolerance. Combined, these findings elucidate critical mechanisms underlying host-mediated artificial selection as a framework to breed microbiomes with targeted benefits for plants under salt stresses, with significant implications for sustainable agriculture.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2024

The role of emerging scientists in restoration ecology: insights from a SER2023 conference workshop

Emerging professionals are crucial in advancing ecological restoration by connecting newcomers with established leaders and blending new ideas with traditional practices. This paper highlights the vital role emerging scientists play in restoration ecology and the Society for Ecological Restoration (SER). A survey conducted during the SER2023 conference workshop, organized by the Students and Emerging Professionals committee, showed that emerging professionals contribute significantly to every stage of scientific work, from planning to publication. However, participants emphasized the scarcity of funding opportunities for non‐senior scientists, which limits academic growth. The workshop underscored the importance of nurturing emerging professionals to develop future leaders for SER and ensure continuity. Fostering non‐hierarchical and inclusive networking is key to engaging and empowering these professionals, ultimately contributing to the long‐term success of ecological restoration efforts.

Weidlich, Emanuela W. A.↗

DOE OSTI2023

Predicting ecosystem metaphenome from community metagenome: A grand challenge for environmental biology

Abstract Elucidating how an organism's characteristics emerge from its DNA sequence has been one of the great triumphs of biology. This triumph has cumulated in sophisticated computational models that successfully predict how an organism's detailed phenotype emerges from its specific genotype. Inspired by that effort's vision and empowered by its methodologies, a grand challenge is described here that aims to predict the biotic characteristics of an ecosystem, its metaphenome, from nucleic acid sequences of all the species in its community, its metagenome. Meeting this challenge would integrate rapidly advancing abilities of environmental nucleic acids (eDNA and eRNA) to identify organisms, their ecological interactions, and their evolutionary relationships with advances in mechanistic models of complex ecosystems. Addressing the challenge would help integrate ecology and evolutionary biology into a more unified and successfully predictive science that can better help describe and manage ecosystems and the services they provide to humanity.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2021

A novel approach to partitioning evapotranspiration into evaporation and transpiration in flooded ecosystems

Reliable partitioning of micrometeorologically measured evapotranspiration (ET) into evaporation (E) and transpiration (T) would greatly enhance our understanding of the water cycle and its response to climate change related shifts in local-to-regional climate conditions and rising global levels of vapor pressure deficit (VPD). While some methods on ET partitioning have been developed, their underlying assumptions make them difficult to apply more generally, especially in sites with large contributions of E. Here, we report a novel ET partitioning method using artificial neural networks (ANNs) in combination with a range of environmental input variables to predict daytime E from nighttime ET measurements. The study uses eddy covariance data from four restored wetlands in the Sacramento-San Joaquin Delta, California, USA, as well as leaf-level T data for validation. The four wetlands vary in their vegetation make-up and structure, representing a range of ET conditions. The ANNs were built with increasing complexity by adding the input variable that resulted in the next highest average value of model testing R 2 across all sites. The order of variable inclusion (and importance) was: VPD > gap-filled sensible heat flux (H_gf) > air temperature (T air ) > friction velocity (u * ) > other variables. The model using VPD, H_gf, T air , and u * showed the best performance during validation with independent data and had a mean testing R 2 value of 0.853 (averaged across all sites, range from 0.728 to 0.910). In comparison to other methods, our ANN method generated T/ET partitioning results which were more consistent with CO 2 exchange data especially for more heterogeneous sites with large E contributions. Further, our method improves the understanding of T/ET partitioning. While it may be particularly suited to flooded ecosystems, it can also improve T/ET partitioning in other systems, increasing our knowledge of the global water cycle and ecosystem functioning.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2025

A multifunctional sesquiterpene synthase integrates with cytochrome P450s to reinforce the terpenoid defense network in maize

Terpenoids, the largest and most structurally diverse class of plant natural products, play essential roles in maize defense and ecological interactions. In this study, we identified and functionally characterized a sesquiterpenoid-based defense pathway in maize centered on α-santalenoic acid, a pathogen-inducible sesquiterpenoid antibiotic. Using a combination of metabolite-based genome-wide association studies (mGWAS), linkage mapping, and heterologous expression assays, we identified ZmTPS9 as a multiproduct terpene synthase that primarily produces α-santalene and β-bisabolene. Sequence analysis and site-directed mutagenesis revealed that threonine at position 413 is critical for enzyme activity, with its deletion resulting in a complete loss of enzyme activity. The sesquiterpene hydrocarbons produced by ZmTPS9 are further oxidized by three cytochrome P450 monooxygenases, ZmCYP71Z16, ZmCYP71Z18, and ZmCYP71Z19, to yield antimicrobial metabolites including α-santalenoic acid, zealexin D1 (ZD1), and zealexin D2 (ZD2). Together, these findings demonstrate a convergent biosynthetic strategy in maize, where multiproduct terpene synthases and promiscuous P450s collaboratively generate a flexible and robust terpenoid defense network.

a-santalenoic acid↗

DOE OSTI2020

Landscape composition and configuration have scale-dependent effects on agricultural pest suppression

Increasing landscape heterogeneity (composition and configuration) can enhance natural enemy populations and support pest suppression in agricultural landscapes. Using a network-based data mining approach, we examined independent gradients of landscape composition and configuration at six spatial scales that were associated with pest suppression services measured at 32 sites in Michigan and Wisconsin, USA. We compared the relative effects of landscape composition and configuration across scales with those of local crop type (corn or grassland). We found that multiple gradients of configurational heterogeneity were independent of composition and strongly associated with pest suppression, with different configuration metrics being predictive of pest suppression depending on the spatial scales and regions considered. Landscapes that were more configurationally heterogeneous at smaller spatial scales consistently supported higher pest suppression. In Michigan, pest suppression increased in landscapes with high edge contrast between annual crops and surrounding habitats and high edge density of grassland within 250-500 m radii. In Wisconsin, pest suppression increased with large core area of grassland and high field density within a 250 m radius. The main compositional effect we found was a positive relationship between grassland cover and pest suppression occurring at larger spatial scales (1000-1500 m) and occurring in Wisconsin but not in Michigan. Our findings demonstrate that effects of landscape composition and configuration on pest suppression differ across spatial scales and vary regionally. The network-based data mining techniques used here could be useful for disentangling intercorrelated landscape metrics in a variety of other contexts in landscape ecology.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2021

Electric vehicle fast charging infrastructure planning in urban networks considering daily travel and charging behavior

Electric vehicles are a sustainable substitution to conventional vehicles. This work introduces an integrated framework for urban fast charging infrastructure to address the range anxiety issue. A mesoscopic simulation tool is developed to generate trip trajectories, and simulate charging behavior based on various trip attributes. The resulting charging demand is the key input to a mixed-integer nonlinear program that seeks charging station configuration. The model minimizes the total system cost including charging station and charger installation costs, and charging, queuing, and detouring delays. The problem is solved using a decomposition technique incorporating a commercial solver for small networks, and a heuristic algorithm for large-scale networks, in addition to the Golden Section method. The solution quality and significant superiority in the computational efficiency of the decomposition approach are confirmed in comparison with the implicit enumeration approach. Furthermore, the required infrastructure to support urban trips is explored for future market shares and technologies.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗

NASA NTRS2020

Neural Network Reflectance Prediction Model for Both Open Ocean and Coastal Waters

Remote sensing of global ocean color is a valuable tool for understanding the ecology and biogeochemistry of the worlds oceans, and provides critical input to our knowledge of the global carbon cycle and the impacts of climate change. Ocean polarized reflectance contains information about the constituents of the upper ocean euphotic zone, such as colored dissolved organic matter (CDOM), sediments, phytoplankton, and pollutants. In order to retrieve the information on these constituents, remote sensing algorithms typically rely on radiative transfer models to interpret water color or remote-sensing reflectance; however, this can be resource-prohibitive for operational use due to the extensive CPU time involved in radiative transfer solutions. In this work, we report a fast model based on machine learning techniques, called Neural Network Reflectance Prediction Model (NNRPM), which can be used to predict ocean bidirectional polarized reflectance given inherent optical properties of ocean waters. This supervised model is trained using a large volume of data derived from radiative transfer simulations for coupled atmosphere and ocean systems using the successive order of scattering technique (SOS-CAOS). The performance of the model is validated against another large independent test dataset generated from SOS-CAOS. The model is able to predict both polarized and unpolarized reflectances with an absolute error (AE) less than 0.004 for 99% of test cases. We have also shown that the degree of linear polarization (DoLP) for unpolarized incident light can be predicted with an AE less than 0.002 for 99% of test cases. In general, the simulation time of SOS-CAOS depends on optical depth, and required accuracy. When comparing the average speeds of the NNRPM against the SOS-CAOS model for the same parameters, we see that the NNRPM is able to predict the Ocean BRDF 6000 times faster than SOS-CAOS. Both ultraviolet and visible wavelengths are included in the model to help differentiate between dissolved organic material and chlorophyll in the study of the open ocean and the coastal zone. The incorporation of this model into the retrieval algorithm will make the retrieval process more efficient, and thus applicable for operational use with global satellite observations.

radiative transfer↗

DOE OSTI2022

Single-cell stable isotope probing in microbial ecology

Abstract Environmental and host-associated microbiomes are typically diverse assemblages of organisms performing myriad activities and engaging in a network of interactions that play out in spatially structured contexts. As the sum of these activities and interactions give rise to overall microbiome function, with important consequences for environmental processes and human health, elucidating specific microbial activities within complex communities is a pressing challenge. Single-cell stable isotope probing (SC-SIP) encompasses multiple techniques that typically utilize Raman microspectroscopy or nanoscale secondary ion mass spectrometry (NanoSIMS) to enable spatially resolved tracking of isotope tracers in cells, cellular components, and metabolites. SC-SIP techniques are uniquely suited for illuminating single-cell activities in microbial communities and for testing hypotheses about cellular functions generated for example from meta-omics datasets. Here, we illustrate the insights enabled by SC-SIP techniques by reviewing selected applications in microbiology and offer a perspective on their potential for future research.

Alcolombri, Uria (ORCID:0000000335615091)↗

DOE OSTI2021

Predictability of Seawater DMS During the North Atlantic Aerosol and Marine Ecosystem Study (NAAMES)

This work presents an overview of a unique set of surface ocean dimethylsulfide (DMS) measurements from four shipboard field campaigns conducted during the North Atlantic Aerosol and Marine Ecosystem Study (NAAMES) project. Variations in surface seawater DMS are discussed in relation to biological and physical observations. Results are considered at a range of timescales (seasons to days) and spatial scales (regional to sub-mesoscale). Elevated DMS concentrations are generally associated with greater biological productivity, although chlorophyll a (Chl) only explains a small fraction of the DMS variability (15%). Physical factors that determine the location of oceanic temperature fronts and depth of vertical mixing have an important influence on seawater DMS concentrations during all seasons. The interplay of biomass and physics influences DMS concentrations at regional/seasonal scales and at smaller spatial and shorter temporal scales. Seawater DMS measurements are compared with the global seawater DMS climatology and predictions made using a recently published algorithm and by a neural network model. The climatology is successful at capturing the seasonal progression in average seawater DMS, but does not reproduce the shorter spatial/temporal scale variability. The input terms common to the algorithm and neural network approaches are biological (Chl) and physical (mixed layer depth, photosynthetically active radiation, seawater temperature). Both models predict the seasonal North Atlantic average seawater DMS trends better than the climatology. However, DMS concentrations tend to be under-predicted and the episodic occurrence of higher DMS concentrations is poorly predicted. The choice of climatological seawater DMS product makes a substantial impact on the estimated DMS flux into the North Atlantic atmosphere. These results suggest that additional input terms are needed to improve the predictive capability of current state-of-the-art approaches to estimating seawater DMS.

54 ENVIRONMENTAL SCIENCES↗

NASA NTRS2021

Coastal California Water Resources: Assessing Estuarine Ecosystems in California for Improved Wetland Monitoring and Management

Estuaries are vital ecosystems that serve important ecological functions. The Marine Life Protection Act aims to protect these ecosystems by establishing a network of marine protected areas (MPAs), in part by requiring regulatory agencies to monitor estuary extent and health. However, California has 23 estuarine MPAs (EMPAs) and approximately 440,000 total acres of estuarine habitat and, therefore, ground-based data collection can be time and resource intensive. This project used remotely sensed data to examine the health of California EMPAs in an effort to supplement ground-based field measurements. Specifically using Landsat 8 Operational Land Imager (OLI), Sentinel-2 MultiSpectral Instrument (MSI), and Sentinel-1 C-band Synthetic Aperture Radar (C-SAR), this project assessed mouth state, inundation extent, turbidity, Chlorophyll-a, and colored dissolved organic matter (CDOM) for estuaries observable with these sensors. The Normalized Water Difference Index (NDWI) from Sentinel-2 MSI was capable of capturing estuary mouth state and inundation extent. Meanwhile, Landsat 8 OLI and Sentinel-2 MSI indicated a capacity to capture differences in water quality metrics coinciding with changes to estuary mouth state using algorithms applied in Google Earth Engine (GEE). The GEE California Estuary Assessment (CEA) tools will allow project partners to better monitor and understand estuarine dynamics and health.

Karina Alvarez↗

NASA NTRS2022

Sea Level Rise and City-Level Climate Action

Background: Climate change is the greatest threat to global health in the 21st century. Rising sea levels are one particularly concerning manifestation of this and many of the world’s largest cities are vulnerable to sea level rise (SLR). Thus, urban climate adaptation and mitigation policies are increasingly important to protect population health. Objectives: This study aimed to determine whether being at risk of SLR was associated with city-level climate action. It also aimed to assess the wider drivers of climate action in cities, in order to guide ongoing efforts to motivate climate action, assess public health preparedness and identify research gaps. Methods: This is an ecological cross-sectional study using secondary data from CDP, the Urban Climate Change Research Network (UCCRN), World Bank, United Nations Cities and EM-DAT (Emergency Events Database). The study population consisted of 517 cities who participated in CDP’s 2019 Cities Survey. Multivariable logistic regression was utilized to assess the relationship between risk of SLR and city-level climate action, and secondly, to assess the wider determinants of city-level climate action. Results: There was evidence of crude associations between risk of SLR and three outcome variables representing city-level climate action. However, after adjusting for confounding variables, these crude associations disappeared. World region, national income status and urban population were shown to be stronger predictors of city-level climate action. Conclusion: It is concerning for population health that there is no association demonstrated between risk of SLR and climate action. This could indicate a lack of awareness of the risks posed by SLR within urban governance. To fulfil their health protection responsibilities, it is essential that public health professionals take a leading role in advocating for climate action.

sea level rise↗

DOE OSTI2022

Machine learning analysis reveals relationship between pomacentrid calls and environmental cues

Sound production rates of fishes can be used as an indicator for coral reef health, providing an opportunity to utilize long-term acoustic recordings to assess environmental change. As acoustic datasets become more common, computational techniques need to be developed to facilitate analysis of the massive data files produced by long-term monitoring. Machine learning techniques demonstrate an advantage in the identification of fish sounds over manual sampling approaches. Here we evaluated the ability of convolutional neural networks to identify and monitor call patterns for pomacentrids (damselfishes) in a tropical reef region of the western Pacific. A stationary hydrophone was deployed for 39 mo (2014-2018) in the National Park of American Samoa to continuously record the local marine acoustic environment. A neural network was trained—achieving 94% identification accuracy of pomacentrids—to demonstrate the applicability of machine learning in fish acoustics and ecology. The distribution of sound production was found to vary on diel and interannual timescales. Additionally, the distribution of sound production was correlated with wind speed, water temperature, tidal amplitude, and sound pressure level. This research has broad implications for state-of-the-art acoustic analysis and promises to be an efficient, scalable asset for ecological research, environmental monitoring, and conservation planning.

59 BASIC BIOLOGICAL SCIENCES↗

NASA NTRS1999

Early animal evolution: emerging views from comparative biology and geology

The Cambrian appearance of fossils representing diverse phyla has long inspired hypotheses about possible genetic or environmental catalysts of early animal evolution. Only recently, however, have data begun to emerge that can resolve the sequence of genetic and morphological innovations, environmental events, and ecological interactions that collectively shaped Cambrian evolution. Assembly of the modern genetic tool kit for development and the initial divergence of major animal clades occurred during the Proterozoic Eon. Crown group morphologies diversified in the Cambrian through changes in the genetic regulatory networks that organize animal ontogeny. Cambrian radiation may have been triggered by environmental perturbation near the Proterozoic-Cambrian boundary and subsequently amplified by ecological interactions within reorganized ecosystems.

Non-NASA Center↗

NASA NTRS2022

The Marine Biodiversity Observation Network Plankton Workshops: Plankton Ecosystem Function, Biodiversity, and Forecasting—Research Requirements and Applications

Plankton functional diversity is at the core of various ecological processes, including productivity, carbon cycling and sequestration, nutrient cycling, interspecies interactions, food web dynamics and structure. Through these functions, plankton play a critical role in the health of the coastal and open ocean and provide essential ecosystem services. Yet, at present, our understanding of plankton dynamics is insufficient to project how climate change and other human-driven impacts affect the functional diversity of plankton. That limits our ability to predict how critical ecosystem services will change in the future and develop strategies to adapt to these changes.

Plankton↗