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All sourcesNASA NTRSDOE OSTI
DOE OSTI2025

Ptychographic reconstructions performed in real time and offline have equivalent quality

Abstract Ptychography is a burgeoning imaging technique that enables high-resolution, lensless reconstruction of complex samples by analysing overlapping diffraction patterns, making it invaluable in fields like materials science, biology, and nanotechnology. Real-time ptychographic reconstructions are gaining interest in the scientific community as they provide immediate feedback. Yet their potential to replace offline reconstructions remains uncertain, in part due to questions about the quality of the resulting images. This study quantitatively compares real-time and offline reconstructions at different overlap conditions. Offline reconstructions, using all diffraction patterns at once, and real-time reconstructions, where new frames are added to the reconstructions in small chunks as the diffraction patterns are recorded, were indistinguishable and identical in reconstruction quality. These results hold consistently across all tested overlap ratios. This study represents the first quantitative analysis of real-time ptychographic reconstruction using a growing dataset, demonstrating the potential for real-time reconstructions to replace or at least complement offline reconstructions.

Science & Technology - Other Topics↗
DOE OSTI2023

Exploring Multiscale Earth System and Human-Earth System Dynamics in the Puget Sound Region

With its mountain-to-coast hydroclimate, strong influence of Pacific Ocean weather systems and climate patterns, and unique land use history with strong rural-to-urban gradients, the Puget Sound region is a natural laboratory for studying a number of complex processes in, and interactions among, different Earth and human systems. A 1-year scoping study was initiated by the Earth and Environmental Systems Modeling program of the Department of Energy’s Office of Science Biological and Environmental Research. It was intended to elucidate and highlight the rich opportunities Puget Sound offers to advance our understanding of and ability to simulate Earth system changes and human-Earth system interactions. A literature review, multi-day community workshop, and external input were used to develop this scoping study report. The report first summarizes scientific understanding and knowledge gaps associated with major regional systems, including atmosphere and climate, the land surface, coastal and marine processes, and human systems, as well as how these systems are changing over time. It then highlights some of the most notable extreme events in the region, including heat waves, atmospheric rivers, droughts, and wildfires. Finally, key research opportunities for Earth and environmental systems modeling in, above, and around Puget Sound are highlighted.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

NCSU Flux Tower Data

NCSU Flux Tower Data Level b1: QC checks applied to measurements Data Format: CSV Description: See "instrument descripotion Site: Houston, TX; Tracking Aerosol Convection interactions ExpeRiment (HOU) Location: Houston, TX; AMF1 (main site for TRACER) Facility Code: M1 Category: Aerosol Properties Data Type: PI Data Source Instrument/Data: Sonic Anemometer, 3 Condensation Particle Counters, 1 SP2, 1 POPS Start Date: 2022-06-01 End Date: 2022-9-26 Contact PI: Markus Petters (mdpetter@ncsu.edu) Funding Source: DOE ASR award US Department of Energy, Office of Science, Biological and Environment Research (grant no. DE-SC 0021074) Instrument description The NCSU flux tower was located next to the AMF sampling pad. The flux tower consisted of a 10 m telescoping tower. Mounted at the top of the tower was a sonic anemometer (RM Young 8000) and a Krypton Hygrometer. A sample line (¼” conductive tubing) and communication line was laid to a trailer located underneath and slightly adjacent to the tower. The sample line brought aerosol inside the trailer at 4.5 L min-1, where it was distributed between 3 CPCs (TSI 3776c, Dc ~ 2.5 nm, TSI 3771, Dc ~10nm, and TSI 3772, Dc ~40 nm) with different size cuts. Also sampling was a printed particle optical spectrometer (POPS) and a single particle soot photometer (SP2). Please contact mdpetter@ncsu.edu for further information.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2025

Machine learning model inputs, outputs, and scripts associated with “Artificial intelligence-guided iterations between observations and modeling significantly improve environmental predictions”

NOTE: The manuscript associated with this data package is currently in review. The data may be revised based on reviewer feedback. Upon manuscript acceptance, this data package will be updated with the final dataset and additional metadata. This data package is associated with the manuscript “Artificial intelligence-guided iterations between observations and modeling significantly improve environmental predictions” (Malhotra et al., in prep). This effort was designed following ICON (integrated, coordinated, open, and networked) principles to facilitate a model-experiment (ModEx) iteration approach, leveraging crowdsourced sampling across the contiguous United States (CONUS). New machine learning models were created every month to guide sampling locations. Data from the resulting samples were used to test and rebuild the machine learning models for the next round of sampling guidance. Associated sediment and water geochemistry and in situ sensor data can be found at https://data.ess-dive.lbl.gov/datasets/doi:10.15485/1923689, https://data.ess-dive.lbl.gov/datasets/doi:10.15485/1729719, and https://data.ess-dive.lbl.gov/datasets/doi:10.15485/1603775. This data package is associated with two GitHub repositories found at https://github.com/parallelworks/dynamic-learning-rivers and https://github.com/WHONDRS-Hub/ICON-ModEx_Open_Manuscript. In addition to this readme, this data package also includes two file-level metadata (FLMD) files that describes each file and two data dictionaries (DD) that describe all column/row headers and variable definitions. This data package consists of two main folders (1) dynamic-learning-rivers and (2) ICON-ModEx_Open_Manuscript which contain snapshots of the associated GitHub repositories. The input data, output data, and machine learning models used to guide sampling locations are within dynamic-learning-rivers. The folder is organized into five top-level directories: (1) “input_data” holds the training data for the ML models; (2) “ml_models” holds machine learning (ML) models trained on the data in “input_data”; (3) “examples” contains files for direct experimentation with the machine learning model, including scripts for setting up “hindcast” run; (4) “scripts” contains data preprocessing and postprocessing scripts and intermediate results specific to this data set that bookend the ML workflow; and (5) “output_data” holds the overall results of the ML model on that branch. Each trained ML model resides on its own branch in the repository; this means that inputs and outputs can be different branch-to-branch. There is also one hidden directory “.github/workflows”. This hidden directory contains information for how to run the ML workflow as an end-to-end automated GitHub Action but it is not needed for reusing the ML models archived here. Please see the top-level README.md in the GitHub repository for more details on the automation. The scripts and data used to create figures in the manuscript are within ICON-ModEx_Open_Manuscript. The folder is organized into four folders which contain the scripts, data, and pdf for each figure. Within the “fig-model-score-evolution” folder, there is a folder called “intermediate_branch_data” which contains some intermediate files pulled from dynamic-learning-rivers and reorganized to easily integrate into the workflows. NOTE: THIS FOLDER INCLUDES THE FILES AT THE POINT OF PAPER SUBMISSION. IT WILL BE UPDATED ONCE THE PAPER IS ACCEPTED WITH ANY REVISIONS AND WILL INCLUDE A DD/FLMD AT THAT POINT. We thank the United States Forest Service, Washington Department of Fish and Wildlife, Washington Department of Natural Resources, Cowiche Canyon Conservatory, Washington State Parks and Recreation Commission (Scientific Research Permit #210901), and the Confederated Tribes and Bands of the Yakama Nation for access to field locations where the samples labeled “SSS” were collected. We also thank 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. WHONDRS consortium members were asked to provide any acknowledgments for the collection of samples labeled “CM” and the following is a list of acknowledgments that were submitted with their corresponding Site IDs: (MART) Research activities were conducted in part on the Wind River Experimental Forest within the Gifford Pinchot National Forest; (MP- 100379) Philadelphia is part of Lenapehoking, the ancestral homelands of the Lenape peoples; (MP-102398) Land surveyed is the ancestral homelands of the Nookhose'iinenno (Arapaho), Tsis tsis'tas (Cheyenne), and Nuuchu (Ute); (MP-100749 and MP- 100747) Georgia Coastal Ecosystem LTER, OCE-1832178; (SP-70 and SP-72) Eastern Shoshone, Shoshone-Bannock; (MP- 102944) Funded by Oregon Watershed Enhancement Board. On the traditional lands of the Confederated Tribes of the Siletz, Confederated Tribes of the Grand Rhonde, and the Clatsop-Nehalem Confederated Tribe; (MP- 100607) Holiday Creek is located on the traditional territory of the Monacan Indian Nation; (SP-45) Lafayette Blue Springs State Park; (MP-102420) NSF DEB-2016749; (MP-100019) New Hampshire Agriculture Experiment Station; (SP-35) Rayonier (land owner; https://www.rayonier.com/); (MP- 101276) US Department of Energy, Office of Science, Biological and Environmental Research, Subsurface Biogeochemical Research, Watershed Dynamics and Evolution SFA at ORNL; (MP- 103224) Watershed Dynamics and Evolution SFA at ORNL; (MP- 101584) Traditional lands of the Oceti Sakowin (Dakota, Lakota, Nakoda) and Anishinaabe Peoples.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2021

Microbial interactions with silicate glasses

Glass alteration in the presence of microorganisms has been a topic of research for over 150 years. Researchers from a variety of disciplines, including material science, biology, chemistry, geology, physics, and cultural heritage materials preservation have conducted experiments in this area to try and understand when, how, and why microorganism may interact and subsequently influence the alteration of glass. The breadth and depth of these studies are the topic of this review. This review presents a detailed history and a comprehensive overview of this field of research, while maintaining focus on the terrestrial alteration of anthropogenic silicate glasses. Within this manuscript is a schema for bio-interaction with silicate glasses and an outline of an evidence-based hypothesis on how these interactions may influence glass alteration processes. Topics discussed include microbial colonization of glass, development, and interactions of biofilms with glass surface, abiotic vs. biotic alteration processes, and signatures of bio-alteration. Future research needs and a discussion of practical drivers for this research are summarized.

36 MATERIALS SCIENCE↗
DOE OSTI2023

NCSU HTDMA data

NCSU HTDMA data Data Level b1: QC checks applied to measurements Data Format: CSV Description: See "instrument description Site: Houston, TX; Tracking Aerosol Convection interactions ExpeRiment (HOU) Location: Houston, TX; AMF1 (main site for TRACER) Facility Code: M1 Category: Aerosol Properties Data Type: PI Data Source Instrument/Data: Humidified Tandem Differential Mobility Analyzer; 2 Differential Mobility Analyzers (DMA1 and DMA2). Start Date: 2022-06-01 End Date: 2022-09-26 Contact PI: Markus Petters (mdpetter@ncsu.edu) Funding Source: DOE ASR award US Department of Energy, Office of Science, Biological and Environment Research (grant no. DE-SC 0021074) Instrument description The NCSU HTDMA was operated at a sheath-to-sample flow ratio of 5:1 L min−1. The HTDMA was configured to measure hygroscopic growth factors of dry particles with mobility diameters of D = 15, 20, 30, 40, and 50 nm at RH ~ 70%. A complete cycle for all diameters took ~30 minutes. A sample line brought aerosol inside the trailer at 2.5 L min-1, where it was distributed between NCSU RDMA (1.5 L min-1) and NCSU HTDMA (1 L min-1) lines. The sample line was dried with three silica-gel driers in series, and then neutralized with X-ray neutralizer. The sample line entered DMA1 (operated as an electrostatic classifier). Monodisperse particles with certain fractions were humidified with temperature controlled Nafion membrane immersed in water before entering DMA2 (operated in scanning mobility particle sizer). Please contact mdpetter@ncsu.edu for further information.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2025

Metagenome-assembled genomes measured at 3 depths during snowmelt period in East River, CO (March, May, and June, September 2017)

Snowmelt is a critical biogeochemical period that accounts for large nitrogen (N) export events from high-elevation watersheds. Soil microbial populations bloom and immobilize N during snowmelt, yet the population size crashes in spring, which releases a pulse of soil N. We sought to discover the N sources fueling this microbial bloom and determine the fate of N following microbial die-off. Here, focusing on the snowmelt period within a headwater catchment of the Upper Colorado River Basin (East River, CO), we deployed strain-resolved metagenomics to identify the metabolic pathways and processes that mobilize soil N during and after snowmelt. Soil metagenome samples were taken from 6 snowpits from 3 depths (0-5cm, 5-15cm, >15cm) at 4 time points during snowmelt period (March 2017, May 2017, and June 2017, September 2017) generating 48 metagenomes. We reconstructed 474 metagenome-assembled genomes (MAGs) across all metagenomes.All 48 metagenomes were sequenced at JGI and raw data can be found under JGI (Joint Genome Institute) GOLD Study Gs0135149. Metagenome assemblies from IMG under the same study were used for genome binning. This dataset (1) a zip file of 474 MAGs (as fasta files, Gs0135149_bins_tar.gz), (2) sample metadata file with sample IGSNs (International Generic Sample Numbers) (samples.csv), (3) bounding box coordinates for the sampled locations (Gs0135149.kml), (4) metagenome metadata file listing IMG/M (Integrated Microbial Genomes/Metagenomes) metagenome accessions linking samples to metagenomes (metagenomes.csv), (5) location metadata file (locations.csv), (6) file-level metadata file (flmd.csv) and (7) data dictionary (dd.csv) file.This work was supported by the Watershed Function Science Focus Area at Lawrence Berkeley National Laboratory funded by the US Department of Energy, Office of Science, Biological and Environmental Research under Contract No. DE-AC02-05CH11231.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2026

Vegetation classification map and covariates associated with NEON AOP survey, East River, CO 2018

This package includes geospatial data layers developed to investigate how environmental gradients—specifically topography and near-surface soil properties—drive the spatial arrangement of dominant plant communities in mountainous watersheds. The geospatial products, which support the analysis of these ecological relationships, are derived from airborne hyperspectral and LiDAR datasets acquired by the National Ecological Observatory Network (NEON) Airborne Observation Platform (AOP), in conjunction with an extensive ground field campaign conducted in summer 2018. This work is part of the DOE Watershed Function Science Focus Area (SFA) and features geospatial datasets developed based on observations and ground data collected at East River, Colorado, in collaboration with the National Ecological Observatory Network (NEON) Airborne Observation Platform (AOP) survey in June 2018. Classification Map: - Classification Map (PNG, GeoTIFF): Derived from hyperspectral and LiDAR airborne data using a machine learning approach. - Class Code Mapper (CSV): Associates pixel values with corresponding vegetation/non-vegetation classes. - Classification Reference Data (CSV): Reference data used in the machine learning procedure. LiDAR-Derived Products: - Topographical Metrics (GeoTIFFs): Elevation, slope, curvature, TWI, TPI, solar insolation, and canopy height model (CHM), smoothed with a 5x5 pixel window. Vegetation Indices: - GeoTIFFs of NDVI, NDNI, NDWI: Vegetation indices derived from hyperspectral data. Urban Masks: - Urban Mask (GeoTIFF): Applied to the mapping to convert bare soil classes to urban classes. Software Compatibility: GeoTIFFs: Can be visualized with GIS software or libraries that support GeoTIFF images. CSV Files: Can be opened with any software that handles comma-separated values. The FLMD file provides details and links to the source datasets used to derive the products. The manuscript (in the Method session) provides details on how each product was derived. This work was supported by the Watershed Function Science Focus Area at Lawrence Berkeley National Laboratory funded by the US Department of Energy, Office of Science, Biological and Environmental Research under Contract No. DE-AC02-05CH11231. Update on 2026-03-25: Since the original dataset publication date of 02/28/2020, this package has a new classification map derived by an improved methodology. This update also includes additional ground data that improved the representation of some of the communities. See the methods for further details on what has changed between versions.

2018 NEON and 2025 CHESS Campaigns↗
DOE OSTI2026

Learning neural representations for X-ray ptychography reconstruction with unknown probes

X-ray ptychography provides exceptional nanoscale resolution and is widely applied in materials science, biology, and nanotechnology. However, its full potential is constrained by the critical challenge of accurately reconstructing images when the illuminating probe is unknown. Conventional iterative methods and deep learning approaches are often suboptimal, particularly under the low-signal conditions inherent to low-dose and high-speed experiments. These limitations compromise reconstruction fidelity and restrict the broader adoption of the technique. In this work, we introduce the Ptychographic Implicit Neural Representation (PtyINR), a self-supervised framework that simultaneously addresses the object- and probe-recovery problem. By parameterizing both as continuous neural representations, PtyINR performs end-to-end reconstruction directly from raw diffraction patterns without requiring any pre-characterization of the probe. Extensive evaluations demonstrate that PtyINR achieves superior reconstruction quality on both simulated and experimental data, with remarkable robustness under challenging low-signal conditions. Furthermore, PtyINR offers a generalizable, physics-informed framework for addressing probe-dependent inverse problems, making it applicable to a wide range of computational microscopy problems.

36 MATERIALS SCIENCE↗
DOE OSTI2022

2022 AI Testbed Expeditions Report

By exploiting the coherent properties of a light source, coherent diffraction imaging (CDI) is able to obtain the sample image at a nanoscale resolution using the measured diffraction pattern. Bragg Coherent Diffraction Imaging (BCDI) has become valuable for recovering the displacement and strain field of crystals, providing a valuable tool in material science and solid-state physics. X-ray ptychography is another emerging CDI technique that can produce a high-resolution image of the extended sample and has become popular in many research areas (e.g., materials science, biology, electronics, and optics characterization). CDI including BCDI and ptychography has become an established technique in Synchrotron Facilities including the Advanced Photon Source (APS) and will greatly benefit from the 100x coherent flux increase of the upcoming APS Upgrade (APSU). The current image formation process in CDI employs iterative phase retrieval algorithms, which is a time-consuming and computationally expensive process. Especially after APSU, the traditional iterative methods will not be able to match the experimental data acquisition speed. We employ deep learning (DL) approach to replace the iterative approaches, therefore allowing hundreds of times faster recovery of the object. We developed AutoPhaseNN, a DL-based approach which learns to solve the inverse problem without labeled data. Taking 3D BCDI as a representative technique, AutoPhaseNN has been demonstrated to be one hundred times faster than traditional iterative phase retrieval methods while providing comparable image quality. The current network is trained with 64 x 64 x 64 data size, to achieve higher resolution imaging, we will need to scale the network to input and train/infer 3D arrays of size 256 x 256 x 256 (today) and of size 2560x2560x2560 (APSU). However, the scalability of the network is restricted due to the memory-intensive training process. To perform the training for a 256 x 256 x 256 data size, the required memory exceeds the capacity of the current machine. In this project, we explore using Sambanova system to train the network for the direct data inversion for CDI.

36 MATERIALS SCIENCE↗
DOE OSTI2024

Perspectives on AI Architectures and Codesign for Earth System Predictability

Abstract Recently, the U.S. Department of Energy (DOE), Office of Science, Biological and Environmental Research (BER), and Advanced Scientific Computing Research (ASCR) programs organized and held the Artificial Intelligence for Earth System Predictability (AI4ESP) workshop series. From this workshop, a critical conclusion that the DOE BER and ASCR community came to is the requirement to develop a new paradigm for Earth system predictability focused on enabling artificial intelligence (AI) across the field, laboratory, modeling, and analysis activities, called model experimentation (ModEx). BER’s ModEx is an iterative approach that enables process models to generate hypotheses. The developed hypotheses inform field and laboratory efforts to collect measurement and observation data, which are subsequently used to parameterize, drive, and test model (e.g., process based) predictions. A total of 17 technical sessions were held in this AI4ESP workshop series. This paper discusses the topic of the AI Architectures and Codesign session and associated outcomes. The AI Architectures and Codesign session included two invited talks, two plenary discussion panels, and three breakout rooms that covered specific topics, including 1) DOE high-performance computing (HPC) systems, 2) cloud HPC systems, and 3) edge computing and Internet of Things (IoT). We also provide forward-looking ideas and perspectives on potential research in this codesign area that can be achieved by synergies with the other 16 session topics. These ideas include topics such as 1) reimagining codesign, 2) data acquisition to distribution, 3) heterogeneous HPC solutions for integration of AI/ML and other data analytics like uncertainty quantification with Earth system modeling and simulation, and 4) AI-enabled sensor integration into Earth system measurements and observations. Such perspectives are a distinguishing aspect of this paper. Significance Statement This study aims to provide perspectives on AI architectures and codesign approaches for Earth system predictability. Such visionary perspectives are essential because AI-enabled model-data integration has shown promise in improving predictions associated with climate change, perturbations, and extreme events. Our forward-looking ideas guide what is next in codesign to enhance Earth system models, observations, and theory using state-of-the-art and futuristic computational infrastructure.

54 ENVIRONMENTAL SCIENCES↗
NASA NTRS2021

Space Biology Beyond LEO Instrumentation & Science Series - Science Working Group 2021 Annual Report

Human space exploration was never intended to stop within low Earth orbit (LEO). Although nearly all of biological research in space has taken place in LEO, on the Space Shuttle, International Space Station (ISS), and free-flyer CubeSat missions, NASA's recent shift in emphasis toward human exploration of the Moon and ultimately Mars necessitates a shift in the focus of its research in the biological sciences [1]. Specifically, in 2022 and beyond, the Division of Biological and Physical Sciences seeks to pivot toward a focus on Thriving In DEep Space (TIDES), furthering the fundamental research necessary for understanding risks and mitigation strategies for deep-space stressors on human crew, plants, and their microbiomes. This effort entails both research on model organisms to elucidate the molecular processes underlying the biological consequences of deep-space exposure, and research on the organisms that will be necessary companions to sustain life and facilitate resource utilization in long-duration missions.

R Craig Everroad↗
DOE OSTI2021

Ultra-Sharp Nanowire Arrays Natively Permeate, Record, and Stimulate Intracellular Activity in Neuronal and Cardiac Networks

Intracellular access with high spatiotemporal resolution can enhance the understanding of how neurons or cardiomyocytes regulate and orchestrate network activity and how this activity can be affected with pharmacology or other interventional modalities. Nanoscale devices often employ electroporation to transiently permeate the cell membrane and record intracellular potentials, which tend to decrease rapidly with time. Here, one reports innovative scalable, vertical, ultrasharp nanowire arrays that are individually addressable to enable long-term, native recordings of intracellular potentials. One reports electrophysiological recordings that are indicative of intracellular access from 3D tissue-like networks of neurons and cardiomyocytes across recording days and that do not decrease to extracellular amplitudes for the duration of the recording of several minutes. The findings are validated with cross-sectional microscopy, pharmacology, and electrical interventions. The experiments and simulations demonstrate that the individual electrical addressability of nanowires is necessary for high-fidelity intracellular electrophysiological recordings. This work advances the understanding of and control over high-quality multichannel intracellular recordings and paves the way toward predictive, high-throughput, and low-cost electrophysiological drug screening platforms.

36 MATERIALS SCIENCE↗
DOE OSTI2025

Computer Vision Pipeline for Image Analysis for Freeze‐Fracture Electron Microscopy: Rosette Cellulose Synthase Complexes Case

In materials science, plant biology, agriculture, and environmental research, the automated analysis of high-magnification, complex microscopy images, such as those generated by freeze-fracture electron microscopy (FF-TEM), remains a critical challenge that limits the scalability of data interpretation. We present a deep learning computer vision pipeline for high-throughput detection and morphological characterization analysis of cellulose synthase complexes (CSCs, or rosettes) in FF-TEM images. The pipeline integrates preprocessing, detection, human-in-the-loop verification, and semantic segmentation to quantify features such as rosette diameter and inter-lobe spacing. The approach was trained and tested on a curated dataset of high-resolution FF-TEM micrographs of Physcomitrium patens, expanded via strategic tiling and augmentation to over 650 images. We compare YOLOv8 and YOLOv9 architectures and demonstrate that YOLOv9 achieves superior performance in both localization accuracy (mAP50-95 = 0.854) and inference speed. The resulting distributions revealed biological variability consistent with prior manual studies, validating the approach for high-throughput applications. Our results show that the pipeline achieves human-expert level accuracy while dramatically reducing analysis time, enabling scalable, reproducible structural characterization of intramembrane protein complexes. The pipeline is broadly applicable to other domains requiring precise interpretation of complex microscopy data and establishes a foundation for future artificial intelligence (AI)-assisted workflows in biological imaging.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2022

Different Enzyme Conformations Induce Different Mechanistic Traits in HIV‐1 Protease

Abstract The influence of the dynamical flexibility of enzymes on reaction mechanisms is a cornerstone in biological sciences. In this study, we aim to 1) study the convergence of the activation free energy by using the first step of the reaction catalysed by HIV‐1 protease as a case study, and 2) provide further evidence for a mechanistic divergence in this enzyme, as two different reaction pathways were seen to contribute to this step. We used quantum mechanics/molecular mechanics molecular dynamics simulations, on four different initial conformations that led to different barriers in a previous study. Despite the sampling, the four activation free energies still spanned a range of 5.0 kcal ⋅ mol −1 . Furthermore, the new simulations did confirm the occurrence of an unusual mechanistic divergence, with two different mechanistic pathways displaying equivalent barriers. An active‐site water molecule is proposed to influence the mechanistic pathway.

Coimbra, João T. S.↗
DOE OSTI2023

Drought conditioning of rhizosphere microbiome influences maize water use traits

Background and Aims: Beneficial plant–microbe interactions can improve plant performance under drought; however, we know less about how drought-induced shifts in microbial communities affect plant traits. Methods: We cultivated Zea mays in fritted clay with soil microbiomes originating from contrasting environments (agriculture or forest) under two irrigation treatments (well-watered or water limited). Using this design, we investigated whether water conditioning was carried forward through the microbiome to affect a subsequent plant cohort that was subjected to either a well-watered or water limited treatment. Results: Regardless of the microbiome-origin, plants inoculated with a microbiome from a water limited legacy had traits that allowed them to avoid stress but conserve water. They produced longer roots to explore soil, generated greater soil dissolved organic carbon, potentially stimulating the microbiome, and slower soil water content loss during drought. A well-watered legacy resulted in plants that delayed permanent stomatal closure and higher photosynthetic nitrogen use efficiency. In plants with a forest-originated microbiome, a well-watered legacy and water treatment also resulted in higher rates of photosynthesis and stomatal conductance. Conclusion: These results demonstrate that soil microbiomes can be developed to influence plant drought performance, impacting crop resilience, using short-term microbial conditioning.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2020

Chapter 21: Sustainable Technologies for Seaweed Conversion to Biofuels and Bioproducts

Seaweeds are attractive candidates to supply the future sustainable, photosynthetic, bioenergy feedstocks thanks to their cultivation promise in offshore marine farms, with year-round production, and no external nutrient requirements. Despite this potential, there are significant challenges associated with realizing both the cultivation and harvesting logistics, as well as in developing an efficient conversion platform to fuels and products. Effective and scalable and economically viable conversion processes tailored to a seaweed are discussed in detail and gaps on identified needs for yield and efficiency improvements. Among the conversion processes discussed here, anaerobic fermentation of seaweeds to bioenergy products, including organic acids and biomass, is promising to disrupt the current bioenergy landscape.

anaerobic digestion↗
DOE OSTI2020

Microbial electrolysis cell recovery after inducing operational failure conditions

Microbial Electrolysis Cells (MECs) are often documented for their ability to produce hydrogen through new sources and new configurations. However, few studies attempt to document the recovery of the bioanode after being exposed to operational failure conditions. This study attempted to compare the behavior and recovery of MECs after being exposed to four operational failure conditions: acidification, aeration, osmotic shock, and voltage reversal. For each failure condition, three time points were tested: before failure, immediately after failure, and after recovery efforts. Of the modes tested, acidification caused the largest loss in performance and operational efficiency, while osmotic shock caused the second largest loss in performance. Aeration and voltage reversal caused negligible losses in performance immediately after failure conditions and after the recovery period. Aeration and voltage reversal had a minimal effect on the removal of individual compounds. However, acetate accumulated after acidification, and propionic acid accumulated after osmotic shock. Furthermore these findings could be useful for determining if failure will require more significant repair efforts in commercially deployed devices. While acidification created permanent losses to performance, if device failures like aeration, osmotic shock, and voltage reversal are caught early (less than 15 min), full recovery without bioanode replacement is likely.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗