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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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At least 325 records · Page 18
All sourcesNASA NTRSDOE OSTI
DOE OSTI2023

Crystal structure of MbnF: an NADPH-dependent flavin monooxygenase from Methylocystis strain SB2

Methanobactins (MBs) are ribosomally produced and post-translationally modified peptides (RiPPs) that are used by methanotrophs for copper acquisition. The signature post-translational modification of MBs is the formation of two heterocyclic groups, either an oxazolone, pyrazinedione or imidazolone group, with an associated thioamide from an X -Cys dipeptide. The precursor peptide (MbnA) for MB formation is found in a gene cluster of MB-associated genes. The exact biosynthetic pathway of MB formation is not yet fully understood, and there are still uncharacterized proteins in some MB gene clusters, particularly those that produce pyrazinedione or imidazolone rings. One such protein is MbnF, which is proposed to be a flavin monooxygenase (FMO) based on homology. To help to elucidate its possible function, MbnF from Methylocystis sp. strain SB2 was recombinantly produced in Escherichia coli and its X-ray crystal structure was resolved to 2.6 Å resolution. Based on its structural features, MbnF appears to be a type A FMO, most of which catalyze hydroxylation reactions. Preliminary functional characterization shows that MbnF preferentially oxidizes NADPH over NADH, supporting NAD(P)H-mediated flavin reduction, which is the initial step in the reaction cycle of several type A FMO enzymes. It is also shown that MbnF binds the precursor peptide for MB, with subsequent loss of the leader peptide sequence as well as the last three C-terminal amino acids, suggesting that MbnF might be needed for this process to occur. Finally, molecular-dynamics simulations revealed a channel in MbnF that is capable of accommodating the core MbnA fragment minus the three C-terminal amino acids.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

Ocean Energy: Markets - Currency - Impact. Dimension of & Choices in the Technology Development Space: Preprint

This paper presents considerations of the employment of ocean wave energy to support different energy demand side applications. The key aspect in these considerations is the wave energy supported achievable positive impact and associated tangible contribution in service of common societal good and of the natural commons. The level of impact that can be delivered is dependent on both, the level of contribution of the supported energy use application, and the compatibility and unique suitability of the wave energy resource and its characteristics with the needs of the application. Thus, a variety of ocean wave energy markets, the key value indicators or "currency' in which these markets trade the value delivered and the achievable positive impact, are reflected upon. Ocean wave energy supported acquisition of high quality ocean system data across a wide spectrum of system properties is identified as a highly impactful application enabling and/or improving a comprehensive range of impactful ocean system activities. The technology development process towards these markets and desired impacts requires relevant technology development progress guidance and metrics. Going beyond technology readiness levels and technology performance levels, the notion of further technology development progress scales towards high impact and high contribution are proposed. These scales and the associated technology properties can be regarded as additional technology development dimensions to span-up the technology development space in which desired system capability and functional requirement choices and subsequent ideation, innovation, research and technology development decisions can and are to be made.

data market↗
DOE OSTI2022

Enhanced Frequency Support Scheme of Generic Inverter-Based Resource Models for Renewable-Dominated Power Grids

The frequency response of SG-dominated power grids is predictable ahead of an occurrence of a frequency event because the frequency response of SGs is consistent, and it can be inferred from the swing equation [1]. However, increasing the portion of IBRs in an SG-dominated power grid might make the characteristics of the conventional power grids no longer valid because this changing resource mix affects grid dynamics and controls [2]. Thus, maintaining these characteristics greatly benefits the control and operation of the power grids with high penetration of IBRs. To maintain these characteristics in IBR-dominated power grids, IBRs should have frequency response capability similar to that of an SG. The WECC modeling validation subcommittee has developed generic IBR models for large system planning [3]-[5]. These models can represent various vendors' dynamic behavior for WTG, PV, and ESS [5]. The current generic IBR models approved by WECC can provide frequency response only from droop control loops in REPC models [6], [7]. The contribution of the loops is proportional to the frequency deviation from the nominal frequency. Thus, it presents an insufficient contribution to arrest frequency variation compared to the frequency response of SGs because it allows a high ROCOF in the early stage of frequency events. This shortfall will become greater as the PL of IBRs increases in power grids. Controller enhancement for the generic IBR models is required to secure the frequency stability under high PL of IBRs as in the SG-dominated power grids. This paper proposes a control extension for the generic IBR models to enhance the frequency support capabilities and discusses the classification of frequency support for the different types of IBR considering their operating constraints. An inertial control scheme is implemented in the REPC and REEC models of the generic IBR models to achieve these objectives. The inertial control scheme includes the following stages: Control area data acquisition, inertia time constant estimation, IBR-related constraint check, IBR contribution determination, and inertial response provision. In the scheme, a REPC acquires control area data from a system operator and estimates a total inertia time constant for the control area the applicable IBR power plant belongs. Then, the estimated inertial time constant is transferred to each IBR controller—REEC—within the power plant. Each REEC checks the availability of applicable IBR for inertial response participation. If the IBR is available, the REEC amplifies the estimated inertial time constant to utilize it for inertial response provision. In this way, the proposed inertial response scheme extends the functionality of the generic IBR models to provide SG-like frequency response within their constraints. Various scenarios considering different IBR types, IBR penetration levels, and frequency control schemes were simulated and compared in an IEEE 39-bus system using PSCAD simulator to verify the effectiveness of the proposed scheme.

Kim, Jinho↗
DOE OSTI2023

A Sub-Electron-Noise Multi-Channel Cryogenic Skipper-CCD Readout ASIC

The MIDNA application specific integrated circuit (ASIC) is a skipper-CCD readout chip fabricated in a 65 nm LP-CMOS process that is capable of working at cryogenic temperatures. The chip integrates four front-end channels that process the skipper-CCD signal and performs differential averaging using a dual slope integration (DSI) circuit. Each readout channel contains a pre-amplifier, a DC restorer, and a dual-slope integrator with chopping capability. The integrator chopping is a key system design element in order to mitigate the effect of low-frequency noise produced by the integrator itself, and it is not often required with standard CCDs. Each channel consumes 4.5 mW of power, occupies 0.156 mm${^2}$ area and has an input referred noise of 2.7${\mu\nu}_{rms}$. It is demonstrated experimentally to achieve sub-electron noise when coupled with a skipper-CCD by means of averaging samples of each pixel. Here, sub-electron noise is shown in three different acquisition approaches. The signal range is 6000 electrons. The readout system achieves 0.2${e^{-}}$ RMS by averaging 1000 samples with MIDNA both at room temperature and at 180 Kelvin.

1/f noise↗
DOE OSTI2021

Distributed electric field sensing using fibre optics in borehole environments

In the past decade, rapid advances in distributed optical fibre sensing technologies have made it possible to record various geophysical data (e.g. strain, temperature and pressure) continuously in both time and space along the fibre, providing an unprecedented quantity and spatial density of data compared to traditional geophysical measurements as well as reducing data acquisition cost. To date, no distributed fibre-based electromagnetic field sensing system has been implemented although electromagnetic sensing could have a broad range of applications to geophysical imaging and monitoring in borehole environments. The goal of this paper is to provide a theoretical feasibility study regarding the design and use of an electromagnetic sensing optical fibre for geophysical applications. First, we present the sensitivity analysis of a ‘hypothetical’ optical fibre coated with polyvinylidene fluoride, a polymer that provides relatively high piezoelectric properties, yet unlike ceramics, is flexible. Next, using a two-dimensional electromagnetic modelling algorithm, we simulate the earth electric-field-to-fibre-strain transfer function and estimate the theoretical sensitivity of the optical fibre to electric fields. Given the state-of-the-art distributed acoustic sensing strain sensitivities in the picometres strain range, our numerical modelling analysis suggests that a perfectly coupled polyvinylidene fluoride–coated optical fibre can measure electric field values in the mV/m to V/m amplitude range. We then apply a cylindrically symmetric modelling algorithm to simulate numerical models demonstrating the applicability of such a fibre in an oilfield environment. Scenarios investigated employ an electric field source and suggest that the measurements can be used to distinguish the oil versus water ratio with a fibre mounted inside a producing steel cased oil well as well as distinguishing between brine and hydrocarbon filled reservoir zones with a fibre located outside of the casing.

58 GEOSCIENCES↗
DOE OSTI2025

Advancing \textit{otsdaq}: Enhancements for Usability, Accuracy, and Robustness

High-energy physics (HEP) experiments require data acquisition (DAQ) systems that can orchestrate complex detector operations, high data throughput, and responsive, real-time feedback to operators. Traditional DAQ stacks, which are often bespoke, command-line driven and highly specific, impose large learning curves on users. The Off-The-Shelf Data Acquisition (\textit{otsdaq}) framework was created to address these issues by offering a highly customizable and scalable browser-based ’desktop’ environment, in which experiment-specific control and monitoring applications can be easily deployed and integrated. Although the initial development of the \textit{otsdaq} software was aimed at the Fermilab Test Beam Facility, \textit{otsdaq} is now being leveraged for broader deployment, including the upcoming Mu2e experiment, where real-time monitoring of field-programmable gate array (FPGA)-based Data Transfer Controllers (DTCs), Clock and Fanout (CFO) boards, and several other subsystems are critical. We contribute a set of targeted improvements to \textit{otsdaq}: bitmap visualization functionality for configured data, improved and corrected delta-based DTC throughput metrics, version control (VC)-backed source navigation for console messages, custom navigation hooks to eliminate disruptive user interface glitches, and copy-to-clipboard support for macro execution history. These changes improve usability, reduce debugging time, and increase accuracy in performance data as Mu2e moves toward commissioning.

Mohammed, A. [Unlisted, US]↗
DOE OSTI2025

Leveraging the Run 3 experience for the evolution of the ATLAS software-based readout towards HL-LHC

The High-Luminosity Large Hadron Collider (HL-LHC), scheduled to start operating in 2030, aims to increase the instantaneous luminosity by a factor of 10 compared to the LHC. To match this increase, the ATLAS experiment has been implementing a major upgrade program divided into two phases. The first phase (Phase-I), completed in 2022, introduced new trigger and detector systems that have been used during the Run 3 data taking period which began in July 2022. These systems have been used in conjunction with the new Data Acquisition (DAQ) Readout system, based on a software application called Software Readout Driver (SW ROD). SW ROD receives and aggregates data from the front-end electronics via the Front-End Link eXchange (FELIX) system and passes aggregated data fragments to the High-Level Trigger (HLT) system. During Run 3, SW ROD operates in parallel with the legacy Readout System (ROS) at an input rate of 100 kHz. For the Phase-II, the legacy ROS will be completely replaced with a new system based on the next generation of FELIX and an evolution of the SW ROD application called Data Handler. Data Handler has the same functional requirements as SW ROD but must be able to operate at an input rate of 1 MHz. To facilitate this evolution the SW ROD has been implemented using plugin architecture. This contribution presents the design and implementation of the SW ROD application for Run 3, along with the strategy for its evolution to the Phase-II Readout system. It discusses the lessons learned during Run 3 and describes the challenges that have been addressed to accomplish the demanding performance requirements of HL-LHC.

Kolos, Serguei [Univ. of California, Irvine, CA (U↗
DOE OSTI2023

Commissioning of the Mu2e Data AcQuisition System and the Vertical Slice Test of the Straw Tracker

The report discusses the commissioning of the DAQ system of the Mu2e experiment. We studied how the tracker works and especially the tracker readout. We used a generator to send pulses and we tried to understand the output and non-output of the DTC, in order to validate the event and run format and all the failure modes. In section one, we describe Charged Lepton Flavour Violation, the main purpose of Mu2e, in section two we describe Mu2e experiment. Section three presents the tracker description and readout, meanwhile section four the DAQ system and event building. In section five, we start explaining the analysis we have done on events and all the failure modes we discovered. In section six, we have done an analysis of the logger and boardreader rate, we validated the generator frequency in section seven and studied the number of hits in function of the channel number in section eight. To conclude we investigated the channel to channel time differences in section nine and in section ten we explain our Monte Carlo simulation, reproducing ROCs readout.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2022

California wildfire spread derived using VIIRS satellite observations and an object-based tracking system

Changing wildfire regimes in the western US and other fire-prone regions pose considerable risks to human health and ecosystem function. However, our understanding of wildfire behavior is still limited by a lack of data products that systematically quantify fire spread, behavior and impacts. Here we develop a novel object-based system for tracking the progression of individual fires using 375 m Visible Infrared Imaging Radiometer Suite active fire detections. At each half-daily time step, fire pixels are clustered according to their spatial proximity, and are either appended to an existing active fire object or are assigned to a new object. This automatic system allows us to update the attributes of each fire event, delineate the fire perimeter, and identify the active fire front shortly after satellite data acquisition. Using this system, we mapped the history of California fires during 2012–2020. Our approach and data stream may be useful for calibration and evaluation of fire spread models, estimation of near-real-time wildfire emissions, and as means for prescribing initial conditions in fire forecast models.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2021

Connect the Dots: In Situ 4-D Seismic Monitoring of CO 2 Storage With Spatio-Temporal CNNs

4-D seismic imaging has been widely used in CO 2 sequestration projects to monitor the fluid flow in the volumetric subsurface region that is not sampled by wells. Ideally, real-time monitoring and near-future forecasting would provide site operators with great insights to understand the dynamics of the subsurface reservoir and assess any potential risks. However, due to obstacles such as high deployment cost, availability of acquisition equipment, exclusion zones around surface structures, only very sparse seismic imaging data can be obtained during monitoring. That leads to an unavoidable and growing knowledge gap over time. The operator needs to understand the fluid flow throughout the project lifetime and the seismic data are only available at a limited number of times. This is insufficient for understanding reservoir behavior. To overcome those challenges, we have developed spatio-temporal neural-network-based models that can produce high-fidelity interpolated or extrapolated images effectively and efficiently. Specifically, our models are built on an autoencoder, and incorporate the long short-term memory (LSTM) structure with a new loss function regularized by optical flow. We validate the performance of our models using real 4-D post-stack seismic imaging data acquired at the Sleipner CO 2 sequestration field. We employ two different strategies in evaluating our models. Numerically, we compare our models with different baseline approaches using classic pixel-based metrics. We also conduct a blind survey and collect a total of 20 responses from domain experts to evaluate the quality of data generated by our models. Finally, via both numerical and expert evaluation, we conclude that our models can produce high-quality 2-D/3-D seismic imaging data at a reasonable cost, offering the possibility of real-time monitoring or even near-future forecasting of the CO 2 storage reservoir.

4-D seismic imaging↗
DOE OSTI2023

Small Reactors in Microgrids: Technology Modeling and Selection (Net-Zero Microgrid Program Project Report)

This report demonstrates the capabilities of the net-zero microgrid (NZM) Xendee platform for modeling an SR module with electricity, heat extraction and thermal storage in microgrids configurations. The model effectively captures the most important technical and economic considerations for SR technology specific analysis: cost and operational characteristics of SR technology and financial costs and incentives. The model can analyze multiple scenarios to establish metrics for cost-competitive and zero-carbon microgrids connected to the grid or completely isolated. The model is fully integrated within the Xendee platform for modeling and analysis of clean energy microgrids with storage and generation from renewable energy sources. The model captures the capabilities, constraints, and nuances of SR by incorporating parameters related to plant economics, design efficiency and performance, plant operation and component and fuel lifespan. The cost and operational parameters modeled in the SR module are specific to the technology selected for integration in the microgrid. Cost parameters recognize advanced nuclear technology for modular production and installation based on economies of scale from factory manufacture and related commissioning, and cost reduction through technology maturation—first-of-a-kind (FOAK) and nth-of-a-Kind (NOAK). The cost parameters include installation, operations and maintenance (O&M), fuel refueling cycle, and reactor life. Installation cost reflects economies of scale due to unit sizing at scale and colocation. O&M economies of scale for both fixed- and variable-cost fuel life-cycle costs are incurred at every refueling interval, with separate front- and back-end fuel costs, as well as waste-handling and disposition costs. This report investigates key characteristics of different SR technologies suitable for microgrid applications, including design principles, sizing, coolant properties, temperature ratings, fuel structures, and life-cycle considerations. This also includes fuel technologies applicable to these SR systems, alongside strategies for nuclear-waste and spent-fuel management and approaches to address safety, security, and proliferation challenges. Four primary groups of SR technologies are examined: water-cooled, liquid-metal-cooled, high-temperature gas-cooled, and molten-salt-cooled systems. In this report, an initial guideline for technology selection is established, aligning the characteristics of the technologies with the requirements of microgrids. The selection of technology in a microgrid is influenced by various factors, including financial capacity, location and accessibility, demand type and characteristics, reliability and resilience requirements, area constraints, and the lifespan of the microgrid. The types of electrical and non-electrical applications within the microgrid also play a significant role in technology selection. The characteristics of SRs, such as their smaller size, modularity, transportability, long refueling interval, improved safety features, ability to operate in autonomous or semi-autonomous mode, and provision of high-grade heat, are particularly appealing for microgrids. Furthermore, a list of considerations for implementing SRs in microgrids is outlined. The SR model is created to be continuously improved with the acquisition of actual data on investment and operational costs, experience with supply chains, production at scale, and field deployments. In the near term, performance data on applications in microgrids will become available from lessons learned from laboratory tests, such as those planned for the Microreactor Applications Research Validation and Evaluation Project (MARVEL), led by Idaho National Laboratory (INL). The SR model incorporates scenario data and known SR design specifications, enabling technoeconomic analysis for SR deployment in microgrids. It specifically considers the distinctive attributes of SRs as generators in technoeconomic studies. SRs can be modeled and analyzed with generation from renewable-energy sources, energy storage, and flexible loads over a range of functionality and applications. This offers a comprehensive tool for feasibility studies, scenario development, and sensitivity analysis for “what-if” consideration of any range of assumptions about SRs in microgrids and other aggregations of distributed-energy resources, including virtual power plants.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗
DOE OSTI2023

Deep Learning Model Segmentations on Computed Tomography 3D Reconstructions of Coffee Beans to Determine Void Ratio (U-Net) and Roast Level (LinkNet)

This project will evaluate the functionality of Object Research Dragonfly software’s user produced deep learning (DL) models on Computed Tomography (CT) scanned coffee beans from green (unroasted) through a dark roast. DL models will be expected to identify voids within the coffee beans, and identify the level of roast of the bean from the CT reconstruction. The scope of this project is intended to meet the Capstone Project requirements of University of California San Diego (UCSD) Structural Engineering master’s degree and offer useful insight on Dragonfly’s DL capability for LANL’s Non-Destructive Evaluation (NDE) CT team. The results of this project will be presented to the E-6 NDE group within LANL. Data acquisition was completed with a North Star Imaging (NSI) X-25 CT Cabinet.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2023

Binary pseudo-random array (BPRA) for inspection and calibration for cylindrical wavefront interferometry

High-accuracy metrology is vitally important in manufacturing ultra-high-quality free-form mirrors designed to manipulate X-ray light with nanometer-scale wavelengths. However, surface topography measurements are instrument dependent, and without the knowledge of how the instrument performs under the practical usage conditions, the measured data contain some degree of uncertainty. Binary Pseudo Random Array (BPRA) “white noise” artifact are effective and useful for characterizing the Instrument Transfer Function (ITF) of surface topography metrology tools and wavefront measurement instrument. BPRA artifact contains features with all spatial frequencies in the instrument bandpass with equal weight. As a result, power spectral density of the patterns has a deterministic white-noise-like character that allows direct determination of the ITF with uniform sensitivity over the entire spatial frequency range. The application examples include electron microscopes, x-ray microscopes, interferometric microscopes, and large field-of-view Fizeau Interferometers. Furthermore, we will introduce the application of BPRA method to characterizing the ITF of Cylindrical Wavefront Interferometry (CWI), by developing the BPRA artifact which matches the radius of curvature of the cylindrical wavefront. The data acquisition and analysis procedures for different applications of the ITF calibration technique developed are also discussed.

Munechika, K↗
DOE OSTI2020

Large-scale genome sequencing of mycorrhizal fungi provides insights into the early evolution of symbiotic traits

Mycorrhizal fungi are mutualists that play crucial roles in nutrient acquisition in terrestrial ecosystems. Mycorrhizal symbioses arose repeatedly across multiple lineages of Mucoromycotina, Ascomycota, and Basidiomycota. Considerable variation exists in the capacity of mycorrhizal fungi to acquire carbon from soil organic matter. Here, we present a combined analysis of 135 fungal genomes from 73 saprotrophic, endophytic and pathogenic species, and 62 mycorrhizal species, including 29 new mycorrhizal genomes. This study samples ecologically dominant fungal guilds for which there were previously no symbiotic genomes available, including ectomycorrhizal Russulales, Thelephorales and Cantharellales. Our analyses show that transitions from saprotrophy to symbiosis involve (1) widespread losses of degrading enzymes acting on lignin and cellulose, (2) co-option of genes present in saprotrophic ancestors to fulfill new symbiotic functions, (3) diversification of novel, lineage-specific symbiosis-induced genes, (4) proliferation of transposable elements and (5) divergent genetic innovations underlying the convergent origins of the ectomycorrhizal guild.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2024

Performance of plane wavefront Fizeau interferometers in power spectral density measurements with tilted plane optics

Binary pseudo-random array (BPRA) test samples are useful devices for calibrating the instrument transfer function (ITF) of Fizeau interferometers, interferometric microscopes, and other optical and non-optical surface and wavefront metrology instruments. The intrinsic white noise character of the power spectral density (PSD) function of the BPRA pattern simplifies the extraction of the ITF from the measured PSD. The ITF determined in a dedicated calibration experiment can be used to reconstruct the surface height profile from the measured data, effectively enhancing the instrument’s spatial resolution. For a high confidence reconstruction procedure, a reliable analytical model of the IFT is desirable. Usually, the model accounts for the contributions to the ITF related the imperfections of the instrument’s optical and detector systems. Here, we experimentally demonstrate that in the case of surface height metrology with Fizeau interferometers, the PSD measurements and, therefore, the efficacy of the ITF calibration of the tool, are strongly affected by the instrument data acquisition and processing procedures, as well as by the shape of the optic under test and its alignment with respect to the interferometer.

Yashchuk, V V↗
DOE OSTI2023

Structure-Driven Liquid Microjunction Surface-Sampling Probe Mass Spectrometry

The rhizosphere is the narrow region of soil surrounding the roots of plants that is influenced by root exudates, root secretions, and associated microbial communities. This region is crucial to plant growth and development and plays a critical role in nutrient uptake, disease resistance, and soil transformation. Understanding the function of exogenous compounds in the rhizosphere starts with determining the spatiotemporal distribution of these molecular components. Using liquid microjunction surface-sampling probe mass spectrometry (LMJ-SSP-MS) and microfluidic devices with attached microporous membranes enables in situ, nondisruptive, and nondestructive spatiotemporal measurement of exogenous compounds from plant roots. However, long imaging times (>2 h) can negatively affect plant heath and limit temporal studies. Here, we present a novel strategy to optimize the number and location of sampling sites on these microporous membrane-covered microfluidic devices. In conclusion, this novel, “structure-driven” sampling workflow takes into consideration the channel structure of the microfluidic device to maximize sampling from the channels and minimize acquisition time (~4× less time in some cases while providing similar chemical image accuracy), thus reducing stress on plants during in situ LMJ-SSP-MS analysis.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2024

Nutri‐cereal tissue‐specific transcriptome atlas during development: Functional integration of gene expression to identify mineral uptake pathways in little millet ( Panicum sumatrense )

SUMMARY Little millet (Panicum sumatrenseRoth ex Roem. & Schult.) is an essential minor millet of southeast Asia and Africa's temperate and subtropical regions. The plant is stress‐tolerant, has a short life cycle, and has a mineral‐rich nutritional profile associated with unique health benefits. We report the developmental gene expression atlas of little millet (genotype JK‐8) from ten tissues representing different stages of its life cycle, starting from seed germination and vegetative growth to panicle maturation. The developmental transcriptome atlas led to the identification of 342 827 transcripts. The BUSCO analysis and comparison with the transcriptomes of related species confirm that this study presents high‐quality, in‐depth coverage of the little millet transcriptome. In addition, the eFP browser generated here has a user‐friendly interface, allowing interactive visualizations of tissue‐specific gene expression. Using these data, we identified transcripts, the orthologs of which inArabidopsisand rice are involved in nutrient acquisition, transport, and response pathways. The comparative analysis of the expression levels of these transcripts holds great potential for enhancing the mineral content in crops, particularly zinc and iron, to address the issue of “hidden hunger” and to attain nutritional security, making it a valuable asset for translational research.

Plant Sciences↗
DOE OSTI2021

Crowdsourcing biocuration: The Community Assessment of Community Annotation with Ontologies (CACAO)

Experimental data about gene functions curated from the primary literature have enormous value for research scientists in understanding biology. Using the Gene Ontology (GO), manual curation by experts has provided an important resource for studying gene function, especially within model organisms. Unprecedented expansion of the scientific literature and validation of the predicted proteins have increased both data value and the challenges of keeping pace. Capturing literature-based functional annotations is limited by the ability of biocurators to handle the massive and rapidly growing scientific literature. Within the community-oriented wiki framework for GO annotation called the Gene Ontology Normal Usage Tracking System (GONUTS), we describe an approach to expand biocuration through crowdsourcing with undergraduates. This multiplies the number of high-quality annotations in international databases, enriches our coverage of the literature on normal gene function, and pushes the field in new directions. From an intercollegiate competition judged by experienced biocurators, Community Assessment of Community Annotation with Ontologies (CACAO), we have contributed nearly 5,000 literature-based annotations. Many of those annotations are to organisms not currently well-represented within GO. Over a 10-year history, our community contributors have spurred changes to the ontology not traditionally covered by professional biocurators. The CACAO principle of relying on community members to participate in and shape the future of biocuration in GO is a powerful and scalable model used to promote the scientific enterprise. It also provides undergraduate students with a unique and enriching introduction to critical reading of primary literature and acquisition of marketable skills.

59 BASIC BIOLOGICAL SCIENCES↗