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At least 1,369 records · Page 76

The microbial rare biosphere: current concepts, methods and ecological principles

ABSTRACT Our ability to describe the highly diverse pool of low abundance populations present in natural microbial communities is increasing at an unprecedented pace. Yet we currently lack an integrative view of the key taxa, functions and metabolic activity which make-up this communal pool, usually referred to as the ‘rare biosphere’, across the domains of life. In this context, this review examines the microbial rare biosphere in its broader sense, providing an historical perspective on representative studies which enabled to bridge the concept from macroecology to microbial ecology. It then addresses our current knowledge of the prokaryotic rare biosphere, and covers emerging insights into the ecology, taxonomy and evolution of low abundance microeukaryotic, viral and host-associated communities. We also review recent methodological advances and provide a synthetic overview on how the rare biosphere fits into different conceptual models used to explain microbial community assembly mechanisms, composition and function.

Pascoal, Francisco↗

SDSS-IV MaNGA: Identification and multiwavelength properties of Type-1 AGN in the DR15 sample

ABSTRACT We present a method to identify type-1 active galactic nuclei (AGNs) in the central 3 arcsec integrated spectra of galaxies in the MaNGA DR15 sample. It is based on flux ratios estimates in spectral bands flanking the expected h α broad component h αBC. The high signal-to-noise ratio obtained (mean S/N = 84) permits the identification of h αBC without prior subtraction of the host galaxy (HG) stellar component. A final sample of 47 type-1 AGN is reported out of 4700 galaxies at z < 0.15. The results were compared with those from other methods based on the SDSS DR7 and MaNGA data. Detection of type-1 AGN in those works compared to our method goes from 26 per cent to 81 per cent. Spectral indexes were used to classify the type-1 AGN spectra according to different levels of AGN-HG contribution, finding 9 AGN-dominated, 14 intermediate, and 24 HG-dominated objects. Complementary data in NIR-MIR allowed us to identify type I AGN-dominated objects as blue and HG-dominated as red in the WISE colours. From NVSS and FIRST radio continuum data, we identify 5 HERGs (high-excitation radio galaxies) and 4 LERGs (low-excitation radio galaxies), three showing evidence of radio-jets in the FIRST maps. Additional X-ray data from ROSAT allowed us to build [O iii] and h αBC versus X-ray, NIR-MIR, and radio continuum diagrams, showing that L(h αBC) and L([O iii]) provide good correlations. The range in h αBC luminosity is wide 38 < logL(h αBC) < 44, with log FWHM(h αBC) ∼ 3–4, covering a range of Eddington ratios of −5.15 < log Lbol/LEdd < 0.70. Finally, we also identify and report ten possible changing-look AGN candidates.

Cortes-Suárez, Edgar↗

Enzymes in 3D: Synthesis, remodelling, and hydrolysis of cell wall (1,3;1,4)-β-glucans

Abstract Recent breakthroughs in structural biology have provided valuable new insights into enzymes involved in plant cell wall metabolism. More specifically, the molecular mechanism of synthesis of (1,3;1,4)-β-glucans, which are widespread in cell walls of commercially important cereals and grasses, has been the topic of debate and intense research activity for decades. However, an inability to purify these integral membrane enzymes or apply transgenic approaches without interpretative problems associated with pleiotropic effects has presented barriers to attempts to define their synthetic mechanisms. Following the demonstration that some members of the CslF sub-family of GT2 family enzymes mediate (1,3;1,4)-β-glucan synthesis, the expression of the corresponding genes in a heterologous system that is free of background complications has now been achieved. Biochemical analyses of the (1,3;1,4)-β-glucan synthesized in vitro, combined with 3-dimensional (3D) cryogenic-electron microscopy and AlphaFold protein structure predictions, have demonstrated how a single CslF6 enzyme, without exogenous primers, can incorporate both (1,3)- and (1,4)-β-linkages into the nascent polysaccharide chain. Similarly, 3D structures of xyloglucan endo-transglycosylases and (1,3;1,4)-β-glucan endo- and exohydrolases have allowed the mechanisms of (1,3;1,4)-β-glucan modification and degradation to be defined. X-ray crystallography and multi-scale modeling of a broad specificity GH3 β-glucan exohydrolase recently revealed a previously unknown and remarkable molecular mechanism with reactant trajectories through which a polysaccharide exohydrolase can act with a processive action pattern. The availability of high-quality protein 3D structural predictions should prove invaluable for defining structures, dynamics, and functions of other enzymes involved in plant cell wall metabolism in the immediate future.

59 BASIC BIOLOGICAL SCIENCES↗

Electrifying Airport GSE: Monte Carlo Grid Impacts

Airports globally are shifting from ICE-powered to electric Ground Support Equipment (eGSE) to enhance efficiency, reduce operational costs, and improve operator health. Leveraging predictable routes, flat terrain, and low operational speeds, airports provide ideal conditions for electrification. This study evaluates freight GSE electrification at Dallas-Fort Worth International Airport (DFW), USA, using the Agile@ platform, which integrates three analytical methods: Freight Facility Model (FFM), Activity-Structure-Intensity-Fuel (ASIF), and Monte Carlo simulations. Results from 10,000 simulations indicate modest but critical increases in electricity demand and significant variability in GSE energy consumption. These insights emphasize the importance of data-driven scheduling, targeted maintenance, and strategic infrastructure planning. For high-uncertainty scenarios, airports are advised to deploy buffer energy storage systems (battery banks), implement demand-response charging strategies, schedule flexible workforce shifts, and prioritize proactive maintenance-particularly for equipment with higher operational uncertainty, such as tug tractors with trailers. Agile@ thus offers a robust, scalable, and data-driven framework to optimize long-term GSE planning and enhance reliability across diverse airport environments.

Bose, Ranjan [ORNL] (ORCID:0009000791026327)↗

Cytochrome P450–catalyzed biosynthesis of furanoditerpenoids in the bioenergy crop switchgrass ( Panicum virgatum L.)

Specialized diterpenoid metabolites are important mediators of plant-environment interactions in monocot crops. To understand metabolite functions in plant environmental adaptation that ultimately can enable crop improvement strategies, a deeper knowledge of the underlying species-specific biosynthetic pathways is required. Furthermore, we report the genomics-enabled discovery of five cytochrome P450 monooxygenases (CYP71Z25-CYP71Z29) that form previously unknown furanoditerpenoids in the monocot bioenergy crop Panicum virgatum (switchgrass). Combinatorial pathway reconstruction showed that CYP71Z25-CYP71Z29 catalyze furan ring addition directly to primary diterpene alcohol intermediates derived from distinct class II diterpene synthase products. Transcriptional co-expression patterns and the presence of select diterpenoids in switchgrass roots support the occurrence of P450-derived furanoditerpenoids in planta. Integrating molecular dynamics, structural analysis and targeted mutagenesis identified active site determinants that contribute to the distinct catalytic specificities underlying the broad substrate promiscuity of CYP71Z25-CYP71Z29 for native and non-native diterpenoids.

59 BASIC BIOLOGICAL SCIENCES↗

Ensemble-function relationships to dissect mechanisms of enzyme catalysis

Decades of structure-function studies have established our current extensive understanding of enzymes. However, traditional structural models are snapshots of broader conformational ensembles of interchanging states. We demonstrate the need for conformational ensembles to understand function, using the enzyme ketosteroid isomerase (KSI) as an example. Comparison of prior KSI cryogenic x-ray structures suggested deleterious mutational effects from a misaligned oxyanion hole catalytic residue. However, ensemble information from room-temperature x-ray crystallography, combined with functional studies, excluded this model. Ensemble-function analyses can deconvolute effects from altering the probability of occupying a state (P-effects) and changing the reactivity of each state (k-effects); our ensemble-function analyses revealed functional effects arising from weakened oxyanion hole hydrogen bonding and substrate repositioning within the active site. Ensemble-function studies will have an integral role in understanding enzymes and in meeting the future goals of a predictive understanding of enzyme catalysis and engineering new enzymes.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

RxnRover/amlro

AMLRO (Active Machine Learning Reaction Optimizer) is an open-source framework designed to accelerate chemical reaction optimization using active learning with classical machine learning regression models. AMLRO integrates space-filling sampling strategies (e.g., Sobol and Latin Hypercube sampling) with iterative model training, prediction, and experiment selection to efficiently navigate complex reaction spaces. The platform supports multiple regression models, flexible multi-objective definitions, and user-defined parameter bounds, enabling data-efficient optimization from small initial datasets. AMLRO is designed for ease of use by experimentalists and can operate as a standalone decision-support tool or be integrated into closed-loop automated experimentation workflows.

Kulathunga, Dulitha Prasanna [Iowa State Universit↗

Readiness Evaluation for Sustained Operations

Readiness evaluation for sustained operations is a continuous function that progresses from overseeing establishment of five key programmatic elements during design and construction phases to monitoring the output of those elements performing during commissioning and operations. Continuously assessing readiness for sustained operations becomes an important business function for the U.S. Department of Energy’s Office of River Protection as competition for federal funds increases with increasing waste treatment operations throughout the Office of Environmental Management complex. The five key programmatic elements are as follows: Risk management – Risks and opportunities should prioritize continuous improvement initiatives and be informed by the design and technical authorities and stakeholder monitors. Continuous improvement – All levels of the project organization should exhibit commitment to continuous improvement and learning. Continuity of design and technical authorities – The authorities are responsible for managing knowledge for its effective use in the other elements. Stakeholder monitoring – Active and deliberate monitoring of stakeholder relationships. Sustained operations integrated business planning – Integrated business planning in a federal environment competitive for congressional funding.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

Implications of a regional resource adequacy program on utility integrated resource planning: Study for the Western United States

LBNL collaborated with the Western Interstate Energy Board and the University of Texas, Austin to investigate the implications of a regional resource adequacy (RA) program on utility integrated resource planning. This report is focused on an active policy discussion to develop a novel voluntary program to share capacity resource and improve RA in the Western Interconnection. This report identifies two RA components of IRP that will be highly impacted by a regional RA program: resource capacity accreditation and RA targets. There are at least four resources that will require specific attention for their capacity credit calculation: (1) variable renewable resources, (2) demand-side resources, (3) hydropower, and (4) contracts. It will then be necessary to decide on a RA target reliability metric (e.g., a planning reserve margin) that is at least the minimum requirement in IRPs to ensure consistency in RA requirement calculations. The report finds that load forecasting and transmission expansion analyses will be moderately impacted, but that most of IRP components will not be significantly impacted. The report includes (i) a review of traditional resource adequacy practices in IRP; (ii) a case study of an existing regional RA program that interacts with IRP (Southwest Power Pool) and (iii) an overview of the NWPP regional resource adequacy proposal that is the object of this work. This paper does not (1) advocate for or against a regional RA program for the NWPP, (2) make detailed design recommendations for this program, or (3) assess its benefits and costs.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Hanford Site Revegetation Monitoring Report for Fiscal Year 2022

This report describes the monitoring of areas revegetated by various contractors on the Hanford Site. Revegetation sites include those revegetated by the River Corridor Closure Contractor and CH2M Hill Plateau Remediation Company that were transitioned to Mission Support Alliance (MSA) in 2017. These sites, along with sites revegetated by MSA between 2017 and 2020, were transitioned to Hanford Mission Integration Solutions (HMIS) in 2021. HMIS performs revegetation monitoring activities for these transitioned sites and for sites revegetated by HMIS and other contractors in subsequent years to determine revegetation site success. This report contains data collected in 2022 documenting the recovery of revegetation areas associated with the Comprehensive Environmental Response, Compensation, and Liability Act of 1980 cleanup of National Priorities List waste sites and restoration of lands disturbed by ongoing mission activities at the Hanford Site in Richland, Washington. It contains vegetation monitoring data for 53 sites selected to be representative sites for areas planted between the years of fiscal year (FY) 2007 and FY 2022.

54 ENVIRONMENTAL SCIENCES↗

Firmware Tampering Detection in Heavy-Duty Vehicles through J1939 CAN Analysis

Modern heavy-duty vehicles rely on complex networks of Electronic Control Units (ECUs) that communicate using the J1939 protocol. While this system makes it easier to update and configure vehicle components, it also opens the door to serious cybersecurity risks if not properly secured. This work investigates the potential for firmware tampering through the J1939 communication protocol, which enables ECU configuration and reprogramming over the Controller Area Network (CAN) bus. By monitoring CAN traffic during legitimate maintenance operations and reverse-engineering OEM diagnostic software, we identified common and proprietary J1939 message identifiers, authentication patterns, and vulnerabilities within Unified Diagnostic Services (UDS). These findings demonstrate that inadequate authentication mechanisms can allow malicious actors to alter ECU firmware or disable safety functions, posing severe operational and safety risks. Our analysis contributes to the development of vehicle intrusion detection systems capable of recognizing abnormal reprogramming activity and future firmware fingerprinting methods to verify software integrity across ECUs. This work highlights the importance of standardizing secure firmware authentication across manufacturers to strengthen cyber resilience in heavy-duty vehicle systems.

33 ADVANCED PROPULSION SYSTEMS↗

CACTI Radar b1 Processing: Corrections, Calibrations, and Processing Report

The U.S. Department of Energy’s (DOE) Atmospheric Radiation Measurement (ARM) user facility deployed a large number of instruments to a region nearby the Sierra de Córdobas mountains in Argentina as part of the Cloud, Aerosol, and Complex Terrain Interactions (CACTI) field campaign (1). During this campaign, four radars were installed at a site outside of Villa Yacanto as shown in Figure 1. As part of a post-campaign effort to improve the usability of these data, a significant activity was undertaken towards the calibration, correction, and improvement of the data quality of these radar datastreams. This process in ARM nomenclature is referred to as generating a “b1” datastream. While these “b1” standards may imply different corrections or standards for various ARM instruments, for radars it refers to a datastream that has been calibrated (and cross-calibrated), including a serious effort to deliver the highest-quality (well-characterized) data possible. This report details (i) the status/quality of the original “a1” (raw) data, (ii) the corrections and calibrations that are applied to generate these b1 datastreams, (iii) the details of the applied algorithms and how radar offset/calibration numbers were determined for the eventual corrections, and (iv) the new and flexible plug-in-based processing system designed during CACTI for radar b1 activities (current, future) that interfaces with ARM’s Data Integrator (ADI) and high-performance computing (HPC) system.

47 OTHER INSTRUMENTATION↗

Guiding of a balloon-borne coronagraph

Discussion of the guidance system of a balloon-borne coronagraph designed for IR solar corona observations at an altitude of 36 km. The coronagraph has two telescopes, measures 6 m in length, weighs 73 kg, is stabilized by a three-axis system, and has a pointing precision of plus or minus 10 sec of arc. Three torque motors are used to activate the tracking servo system of the coronagraph. An integral control system is used to prevent a permanent instrumental error. The coronagraph has been tested in two balloon missions.

Li, T.-C.↗

Space Processing Applications - The new challenge

The impact of Skylab Space Processing Applications experiments upon ground based research laboratory capabilities is discussed. The findings of a few selected space processing Skylab experiments are summarized and explained. The objectives of the ASTP space processing experiments are summarized. NASA's plans for use of sounding rockets for space processing experiments are outlined briefly. The integration of NASA's Space Processing Program into an active planning effort for use of Shuttle is reviewed.

Montgomery, B. O.↗

Martian seismicity

During the Viking mission to Mars, the seismometer on Lander II collected approximately 0.24 earth years of observational data, excluding periods of time dominated by wind-induced Lander vibration. The 'quiet-time' data set contains no confirmed seismic events. A proper assessment of the significance of this fact requires quantitative estimates of the expected detection rate of the Viking seismometer. The first step is to calculate the minimum magnitude event detectable at a given distance, including the effects of geometric spreading, anelastic attenuation, seismic signal duration, seismometer frequency response, and possible poor ground coupling. Assuming various numerical quantities and a Martian seismic activity comparable to that of intraplate earthquakes, the appropriate integral gives an expected annual detection rate of 10 events, nearly all of which are local. Thus only two to three events would be expected in the observational period presently on hand and the lack of observed events is not in gross contradiction to reasonable expectations. Given the same assumptions, a seismometer 20 times more sensitive than the present instrument would be expected to detect about 120 events annually.

Goins, N. R.↗

Life sciences flight experiments program mission science requirements document. The first life sciences dedicated Spacelab mission, part 1

The Mission Science Requirements Document (MSRD) for the First Dedicated Life Sciences Mission (LS-1) represents the culmination of thousands of hours of experiment selection, and science requirement definition activities. NASA life sciences has never before attempted to integrate, both scientifically and operationally, a single mission dedicated to life sciences research, and the complexity of the planning required for such an endeavor should be apparent. This set of requirements completes the first phase of a continual process which will attempt to optimize (within available programmatic and mission resources) the science accomplished on this mission.

Rummel, J. A.↗

Advanced EVA system design requirements study: EVAS/space station system interface requirements

The definition of the Extravehicular Activity (EVA) systems interface requirements and accomodations for effective integration of a production EVA capability into the space station are contained. A description of the EVA systems for which the space station must provide the various interfaces and accomodations are provided. The discussion and analyses of the various space station areas in which the EVA interfaces are required and/or from which implications for EVA system design requirements are derived, are included. The rationale is provided for all EVAS mechanical, fluid, electrical, communications, and data system interfaces as well as exterior and interior requirements necessary to facilitate EVA operations. Results of the studies supporting these discussions are presented in the appendix.

Woods, T. G.↗