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At least 631 records · Page 35
All sourcesNASA NTRSDOE OSTI
DOE OSTI2023

Synoptic Drivers of Atmospheric River Induced Precipitation Near Dronning Maud Land, Antarctica

Atmospheric rivers (ARs) that reach the Antarctic Ice Sheet (AIS) transport anomalous moisture from lower latitudes and can impact the AIS via extreme precipitation and increased downward longwave radiation. ARs contribute significantly to the interannual variability of precipitation over the AIS and thus are likely to play a key role in understanding future changes in the surface mass balance of the AIS. Dronning Maud Land (DML) is one of four maxima in AR frequency over coastal East Antarctica, with AR precipitation explaining 77% of the interannual variability in precipitation for this region. We employ a 16-node self-organizing map (SOM) trained with MERRA-2 sea-level pressure anomalies to identify synoptic-scale environments associated with landfalling ARs in and around DML. Node composites of atmospheric variables reveal common drivers of precipitation associated with ARs reaching DML including anomalous high-low surface pressure couplets, anomalously high integrated water vapor, and coastal barrier jets. Using a quasi-geostrophic framework, we find that upward vertical motion associated with the occlusion process of attendant cyclones dominates atmospheric lift in AR environments. We further identify mechanisms that explain the variability in AR precipitation intensity across nodes, such as the lift associated with the occlusion process of attendant cyclones and the spatial coincidence of ascent induced by the occlusion process and frontogenesis. Here, the latter suggests that ARs making landfall during the mature phase of cyclogenesis result in higher precipitation intensity compared to landfalling ARs that occur during the occluded phase.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2022

Drivers of Decadal Carbon Fluxes Across Temperate Ecosystems

Long-running eddy covariance flux towers provide insights into how the terrestrial carbon cycle operates over multiple timescales. Here, we evaluated variation in net ecosystem exchange (NEE) of carbon dioxide (CO 2 ) across the Chequamegon Ecosystem-Atmosphere Study AmeriFlux core site cluster in the upper Great Lakes region of the USA from 1997 to 2020. The tower network included two mature hardwood forests with differing management regimes (US-WCr and US-Syv), two fen wetlands with varying levels of canopy sheltering and vegetation (US-Los and US-ALQ), and a very tall (400 m) landscape-level tower (US-PFa). Together, they provided over 70 site-years of observations. The 19-tower Chequamegon Heterogenous Ecosystem Energy-balance Study Enabled by a High-density Extensive Array of Detectors 2019 campaign centered around US-PFa provided additional information on the spatial variation of NEE. Decadal variability was present in all long-term sites, but cross-site coherence in interannual NEE in the earlier part of the record became weaker with time as non-climatic factors such as local disturbances likely dominated flux time series. Average decadal NEE at the tall tower transitioned from carbon source to sink to near neutral over 24 years. Respiration had a greater effect than photosynthesis on driving variations in NEE at all sites. Declining snowfall offset potential increases in assimilation from warmer springs, as less-insulated soils delayed start of spring green-up. Higher CO 2 increased maximum net assimilation parameters but not total gross primary productivity. Stand-scale sites were larger net sinks than the landscape tower. Clustered, long-term carbon flux observations provide value for understanding the diverse links between carbon and climate and the challenges of upscaling these responses across space.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

The Role of Cold Pools in Modulating Convective Organization During the MJO

Abstract In this study, we investigate the role of cold pools in modulating convective organization throughout the Madden‐Julian Oscillation (MJO) life cycle using a modeling approach that combines Eulerian and Lagrangian techniques. First, we conduct a simulation using the soundings and forcing of the DYNAMO/AMIE campaign. The simulation shows a lag of several days between the precipitation rate peak time associated with MJO and the highest convective organization time. Second, to analyze the role of cold pools, we consider a series of 2‐day simulations conducted at different stages of the MJO. The simulation results suggest that cold pools are larger and last longer during the mature stages of the MJO, possibly because of decreased environmental surface latent heat fluxes and stronger downdrafts. These lead to the formation of moist rings at the leading edges of cold pools, facilitating the formation of more convective cores and increasing the degree of convective organization.

Geology↗
DOE OSTI2024

How Might the May 2015 Flood in the U.S. Southern Great Plains Induced by Clustered MCSs Unfold in the Future?

Abstract The historic 22–26 May 2015 flood event in Texas and Oklahoma was caused by anomalous clustered mesoscale convective systems (MCSs) that produced record‐breaking rainfall and $3 billion of damage in the region. A month‐long regional convection‐permitting simulation is conducted to reconstruct multiple clustered MCSs that lead to this flood event. We further use the pseudo global warming approach to examine how a similar event may unfold in a warmer climate and the driving physical factors for the changes. Tracking of MCSs in observations and simulations shows that the historical simulation reproduces the salient characteristics of the observed MCSs. In a warmer climate under a high‐emission (SSP5‐8.5) scenario, the Southern Great Plains is projected to experience a near surface warming of 4–6 K, accompanied by enhanced moisture transport by the strengthened Great Plains low‐level jet. A warmer and moister lower troposphere leads to 36%–59% larger convective available potential energy, supporting wider and more intense convective updrafts and rainfall production. Consistently, MCSs have wider convective areas and stronger rainfall intensities, producing 50% larger rain volumes during the mature stage. Extreme (99.5%) MCS rainfall frequency and amount will increase by threefold. However, MCS stratiform rain area decreases as a result of elevated stratiform cloud bases that lead to stronger sublimation and evaporation of precipitation in response to warming, resulting in reduced weak‐to‐moderate surface precipitation. Results suggest that global warming greatly increases precipitation intensity of clustered MCS events under strong synoptic influence, with much higher potential to produce serious floods without additional climate adaptation.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Weathering Incongruence in Mountainous Mediterranean Climates Recorded by Stream Lithium Isotope Ratios

Lithium isotope ratios (δ 7 Li) of rivers are increasingly serving as a diagnostic of the balance between chemical and physical weathering contributions to overall landscape denudation rates. Here, we show that intermediate weathering intensities and highly enriched stream δ 7 Li values typically associated with lowland floodplains can also describe small upland watersheds subject to cool, wet climates. This behavior is revealed by stream δ 7 Li between +22.4 and +23.5‰ within a Critical Zone observatory located in the Cévennes region of southern France, where dilute stream solute concentrations and significant atmospheric deposition otherwise mask evidence of incongruence. The water-rock reaction pathways underlying this behavior are quantified through a multicomponent, isotope-enabled reactive transport model. Using geochemical characterization of soil profiles, bedrock, and long-term stream samples as constraints, we evolve the simulation from an initially unweathered granite to a steady state weathering profile which reflects the balance between (a) fluid infiltration and drainage and (b) bedrock uplift and soil erosion. Enriched stream δ 7 Li occurs because Li is strongly incorporated into actively precipitating secondary clay phases beyond what prior laboratory experiments have suggested. Chemical weathering incongruence is maintained despite relatively slow reaction rates and moderate clay accumulation due to a combination of two factors. First, reactive primary mineral phases persist across the weathering profile and effectively “shield” the secondary clays from resolubilization due to their greater solubility. Second, the clays accumulating in the near-surface profile are relatively mature weathering byproducts. These factors promote characteristically low total dissolved solute export from the catchment despite significant input of exogenous dust.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Realistic Precipitation Diurnal Cycle in Global Convection-Permitting Models by Resolving Mesoscale Convective Systems

Accurately representing the precipitation diurnal cycle has long been a challenge for global climate models (GCMs). Here we evaluate the precipitation diurnal cycle in the DYAMOND global convection-permitting models (CPMs) and CMIP6 HighResMIP models. Comparison of the high- (25–50 km) and low-resolution (100–250 km) models with parameterized convection in HighResMIP shows that simply increasing model resolution does not noticeably improve the precipitation diurnal cycle. In contrast, CPMs can better capture the observed amplitude and timing of precipitation diurnal cycle. However, the simulated spatial variation of timing in CPMs is smaller than observed, leading to an exaggeration of the spatially averaged diurnal amplitude. The better-simulated precipitation diurnal cycle in the CPMs is tied to mesoscale convective systems (MCSs), which contribute about half of the total precipitation. The observed life cycle of MCSs, including initiation and mature stages, is well captured in the CPMs, leading to a more realistic precipitation diurnal cycle.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2025

Spatiotemporal Variations in the Characteristics of Mesoscale Convective Systems Over Indian Monsoon Zone

Here, this study examines cloud and precipitation properties of mesoscale convective systems (MCSs) in the Indian monsoon zone using 6 years of high-resolution satellite-based tracking data. MCSs exhibit strong regional and seasonal variations, peaking during the summer monsoon (June–September). Concentrated along a southeast-northwest band of the monsoon trough, MCS contribute 40%–70% of total precipitation and predominantly move westward at an average speed of 6.3 m s -1 . Long-lived MCSs (> 40 hr), although 10 times less frequent than short-lived MCSs (5–20 hr), produce 2–3 times more rainfall. Longer MCS lifespans and higher rainfall are associated with stronger deep-layer wind shear and enhanced lower free-tropospheric moisture at initiation. Land and ocean MCSs exhibit distinct diurnal cycles. Most land-based MCSs initiate around 16 LT and mature at 18 LT, whereas Bay of Bengal (BoB) MCSs initiate between 04 and 06 LT and peak by 14 LT. Convective precipitations from MCSs significantly surpasses that from non-MCSs systems, emphasizing their critical role in intense monsoon rainfall. Short- and long-lived MCSs showed distinct lifecycle evolution. Long-lived MCSs over the BoB show 37% larger cold-cloud shields, 44% larger precipitation feature areas, and 33% higher rain rates than their land counterparts, yielding 67% more total rainfall. These BoB MCSs also grow faster and experience more frequent cloud mergers early in their lifecycle. These findings offer critical insights into monsoonal MCSs lifecycle evolution, providing observational constraints for improving model simulations of monsoonal convection.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2025

A Closed Bay-Breeze Circulation and Its Lifecycle From TRACER With a New Orienteering Tape Recorder Diagram

A closed bay-breeze circulation (BBC) followed by a gulf-breeze front (GBF) was observed on 10 September 2022 during the Department of Energy's (DOE) Atmospheric Radiation Measurement (ARM) TRACER campaign. Using high-resolution X-band Scanning Cloud Radar (XSACR) and a newly developed orienteering tape recorder diagram, the study analyzed radar reflectivity and Doppler velocity to identify anomalies and track the evolution of these circulations. The BBC, a mesoscale system approximately 30-km long, 30-km wide, and 2-km deep, formed from enhanced horizontal convective rolls along the Galveston Bay coast, progressing northwestward under a 6 m s−1 onshore flow anomaly and reaching 1.5 km depth with return flow aloft. The inland penetration speed was 2 m s−1, driven by an observed 6-9 K land-water temperature contrast. The GBF, coupled to the BBC, intensified with additional southerly flow, penetrating further inland after the BBC collapsed. Passing over the TRACER field site, both fronts significantly impacted boundary layer thermodynamics, dynamics, and aerosol concentration. The BBC event exhibited four lifecycle stages-formation, development, maturation, and dissipation-driven by solar heating, wind field rotation, and interactions with convective eddies and the GBF. This study provides insights into the inland evolution of coastal breeze circulations and their interactions with environmental processes.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2026

Precipitation‐Buoyancy Relationships in the Life Cycle of Tropical Mesoscale Convective Systems

This study aims to establish process-level benchmarks linking Mesoscale Convective Systems (MCSs) at various stages of their life cycle to their thermodynamic environment. The relationship between MCS precipitation and an empirical buoyancy measure (B 𝐿 ) is examined using collocated satellite-observed MCS tracks and reanalysis data. A positive relationship is identified between the frequency of tropical MCSs and that of high B 𝐿 conditions. The buoyancy measure, integrating instability and entrainment, helps elucidate thermodynamic characteristics throughout the MCS life cycle. Environments with high instability and moderate subsaturation are frequently linked to the initial stage, while environments with low instability and near saturation are frequently linked to the mature stage. Stable and highly subsaturated environments are more likely associated with the termination of the life cycle. These associations are qualitatively similar for oceanic and land MCSs. Overall, the MCS-environment relationships can serve as observational benchmarks with which to diagnose MCS-resolving models.

Tsai, Wei‐Ming [University of California, Los Ange↗
DOE OSTI2026

Quasi‐Steady State Supersaturation: Do High Values Derived From ESCAPE Represent Real High Supersaturations and the Potential for Condensational Invigoration?

Deep convective clouds were intensively sampled during the Experiment of Sea Breeze Convection, Aerosols, Precipitation, and Environment (ESCAPE) with coordinated flights of the NRC Convair-580 and SPEC Learjet. A total of 219 updraft core segments were sampled over coastal Texas and Louisiana under diverse meteorological conditions. Median updraft properties included widths of ∼1 km, velocities of 4.8 m s −1 , droplet number concentrations of ∼400 cm −3 , and liquid water contents of 0.9 g m −3 . The limitations of using the quasi-steady state approximation to derive supersaturations were explored. Supersaturation (S QSS ) estimated from in situ observations under a quasi-steady state assumption averaged 0.4% but occasionally exceeded 2%, with values >1% (high supersaturations) identified as statistical outliers. Two case studies illustrated the conditions linked to high supersaturations. In a storm over the Gulf, median core S QSS reached 2.46% in the developing stage compared to 2.17% in the mature stage under similar thermodynamic conditions. In a storm over coastal Louisiana, S QSS peaked near 11% within a 13.7-m s −1 updraft, accompanied by predominantly supercooled liquid droplets at −13°C and exceptionally low diameter concentrations of 0.29 mm cm −3 . Bootstrap analysis of all sampled cores showed that high supersaturations are most probable in cold and mixed-phase regimes with moderate to strong updrafts and are strongly influenced by vertical velocity and droplet number concentrations. In conclusion, while extreme supersaturations (∼10%) were rare, their occurrence underscores the need for targeted multiplatform observations to resolve their spatiotemporal variability and assess their potential role in deep convective invigoration.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

Expression of macromolecular organic nitrogen degrading enzymes identifies potential mediators of soil organic N availability to an annual grass

Abstract Nitrogen (N) is frequently limiting to plant growth, in part because most soil N is present as polymeric organic compounds that are not readily taken up by plants. Microbial depolymerization of these large macromolecular N-substrates gradually releases available inorganic N. While many studies have researched and modeled controls on soil organic matter formation and bulk N mineralization, the ecological—spatial, temporal and phylogenetic—patterns underlying organic N degradation remain unclear. We analyzed 48 time-resolved metatranscriptomes and quantified N-depolymerization gene expression to resolve differential expression by soil habitat and time in specific taxonomic groups and gene-based guilds. We observed much higher expression of extracellular serine-type proteases than other extracellular N-degrading enzymes, with protease expression of predatory bacteria declining with time and other taxonomic patterns driven by the presence (Gammaproteobacteria) or absence (Thermoproteota) of live roots and root detritus (Deltaproteobacteria and Fungi). The primary chitinase chit1 gene was more highly expressed by eukaryotes near root detritus, suggesting predation of fungi. In some lineages, increased gene expression over time suggests increased competitiveness with rhizosphere age (Chloroflexi). Phylotypes from some genera had protease expression patterns that could benefit plant N nutrition, for example, we identified a Janthinobacterium phylotype and two Burkholderiales that depolymerize organic N near young roots and a Rhizobacter with elevated protease levels near mature roots. These taxon-resolved gene expression results provide an ecological read-out of microbial interactions and controls on N dynamics in specific soil microhabitats and could be used to target potential plant N bioaugmentation strategies.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2020

Synthetic antibodies against BRIL as universal fiducial marks for single-particle cryoEM structure determination of membrane proteins

We propose the concept of universal fiducials based on a set of pre-made semi-synthetic antibodies (sABs) generated by customized phage display selections against the fusion protein BRIL, an engineered variant of apocytochrome b562a. These sABs can bind to BRIL fused either into the loops or termini of different GPCRs, ion channels, receptors and transporters without disrupting their structure. A crystal structure of BRIL in complex with an affinity-matured sAB (BAG2) that bound to all systems tested delineates the footprint of interaction. Negative stain and cryoEM data of several examples of BRIL-membrane protein chimera highlight the effectiveness of the sABs as universal fiducial marks. Taken together with a cryoEM structure of sAB bound human nicotinic acetylcholine receptor, this work demonstrates that these anti-BRIL sABs can greatly enhance the particle properties leading to improved cryoEM outcomes, especially for challenging membrane proteins.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2020

The Archaeal Proteome Project advances knowledge about archaeal cell biology through comprehensive proteomics

Abstract While many aspects of archaeal cell biology remain relatively unexplored, systems biology approaches like mass spectrometry (MS) based proteomics offer an opportunity for rapid advances. Unfortunately, the enormous amount of MS data generated often remains incompletely analyzed due to a lack of sophisticated bioinformatic tools and field-specific biological expertise for data interpretation. Here we present the initiation of the Archaeal Proteome Project (ArcPP), a community-based effort to comprehensively analyze archaeal proteomes. Starting with the model archaeon Haloferax volcanii , we reanalyze MS datasets from various strains and culture conditions. Optimized peptide spectrum matching, with strict control of false discovery rates, facilitates identifying > 72% of the reference proteome, with a median protein sequence coverage of 51%. These analyses, together with expert knowledge in diverse aspects of cell biology, provide meaningful insights into processes such as N-terminal protein maturation, N -glycosylation, and metabolism. Altogether, ArcPP serves as an invaluable blueprint for comprehensive prokaryotic proteomics.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2020

Crystallographic structure of wild-type SARS-CoV-2 main protease acyl-enzyme intermediate with physiological C-terminal autoprocessing site

Abstract Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2), the pathogen that causes the disease COVID-19, produces replicase polyproteins 1a and 1ab that contain, respectively, 11 or 16 nonstructural proteins (nsp). Nsp5 is the main protease (M pro ) responsible for cleavage at eleven positions along these polyproteins, including at its own N- and C-terminal boundaries, representing essential processing events for subsequent viral assembly and maturation. We have determined X-ray crystallographic structures of this cysteine protease in its wild-type free active site state at 1.8 Å resolution, in its acyl-enzyme intermediate state with the native C-terminal autocleavage sequence at 1.95 Å resolution and in its product bound state at 2.0 Å resolution by employing an active site mutation (C145A). We characterize the stereochemical features of the acyl-enzyme intermediate including critical hydrogen bonding distances underlying catalysis in the Cys/His dyad and oxyanion hole. We also identify a highly ordered water molecule in a position compatible for a role as the deacylating nucleophile in the catalytic mechanism and characterize the binding groove conformational changes and dimerization interface that occur upon formation of the acyl-enzyme. Collectively, these crystallographic snapshots provide valuable mechanistic and structural insights for future antiviral therapeutic development including revised molecular docking strategies based on M pro inhibition.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2021

Mechanism of filament formation in UPA-promoted CARD8 and NLRP1 inflammasomes

NLRP1 and CARD8 are related cytosolic sensors that upon activation form supramolecular signalling complexes known as canonical inflammasomes, resulting in caspase-1 activation, cytokine maturation and/or pyroptotic cell death. NLRP1 and CARD8 use their C-terminal (CT) fragments containing a caspase recruitment domain (CARD) and the UPA (conserved in UNC5, PIDD, and ankyrins) subdomain for self-oligomerization, which in turn form the platform to recruit the inflammasome adaptor ASC (apoptosis-associated speck-like protein containing a CARD) or caspase-1, respectively. Here, we report cryo-EM structures of NLRP1-CT and CARD8-CT assemblies, in which the respective CARDs form central helical filaments that are promoted by oligomerized, but flexibly linked, UPAs surrounding the filaments. Through biochemical and cellular approaches, we demonstrate that the UPA itself reduces the threshold needed for NLRP1-CT and CARD8-CT filament formation and signalling. Structural analyses provide insights on the mode of ASC recruitment by NLRP1-CT and the contrasting direct recruitment of caspase-1 by CARD8-CT. We also discover that subunits in the central NLRP1 CARD filament dimerize with additional exterior CARDs, which roughly doubles its thickness and is unique among all known CARD filaments. Finally, we engineer and determine the structure of an ASC CARD –caspase-1 CARD octamer, which suggests that ASC uses opposing surfaces for NLRP1, versus caspase-1, recruitment. Together these structures capture the architecture and specificity of the active NLRP1 and CARD8 inflammasomes in addition to key heteromeric CARD-CARD interactions governing inflammasome signalling.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2021

Structure of papain-like protease from SARS-CoV-2 and its complexes with non-covalent inhibitors

The pandemic caused by Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) continues to expand. Papain-like protease (PLpro) is one of two SARS-CoV-2 proteases potentially targetable with antivirals. PLpro is an attractive target because it plays an essential role in cleavage and maturation of viral polyproteins, assembly of the replicase-transcriptase complex, and disruption of host responses. We report a substantive body of structural, biochemical, and virus replication studies that identify several inhibitors of the SARS-CoV-2 enzyme. We determined the high resolution structure of wild-type PLpro, the active site C111S mutant, and their complexes with inhibitors. This collection of structures details inhibitors recognition and interactions providing fundamental molecular and mechanistic insight into PLpro. All compounds inhibit the peptidase activity of PLpro in vitro, some block SARS-CoV-2 replication in cell culture assays. These findings will accelerate structure-based drug design efforts targeting PLpro to identify high-affinity inhibitors of clinical value.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2021

Oxidized sulfur-rich arc magmas formed porphyry Cu deposits by 1.88 Ga

Most known porphyry Cu deposits formed in the Phanerozoic and are exclusively associated with moderately oxidized, sulfur-rich, hydrous arc-related magmas derived from partial melting of the asthenospheric mantle metasomatized by slab-derived fluids. Yet, whether similar metallogenic processes also operated in the Precambrian remains obscure. Here we address the issue by investigating the origin, fO 2 , and S contents of calc-alkaline plutonic rocks associated with the Haib porphyry Cu deposit in the Paleoproterozoic Richtersveld Magmatic Arc (southern Namibia), an interpreted mature island-arc setting. We show that the ca. 1886–1881 Ma ore-forming magmas, originated from a mantle-dominated source with minor crustal contributions, were relatively oxidized (1–2 log units above the fayalite-magnetite-quartz redox buffer) and sulfur-rich. These results indicate that moderately oxidized, sulfur-rich arc magma associated with porphyry Cu mineralization already existed in the late Paleoproterozoic, probably as a result of recycling of sulfate-rich seawater or sediments from the subducted oceanic lithosphere at that time.

58 GEOSCIENCES↗
DOE OSTI2021

Structural coordination between active sites of a CRISPR reverse transcriptase-integrase complex

CRISPR-Cas systems provide adaptive immunity in bacteria and archaea, beginning with integration of foreign sequences into the host CRISPR genomic locus and followed by transcription and maturation of CRISPR RNAs (crRNAs). In some CRISPR systems, a reverse transcriptase (RT) fusion to the Cas1 integrase and Cas6 maturase creates a single protein that enables concerted sequence integration and crRNA production. To elucidate how the RT-integrase organizes distinct enzymatic activities, we present the cryo-EM structure of a Cas6-RT-Cas1—Cas2 CRISPR integrase complex. The structure reveals a heterohexamer in which the RT directly contacts the integrase and maturase domains, suggesting functional coordination between all three active sites. Together with biochemical experiments, our data support a model of sequential enzymatic activities that enable CRISPR sequence acquisition from RNA and DNA substrates. These findings highlight an expanded capacity of some CRISPR systems to acquire diverse sequences that direct CRISPR-mediated interference.

59 BASIC BIOLOGICAL SCIENCES↗