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DOE OSTI2026

Amazonian fog harbors viable microbes

Fog formation over tropical forests remains poorly characterized, despite its potential role in bioaerosol dispersion and ecosystem processes. Here, we analyzed fog samples collected at the Amazon Tall Tower Observatory using flow cytometry and culture-based techniques to characterize viable microbial communities. Microbial cell concentrations varied over an order of magnitude across 13 fog events, reaching up to 8 × 104 cells per ml of fog water. Flow cytometry consistently detected metabolically active cells, while culturing and mass spectrometry-based identification yielded eight viable bacterial species and seven fungal taxa. The bacteria Serratia marcescens, Ralstonia pickettii and Sphingomonas paucimobilis exhibited seasonal variations in prevalence. The fungal species identified were primarily mesophilic saprophytes and endophytes, commonly associated with soil and plant surfaces. Our findings indicate that fog harbors viable microbes, including Serratia marcescens and Ralstonia pickettii, which may imply a relevance of fog for microbial dispersal, colonization and nutrient cycling in the Amazon rainforest.

Godoi, Ricardo H. (ORCID:0000000247744870)↗

DOE OSTI2024

Federated Access from DOE Labs to Distributed Storage in the EIC Era of Computing

The Electron Ion Collider (EIC) collaboration and future experiment is a unique scientific ecosystem within Nuclear Physics as the experiment starts right off as a crosscollaboration between Brookhaven National Lab (BNL) & Jefferson Lab (JLab). As a result, this muti-lab computing model tries at best to provide services accessible from anywhere by anyone who is part of the collaboration. While the computing model for the EIC is not finalized, it is anticipated that the computational and storage resources will be made accessible to a wide range of collaborators across the world. The use of federated ID seems to be a critical element to the strategy of providing such services, allowing seamless access to each lab site computing resources. However, providing Federated access to a Federated storage is not a trivial matter and has its share of technical challenges. In this contribution, we focus on the steps we took towards the deployment of a distributed object storage system that integrates with Amazon S3 and Federated ID. We will first cover for and explain the first stage storage solutions provided to the EIC during the detector design phase. Our initial test deployment consisted of Lustre storage using MinIO, hence providing an S3 interface. High Availability load balancers were added later to provide the initial scalability it lacked. Performance of that system will be shown. While this embryonic solution worked well, it had many limitations. Looking ahead, the Ceph object storage is considered a top-of-the-line solution in the storage community - since the Ceph Object Gateway is compatible with the Amazon S3 API out of the box, our next phase will use a native S3 storage. Our Ceph deployment will consist of erasure coded storage nodes to maximize storage potential along with multiple Ceph Object Gateways for redundant access. We will compare performance of our next stage implementations. Finally, we will present how to leverage OpenID Connect with the Ceph Object Gateway’s to enable Federated ID access. We hope this contribution will serve the community needs as we move forward with cross-lab collaborations and the need for Federated ID access to distributed compute facilities.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

DOE OSTI2024

Accelerating science: The usage of commercial clouds in ATLAS Distributed Computing

The ATLAS experiment at CERN is one of the largest scientific machines built to date and will have ever growing computing needs as the Large Hadron Collider collects an increasingly larger volume of data over the next 20 years. ATLAS is conducting R&D projects on Amazon Web Services and Google Cloud as complementary resources for distributed computing, focusing on some of the key features of commercial clouds: lightweight operation, elasticity and availability of multiple chip architectures. The proof of concept phases have concluded with the cloud-native, vendoragnostic integration with the experiment’s data and workload management frameworks. Google Cloud has been used to evaluate elastic batch computing, ramping up ephemeral clusters of up to O(100k) cores to process tasks requiring quick turnaround. Amazon Web Services has been exploited for the successful physics validation of the Athena simulation software on ARM processors. We have also set up an interactive facility for physics analysis allowing endusers to spin up private, on-demand clusters for parallel computing with up to 4 000 cores, or run GPU enabled notebooks and jobs for machine learning applications. The success of the proof of concept phases has led to the extension of the Google Cloud project, where ATLAS will study the total cost of ownership of a production cloud site during 15 months with 10k cores on average, fully integrated with distributed grid computing resources and continue the R&D projects.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

DOE OSTI2024

A new data-driven map predicts substantial undocumented peatland areas in Amazonia

Tropical peatlands are among the most carbon-dense terrestrial ecosystems yet recorded. Collectively, they comprise a large but highly uncertain reservoir of the global carbon cycle, with wide-ranging estimates of their global area (441 025–1700 000 km 2 ) and below-ground carbon storage (105–288 Pg C). Substantial gaps remain in our understanding of peatland distribution in some key regions, including most of tropical South America. Here we compile 2413 ground reference points in and around Amazonian peatlands and use them alongside a stack of remote sensing products in a random forest model to generate the first field-data-driven model of peatland distribution across the Amazon basin. Our model predicts a total Amazonian peatland extent of 251 015 km 2 (95th percentile confidence interval: 128 671–373 359), greater than that of the Congo basin, but around 30% smaller than a recent model-derived estimate of peatland area across Amazonia. The model performs relatively well against point observations but spatial gaps in the ground reference dataset mean that model uncertainty remains high, particularly in parts of Brazil and Bolivia. For example, we predict significant peatland areas in northern Peru with relatively high confidence, while peatland areas in the Rio Negro basin and adjacent south-western Orinoco basin which have previously been predicted to hold Campinarana or white sand forests, are predicted with greater uncertainty. Similarly, we predict large areas of peatlands in Bolivia, surprisingly given the strong climatic seasonality found over most of the country. Very little field data exists with which to quantitatively assess the accuracy of our map in these regions. Data gaps such as these should be a high priority for new field sampling. This new map can facilitate future research into the vulnerability of peatlands to climate change and anthropogenic impacts, which is likely to vary spatially across the Amazon basin.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2026

Final DOE-ASR Report for the Project “Using LASSO to bridge the gap between model and observations and to learn about atmospheric convection”

Atmospheric convection spans a wide range of spatial and temporal scales and involves complex interactions with the surrounding dynamic and thermodynamic environment, particularly over tropical continental regions. These processes remain a major source of uncertainty in weather and climate models, including persistent biases in the diurnal cycle of convective precipitation that directly affect estimates of climate sensitivity. Addressing these challenges requires the combined use of high-resolution observations and cloud-resolving modeling frameworks. In this context, the DOE Atmospheric Radiation Measurement (ARM) program’s Large-Eddy Simulation ARM Symbiotic Simulation and Observation (LASSO) activity provides a powerful platform that pairs comprehensive observations with numerical simulations to enable process-level understanding of atmospheric convection. Within this context, this Research and Development Partnership Pilot (RDPP) project was designed to initiate and expand DOE ARM/ASR research capacity at minority-serving institutions, while advancing scientific understanding of convective processes over the Amazon rainforest. Consistent with the RDPP mission, the project emphasized partnership development, training, and workforce capacity building alongside exploratory research activities. On the scientific side, the project produced two peer-reviewed journal articles, and one manuscript currently under review (see list in section 3.1). Together, these studies combine long-term ARM observations and cloud-resolving and convection-permitting modeling to investigate the environmental controls on the shallow-to-deep convective transition during the Amazon wet season. The results demonstrate the central role of early-day moisture preconditioning and large-scale dynamical forcing in regulating isolated deep convection, provide mechanistic insight into convective evolution, and establish physically informed modeling frameworks for future sensitivity experiments. These scientific outcomes are described in sections 2.1 to 2.3 and were disseminated in 8 conference presentations (see section 3.2) and 5 invited talks (see section 3.3), reflecting broad engagement with our community. Equally important, the project achieved its RDPP capacity-building objectives (see section 2.4). A sustained research partnership was established among the University of Maryland, Baltimore County (UMBC), Morgan State University (MSU), and Howard University (HU), and extended to include collaboration with Pacific Northwest National Laboratory (PNNL). The project organized multiple multi-day training events focused on ARM data, LASSO simulations, and quantitative analysis methods, directly engaging students, postdoctoral researchers, and faculty across institutions. These activities broadened participation in ASR research and led to independent adoption of LASSO workflows by students beyond the immediate project team. Finally, the project successfully positioned the participating institutions to pursue future DOE research. Preliminary scientific results, coupled with strengthened partnerships and technical capacity, enabled the submission of follow-on proposals to DOE ASR funding opportunities. In this way, the project fulfilled the RDPP goal of seeding durable research capacity and laying the foundation for larger-scale, sustained engagement with DOE ARM and ASR programs.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2024

Environmental controls on isolated convection during the Amazonian wet season

The Amazon rainforest is a vital component of the global climate system, influencing the hydrological cycle and tropical circulation. However, understanding and modeling the evolution of convection in this region remain a scientific challenge. Here, we assess the environmental conditions associated with shallow, congestus, and isolated deep convection days during the wet season (December to April), employing measurements from the Green Ocean Amazon 2014–2015 (GoAmazon2014/5) experiment and large-scale wind fields from the constrained variational analysis. Composites of deep days show moister than average conditions below 3 km early in the morning. Analyzing the water budget at the surface through observations only, we estimated the water vapor convergence term as a residual of the water balance closure. Convergence remains nearly zero during the deep days until early afternoon (13:00 LST), when it becomes a dominant factor in the water budget. At 14:00 LST, the deep days experience a robust upward large-scale vertical velocity, especially above 4 km, which supports the shallow-to-deep convective transition occurring around 16:00–17:00 LST. In contrast, shallow and congestus days exhibit drier pre-convective conditions, along with diurnal water vapor divergence and large-scale subsidence that extend from the surface to the lower free troposphere. Moreover, afternoon precipitation exhibits the strongest linear correlation (0.6) with large-scale vertical velocity, nearly double the magnitude observed for other environmental factors, even moisture, at different levels and periods of the day. Precipitation also exhibits a moderate increase with low-level wind shear, while upper-level shear has a relatively minor negative impact on convection.

Environmental Sciences & Ecology↗

DOE OSTI2026

UCB-GLOBES: An open-access mass spectral database of identified and unidentified atmospheric organic compounds

Chemical characterization of atmospheric organic aerosols using gas chromatography with 70 eV electron ionization mass spectrometry (GC/EI-MS) has been used for decades in advancing molecular marker detection and identification, though primarily through suspect screening and/or targeted analyses. To advance non-targeted analyses of environmental samples, we have catalogued approximately 27 000 mass spectra (MS) of the trimethylsilyl derivatives of semi-volatile organic aerosol (OA) analytes in the open-access University of California Berkeley Goldstein Library of Organic Biogenic Environmental Spectra (UCB-GLOBES). Analytes were observed in ambient samples from the U.S. and the Central Amazon and/or laboratory simulations of secondary OA (SOA) formation. These samples are representative of OA under urban and biomass burning influences as well as SOA derived from biogenic precursors (e.g., isoprene, monoterpenes, sesquiterpenes) and biomass burning intermediates. MS are documented in UCB-GLOBES without regard to known chemical identity, annotated with extensive metadata such as sample source/experimental conditions, any structural information gained from MS analyses, and predicted chemical properties such as average carbon oxidation state and carbon number. UCB-GLOBES MS are compatible for importing into the NIST MS Search program, and we have also provided a Jupyter Notebook for MS visualization and comparisons. We demonstrate the utility of UCB-GLOBES through MS reanalyses of prior analytes observed in ambient data, finding a 20 % reduction in the number of analytes assigned to OA source categories reliant solely on time series correlation and an overall 11 % increase in new MS-based OA source categorization for the Southeast U.S. For 1513 analytes observed previously in the Central Amazon, we found 375 MS matches using UCB-GLOBES vs. 136 MS matches during prior analyses, representing a 14 % gain in newly confirmed or newly categorized OA species. While OA from laboratory oxidation experiments in UCB-GLOBES are highly diverse chemically, on average only 29 % of UCB-GLOBES MS have a mass spectral match to another MS entry in UCB-GLOBES and/or in databases of known compounds (i.e. NIST MS Database, Adams Essential Oil, MANE Flavor and Fragrance Company). This indicates that roughly 70 % of UCB-GLOBES MS are unique thus far, not observed more than once among the laboratory oxidation samples and ambient data in UCB-GLOBES MS. Further, only 18 % can be positively identified using these databases or known authentic standards. This points to a large gap between these laboratory simulations and ambient OA. Overall, the UCB-GLOBES database can be utilized for improving confidence in OA source categorization and/or identification, novel chemical marker discovery, tracking chemical diversity, de novo structure and properties prediction, and improving MS search and matching algorithms. This can ultimately inform future research priorities for the chemical characterization of atmospheric organic samples.

Mass spectrometry↗

NASA NTRS1982

A satellite magnetic model of northeastern South American aulacogens

Magnetic modeling of the Amazon River and Takatu Aulacogens in northeastern South America illustrate the utility of satellite magnetic data in characterizing the properties and structure of the lithosphere. Specifically, reduction of preliminary Magsat scalar magnetic anomaly data to an equivalent condition of vertical polarization shows a general correlation between magnetic anomaly minima and the Amazon River and Takatu Aulacogens. Surface gravity data demonstrate a correlative positive anomaly. Spherical earth modeling of the magnetic data indicates a less magnetic crust associated with the aulacogens which is compatible with previous studies over the Mississippi River Aulacogen and Rio Grande Rift in North America.

Longacre, M. B.↗

NASA NTRS1984

Systematic data interpretation of remote sensing in the reception of hydrocarbons, volume 1

The utilization of MSS-LANDSAT and RADAR imagery in the definition of morphostructural anomalies, which are indicative of hydrocarbon entrapment sites in the limit of the Middle and Lower Amazons basins was systemized. The identification and classification of the morphostructural anomalies were accomplished by means of the drainage network interpretation, based on the criteria previously proposed. Thirty anomalies were recognized, being subdivided into twenty domes, two fault controlled domes, six structural depressions, one fault controlled structural depression and one structure developed on a tilted fault block. Many anomalies are not randomly located. Rather, they seem to be aligned according to directions ENE and NNW, suggesting the presence of morphstructural trends in this part of the Amazons Basin. Significant orientations of lineaments were determined through statistical analysis, which defined many regional trends. The directions coincide with morphostructural trends orientations and with the directions of important structures in the Precambrian basement.

Demiranda, F. P.↗

NASA NTRS1988

Trace gas exchanges and convective transports over the Amazonian rain forest

The NASA Amazon Boundary Layer Experiment (ABLE 2A) based in Manaus, Brazil, in July and August 1985, is used to examine meteorological processes responsible for the vertical and horizontal transport of biogenic and anthropogenic trace gases generated over the Amazon basin. Direct sampling of the surrounding environment of deep convective clouds shows marked changes in the vertical distribution of the lower and midtroposphere concentration of O3 and such surface-derived species as CO, CO2, and NO. Thermodynamic observations, together with two-dimensional cloud model simulations, confirm vertical transports within the convection and provide a basis for an estimation of the magnitude and efficiency of cloud upward and downward exchanges. A distinction is drawn between local changes due to convective updrafts and downdrafts and convective overturning as a net result of the storm processes. Marked variability is seen in trace gas concentrations along horizontal flight paths in the vicinity of the convection. Interpretation of simultaneously measured thermodynamic quantities and trace gas concentrations provide the information to infer the presence and direction of atmospheric transports and/or the presence of anthropogenic influences.

Garstang, Michael↗

NASA NTRS1989

Observation of hydrological features with Nimbus-7 37 GHz data, applied to South America

The microwave polarization difference temperature (MPDT) prepared from 37 GHz Scanning Multifrequnecy Microwave Radiometer (SMMR) data from the Nimbus-7 satellite allows a unique vision of hydrological features, especially of humid areas. From the series of monthly images from 1979 to 1985 the major hydrological features of four major river basins of South America are briefly examined. These include rivers of the Amazon, La Plata, Orinoco and Sao Francisco, wetlands in the La Plata and Amazon basins and floods in the La Plata basin. Many hydrological features appear much as they do on conventional maps. An interesting prespective can be derived from the ways in which they differ from conventional maps.

Giddings, L.↗

NASA NTRS1990

Sources and sinks of formic, acetic, and pyruvic acids over central Amazonia. II - Wet season

Potential sources and sinks of formic, acetic, and pyruvic acids over the Amazon forest were investigated using a photochemical model and data collected on gas phase concentrations of these acids in the forest canopy, boundary layer, and free troposphere over the central Amazon Basin during the 1987 wet season. It was found that the atmospheric reactions previously suggested in the literature as sources of carboxylic acids (i.e., the gas phase decomposition of isoprene, the reaction between CH3CO3 and a peroxide, and aqueous phase oxidation of CH2O) appear to be too slow to explain the observed concentrations, suggesting that other atmospheric reactions, so far unidentified, could make a major contribution to the carboxylic acid budgets.

Talbot, R. W.↗

NASA NTRS1990

Mechanisms of nocturnal exchange between the rain forest and the atmosphere

A number of events that lead to nocturnal turbulent mixing between the Amazon rain forest and the atmosphere were observed. Two mechanisms that weaken the stable nocturnal thermal inversion at canopy top are identified with nocturnal release of carbon dioxide and concurrent heat flux into and moisture flux out of the Amazon forest canopy. In the first mechanism, abrupt onset of cloudiness interrupts nocturnal radiative cooling, leading to a period with lowered Richardson number and enhanced heat, moisture, and carbon dioxide fluxes. Significant exchange between the forest canopy and the atmosphere can also occur even on totally clear nights. On these nights, occasional nocturnal increases in the wind speed above the canopy stimulate vertical oscillations in the canopy layer that are both amplitude- and frequency-modulated during the event. A simple model is presented to support the postulate that these oscillations result from a resonant interaction, hypothesized to be a consequence of a vertically fluctuating pressure gradient force operating on a deepening stable layer near canopy top. Model results indicate that the recovery of the layer takes approximately twice as long as the period of enhanced wind that produced the event.

Fitzjarrald, David R.↗

NASA NTRS1990

Rainfall and surface kinematic conditions over central amazonia during ABLE 2B

Rainfall, rainfall systems, and surface kinematics of the central Amazon basin wet season are investigated using meteorological and chemical data collected during the wet season Amazon Boundary Layer Experiment (ABLE) near Manaus, Brazil. Through analysis of (GOES-West) imagery, it is determined that, based on location of the initial development, there are three main types of convective systems which influence a mesoscale network near Manaus, namely the Coastal Occurring Systems (COS), the Basin Occurring Systems (BOS), and the Locally Occurring Systems (LOS). Chemical analysis of rainwater delivered by these systems shows significant differences in concentrations of formate, acetate, pyruvate, sulfate, and hydrogen ion, and measurements of aerosol concentrations near Manaus show large influxes of aerosols into central Amazonia after passage of BOS and COS. Results of satellite based classification of the rain-producing systems are discussed.

Greco, Steven↗

NASA NTRS1991

Atmospheric weather regimes over tropical South America

Infrared radiance measurements by the GOES-6 satellite during April 1986 through April 1987 were used to characterize and identify distinct regimes of persistent large-scale cloudiness patterns over the Amazon Basin. It is suggested that the energetics of the tropical troposphere over the Amazon Basin can be directly related to the GOES large-scale cloudiness patterns. The geometry and persistence of the cloud patterns are influenced by shifts in general circulation features and are likely modulated by 4- to 5-day and 40- to 60-day waves. Diurnal forcing effects are more pronounced during weather regimes characterized by prominently clear skies over land areas.

Connors, Vickie S.↗

NASA NTRS1994

Human impacts on soil carbon dynamics of deep-rooted Amazonian forests

Deforestation and logging degrade more forest in eastern and southern Amazonia than in any other region of the world. This forest alteration affects regional hydrology and the global carbon cycle, but our current understanding of these effects is limited by incomplete knowledge of tropical forest ecosystems. It is widely agreed that roots are concentrated near the soil surface in moist tropical forests, but this generalization incorrectly implies that deep roots are unimportant in water and C budgets. Our results indicate that half of the closed-canopy forests of Brazilian Amazonic occur where rainfall is highly seasonal, and these forests rely on deeply penetrating roots to extract soil water. Pasture vegetation extracts less water from deep soil than the forest it replaces, thus increasing rates of drainage and decreasing rates of evapotranspiration. Deep roots are also a source of modern carbon deep in the soil. The soils of the eastern Amazon contain more carbon below 1 m depth than is present in above-ground biomass. As much as 25 percent of this deep soil C could have annual to decadal turnover times and may be lost to the atmosphere following deforestation. We compared the importance of deep roots in a mature, evergreen forest with an adjacent man-made pasture, the most common type of vegetation on deforested land in Amazonia. The study site is near the town of Paragominas, in the Brazilian state of Para, with a seasonal rainfall pattern and deeply-weathered, kaolinitic soils that are typical for large portions of Amazonia. Root distribution, soil water extraction, and soil carbon dynamics were studied using deep auger holes and shafts in each ecosystem, and the phenology and water status of the leaf canopies were measured. We estimated the geographical distribution of deeply-rooting forests using satellite imagery, rainfall data, and field measurements.

Nepstad, Daniel C.↗

NASA NTRS1994

Regional rainfall climatologies derived from Special Sensor Microwave Imager (SSM/I) data

Climatologies of convective precipitation were derived from passive microwave observations from the Special Sensor Microwave Imager using a scattering-based algorithm of Adler et al. Data were aggregated over periods of 3-5 months using data from 4 to 5 years. Data were also stratified by satellite overpass times (primarily 06 00 and 18 00 local time). Four regions (Mexico, Amazonia, western Africa, and the western equatorial Pacific Ocean (TOGA COARE area) were chosen for their meteorological interest and relative paucity of conventional observations. The strong diurnal variation over Mexico and the southern United States was the most striking aspect of the climatologies. Pronounced morning maxima occured offshore, often in concativities in the coastline, the result of the increased convergence caused by the coastline shape. The major feature of the evening rain field was a linear-shaped maximum along the western slope of the Sierra Madre Occidental. Topography exerted a strong control on the rainfall in other areas, particularly near the Nicaragua/Honduras border and in Guatemala, where maxima in excess of 700 mm/month were located adjacent to local maxima in terrain. The correlation between the estimates and monthly gage data over the southern United States was low (0.45), due mainly to poor temporal sampling in any month and an inadequate sampling of the diurnal cycle. Over the Amazon Basin the differences in morning versus evening rainfall were complex, with an alternating series of morning/evening maxima aligned southwest to northeast from the Andes to the northeast Brazilian coast. A real extent of rainfall in Amazonia was slightly higher in the evening, but a maximum in morning precipitation was found on the Amazon River just east of Manaus. Precipitation over the water in the intertropical convergence zone (ITCZ) north of Brazil was more pronounced in the morning, and a pronounced land-/sea-breeze circulation was found along the northeast coast of Brazil. Inter-comparison of four years revealed 1992 to be the driest over Amazonia, with about a 23% decrease in mean rate compared to the 4-year mean estimated rain rate.

Negri, Andrew J.↗

NASA NTRS1995

The role of tropical deforestation in the global carbon cycle: Spatial and temporal dynamics

'The Role of Tropical Deforestation in the Global Carbon cycle: Spatial and Temporal Dynamics', was a joint project involving the University of New Hampshire, the Marine Biological Laboratory, and the Woods Hole Research Center. The contribution of the Woods Hole Research Center consisted of three tasks: (1) assist University of New Hampshire in determining the net flux of carbon between the Brazilian Amazon and the atmosphere by means of a terrestrial carbon model; (2) address the spatial distribution of biomass across the Amazon Basin; and (3) assist NASA Headquarters in development of a science plan for the Terrestrial Ecology component of the NASA-Brazilian field campaign (anticipated for 1997-2001). Progress on these three tasks is briefly described.

Houghton, R. A.↗