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At least 271 records · Page 15Linked to original sources

Process-guided deep learning predictions of lake water temperature

The rapid growth of data in water resources has created new opportunities to accelerate knowledge discovery with the use of advanced deep learning tools. Hybrid models that integrate theory with state‐of‐the art empirical techniques have the potential to improve predictions while remaining true to physical laws. This paper evaluates the Process‐Guided Deep Learning (PGDL) hybrid modeling framework with a use‐case of predicting depth‐specific lake water temperatures. The PGDL model has three primary components: a deep learning model with temporal awareness (long short‐term memory recurrence), theory‐based feedback (model penalties for violating conversation of energy), and model pretraining to initialize the network with synthetic data (water temperature predictions from a process‐based model). In situ water temperatures were used to train the PGDL model, a deep learning (DL) model, and a process‐based (PB) model. Model performance was evaluated in various conditions, including when training data were sparse and when predictions were made outside of the range in the training data set. The PGDL model performance (as measured by root‐mean‐square error (RMSE)) was superior to DL and PB for two detailed study lakes, but only when pretraining data included greater variability than the training period. The PGDL model also performed well when extended to 68 lakes, with a median RMSE of 1.65 °C during the test period (DL: 1.78 °C, PB: 2.03 °C; in a small number of lakes PB or DL models were more accurate). This case‐study demonstrates that integrating scientific knowledge into deep learning tools shows promise for improving predictions of many important environmental variables.

Minnesota, Wisconsin

Planetary caves: A Solar System view of processes and products

We provide the first solar system wide compendium of speleogenic processes and products. An examination of 15 solar system bodies revealed that six cave-forming processes occur beyond Earth including volcanic (cryo and magmatic), fracturing (tectonic and impact melt), dissolution, sublimation, suffusion, and landslides. Although no caves (i.e., confirmed entrances with associated linear passages) have been confirmed, 3,545 SAPs (subsurface access points) have been identified on 11 planetary bodies and the potential for speleogenic processes (and thus SAPs) was observed on an additional four planetary bodies. The bulk of our knowledge on extraterrestrial SAPs is based upon global databases for the Moon and Mars, which are bodies for which high-resolution imagery and other data are available. To further characterize most of the features beyond the Moon and Mars, acquisition (preferably global coverage) and subsequent analysis of high-resolution imagery will be required. The next few decades hold considerable promise for identifying and potentially characterizing caves across the solar system.

JGR Planets

The North American greenhouse gas budget: Emissions, removals, and integration for CO2, CH4, and N2O (2010–2019): Results From the Second REgional Carbon Cycle Assessment and Processes Study (RECCAP2)

Accurate accounting of greenhouse-gas (GHG) emissions and removals is central to tracking progress toward climate mitigation and for monitoring potential climate-change feedbacks. GHG budgeting and reporting can follow either the Intergovernmental Panel on Climate Change methodologies for National Greenhouse Gas Inventory (NGHGI) reporting or use atmospheric-based “top-down” (TD) inversions or process-based “bottom-up” (BU) approaches. To help understand and reconcile these approaches, the Second REgional Carbon Cycle Assessment and Processes study (RECCAP2) was established to quantify GHG emissions and removals for carbon dioxide (CO 2 ), methane (CH 4 ) and nitrous oxide (N 2 O), for ten-land and five-ocean regions for 2010–2019. Here, we present the results for the North American land region (Canada, the United States, Mexico, Central America and the Caribbean). For 2010–2019, the NGHGI reported total net-GHG emissions of 7,270 TgCO 2 -eq yr −1 compared to TD estimates of 6,132 ± 1,846 TgCO 2 -eq yr −1 and BU estimates of 9,060 ± 898 TgCO 2 -eq yr −1 . Reconciling differences between the NGHGI, TD and BU approaches depended on (a) accounting for lateral fluxes of CO 2 along the land-ocean-aquatic continuum (LOAC) and trade, (b) correcting land-use CO 2 emissions for the loss-of-additional-sink capacity (LASC), (c) avoiding double counting of inland water CH 4 emissions, and (d) adjusting area estimates to match the NGHGI definition of the managed-land proxy. Uncertainties remain from inland-water CO 2 evasion, the conversion of nitrogen fertilizers to N 2 O, and from less-frequent NGHGI reporting from non-Annex-1 countries. The RECCAP2 framework plays a key role in reconciling independent GHG-reporting methodologies to support policy commitments while providing insights into biogeochemical processes and responses to climate change.

Global Biogeochemical Cycles

A roadmap for identifying and interpreting physical processes and national water model prediction bias associated with baseflow index regimes across the contiguous United States

Understanding how groundwater–surface water interactions shape streamflow variability is critical for diagnosing low flow behavior and prediction bias in continental scale hydrologic models. We present a process informed framework that links observed baseflow (BF) dynamics, watershed attributes, and National Water Model (NWM) performance across the contiguous United States. Using daily observed streamflow from 797 reference quality streamgages, we developed monthly baseflow index (BFI) signatures using a streamgage specific, calibrated digital filter. Hierarchical clustering of these signatures identified seven distinct BFI regimes capturing regional and seasonal variability. We evaluated NWM v3.0 retrospective streamflow performance within each regime using multiple hydrograph and flow duration curve-based metrics. Model skill varied systematically across regimes: mixed flow systems were simulated most accurately, while predominantly BF dominated and quickflow dominated regimes exhibited substantially poorer performance. Across nearly all regimes, the NWM underestimated observed BFI magnitude and frequently failed to reproduce seasonal BF patterns, indicating systematic biases in simulated low flow contributions. To relate these regimes to potential process controls, we trained a Random Forest classifier using static watershed attributes and applied Shapley Additive Explanations to identify features most strongly associated with each regime. Results highlight regionally varying influences, including the dominant role of snow fraction and seasonal runoff timing in snow dominated basins and the importance of evapotranspiration and aridity in quickflow dominated systems. Collectively, these findings demonstrate how hydrologic signatures combined with interpretable machine learning can diagnose regime specific model biases and generate process-based hypotheses about limitations in large scale hydrologic prediction systems.

contiguous United States

Deducing the distribution of terminal electron-accepting processes in hydrologically diverse groundwater systems

The distribution of microbially mediated terminal electron-accepting processes (TEAPs( was investigated in four hydrologically diverse groundwater systems by considering patterns of electron acceptor (nitrate, sulfate) consumption, intermediate product (hydrogen (H 2 )) concentrations, and final product (ferrous iron, sulfide, and methane) production. In each hydrologic system a determination of predominant TEAPs could be arrived at, but the level of confidence appropriate for each determination differed. In a portion of the lacustrine aquifer of the San Joaquin Valley, for example, all three indicators (sulfate concentrations decreasing, H 2 concentrations in the 1–2 nmol range, and sulfide concentrations increasing along flow paths identified sulfate reduction as the predominant TEAP, leading to a high degree of confidence in the determination. In portions of the Floridan aquifer and a petroleum hydrocarbon-contaminated aquifer, sulfate reduction and methanogenesis are indicated by production of sulfide and methane, and hydrogen oncentrations in the 1–4 nmol and 5–14 nmol range, respectively. However, because electron acceptor consumption could not be documented in these systems, less confidence is warranted in the TEAP determination. In the Black Creek aquifer, no pattern of sulfate consumption and sulfide production were observed, but H2 concentrations indicated sulfate reduction as the predominant TEAP. In this case, where just a single line of evidence is available, the least confidence in the TEAP diagnosis is justified. Because this methodology is based on measurable water chemistry parameters and upon the physiology of microbial electron transfer processes, it provides a better description of predominant redox processes in groundwater systems than more traditional Eh-based methods.

Water Resources Research

Deep subsurface microbial processes

Information on the microbiology of the deep subsurface is necessary in order to understand the factors controlling the rate and extent of the microbially catalyzed redox reactions that influence the geophysical properties of these environments. Furthermore, there is an increasing threat that deep aquifers, an important drinking water resource, may be contaminated by man's activities, and there is a need to predict the extent to which microbial activity may remediate such contamination. Metabolically active microorganisms can be recovered from a diversity of deep subsurface environments. The available evidence suggests that these microorganisms are responsible for catalyzing the oxidation of organic matter coupled to a variety of electron acceptors just as microorganisms do in surface sediments, but at much slower rates. The technical difficulties in aseptically sampling deep subsurface sediments and the fact that microbial processes in laboratory incubations of deep subsurface material often do not mimic in situ processes frequently necessitate that microbial activity in the deep subsurface be inferred through nonmicrobiological analyses of ground water. These approaches include measurements of dissolved H 2 , which can predict the predominant microbially catalyzed redox reactions in aquifers, as well as geochemical and groundwater flow modeling, which can be used to estimate the rates of microbial processes. Microorganisms recovered from the deep subsurface have the potential to affect the fate of toxic organics and inorganic contaminants in groundwater. Microbial activity also greatly influences the chemistry of many pristine groundwaters and contributes to such phenomena as porosity development in carbonate aquifers, accumulation of undesirably high concentrations of dissolved iron, and production of methane and hydrogen sulfide. Although the last decade has seen a dramatic increase in interest in deep subsurface microbiology, in comparison with the study of other habitats, the study of deep subsurface microbiology is still in its infancy.

Reviews of Geophysics

Evaluation of process errors in bed load sampling using a Dune Model

Reliable estimates of the streamwide bed load discharge obtained using sampling devices are dependent upon good at-a-point knowledge across the full width of the channel. Using field data and information derived from a model that describes the geometric features of a dune train in terms of a spatial process observed at a fixed point in time, we show that sampling errors decrease as the number of samples collected increases, and the number of traverses of the channel over which the samples are collected increases. It also is preferable that bed load sampling be conducted at a pace which allows a number of bed forms to pass through the sampling cross section. The situations we analyze and simulate pertain to moderate transport conditions in small rivers. In such circumstances, bed load sampling schemes typically should involve four or five traverses of a river, and the collection of 20–40 samples at a rate of five or six samples per hour. By ensuring that spatial and temporal variability in the transport process is accounted for, such a sampling design reduces both random and systematic errors and hence minimizes the total error involved in the sampling process.

Water Resources Research

The chemistry of iron, aluminum, and dissolved organic material in three acidic, metal-enriched, mountain streams, as controlled by watershed and in-stream processes

Several studies were conducted in three acidic, metal-enriched, mountain streams, and the results are discussed together in this paper to provide a synthesis of watershed and in-stream processes controlling Fe, Al, and DOC (dissolved organic carbon) concentrations. One of the streams, the Snake River, is naturally acidic; the other two, Peru Creek and St. Kevin Gulch, receive acid mine drainage. Analysis of stream water chemistry data for the acidic headwaters of the Snake River shows that some trace metal solutes (Al, Mn, Zn) are correlated with major ions, indicating that watershed processes control their concentrations. Once in the stream, biogeochemical processes can control transport if they occur over time scales comparable to those for hydrologic transport. Examples of the following in-stream reactions are presented: (1) photoreduction and dissolution of hydrous iron oxides in response to an experimental decrease in stream p H, (2) precipitation of Al at three stream confluences, and (3) sorption of dissolved organic material by hydrous iron and aluminum oxides in a stream confluence. The extent of these reactions is evaluated using conservative tracers and a transport model that includes storage in the substream zone.

Water Resources Research

Influence of coupling of sorption and photosynthetic processes on trace element cycles in natural waters

Chemical and biological processes have important roles in the transport and cycling of trace elements in natural waters, but their complex interactions are often not well understood. Trace-element concentrations may, for example, be controlled by adsorption-desorption reactions at mineral surfaces, with the equilibrium strongly influenced by pH. Variations in pH due to photosynthetic activity should result in concentration fluctuations as the adsorption-desorption equilibrium shifts with pH. To investigate these interactions, we have studied the effect of diurnal cycling of pH on dissolved arsenate in a perennial stream contaminated with arsenic. As expected, a diurnal cycle in arsenate concentration was observed, but surprisingly, the arsenate cycle lags several hours behind the pH cycle. Laboratory experiments show that the lag results from a slow approach to sorption equilibrium. Our observations demonstrate that the coupling of photosynthesis and sorption processes may have an important influence on the cycling of many trace elements and emphasize the importance of understanding sorption kinetics in modelling these processes.

Nature

Multistage time-to-event models improve survival inference by partitioning mortality processes of tracked organisms

Advances in tagging technologies are expanding opportunities to estimate survival of fish and wildlife populations. Yet, capture and handling effects could impact survival outcomes and bias inference about natural mortality processes. We developed a multistage time-to-event model that can partition the survival process into sequential phases that reflect the tagged animal experience, including handling and release mortality, post-release recovery mortality, and subsequently, natural mortality. We demonstrate performance of multistage survival models through simulation testing and through fish and bird telemetry case studies. Models are implemented in a Bayesian framework and can accommodate left, right, and interval censorship events. Our results indicate that accurate survival estimates can be achieved with reasonable sample sizes ( n ≈ 100 + ) "> 𝑛≈100+) and that multimodel inference can inform hypotheses about the configuration and length of survival stages needed to adequately describe mortality processes for tracked specimens. While we focus on survival estimation for tagged fish and wildlife populations, multistage time-to-event models could be used to understand other phenomena of interest such as migration, reproduction, or disease events across a range of taxa including plants and insects.

Scientific Reports

Decomposition of physical processes controlling EASM precipitation changes during the mid-Piacenzian: New insights into data–model integration

The mid-Piacenzian warm period (MPWP, ~3.264–3.025 Ma) has gained widespread interest due to its partial analogy with future climate. However, quantitative data–model comparison of East Asian Summer Monsoon (EASM) precipitation during the MPWP is relatively rare, especially due to problems in decoding the imprint of physical processes to climate signals in the records. In this study, pollen-based precipitation records are reconstructed and compared to the multi-model ensemble mean of the Pliocene Model Intercomparison Project Phase 2 (PlioMIP2). We find spatially consistent precipitation increase in most simulations but a spatially divergent change in MPWP records. We reconcile proxy data and simulation by decomposing physical processes that control precipitation. Our results 1) reveal thermodynamic control of an overall enhancement of EASM precipitation and 2) highlight a distinct control of thermodynamic and dynamical processes on increases of tropical and subtropical EASM precipitation, reflecting the two pathways of water vapor supply that enhance EASM precipitation, respectively.

npj Climate and Atmospheric Science

Modelling carbon responses of tundra ecosystems to historical and projected climate: A comparison of a plot- and a global-scale ecosystem model to identify process-based uncertainties

We are developing a process-based modelling approach to investigate how carbon (C) storage of tundra across the entire Arctic will respond to projected climate change. To implement the approach, the processes that are least understood, and thus have the most uncertainty, need to be identified and studied. In this paper, we identified a key uncertainty by comparing the responses of C storage in tussock tundra at one site between the simulations of two models - one a global-scale ecosystem model (Terrestrial Ecosystem Model, TEM) and one a plot-scale ecosystem model (General Ecosystem Model, GEM). The simulations spanned the historical period (1921-94) and the projected period (1995-2100). In the historical period, the model simulations of net primary production (NPP) differed in their sensitivity to variability in climate. However, the long-term changes in C storage were similar in both simulations, because the dynamics of heterotrophic respiration (RH) were similar in both models. In contrast, the responses of C storage in the two model simulations diverged during the projected period. In the GEM simulation for this period, increases in RH tracked increases in NPP, whereas in the TEM simulation increases in RH lagged increases in NPP. We were able to make the long-term C dynamics of the two simulations agree by parameterizing TEM to the fast soil C pools of GEM. We concluded that the differences between the long-term C dynamics of the two simulations lay in modelling the role of the recalcitrant soil C. These differences, which reflect an incomplete understanding of soil processes, lead to quite different projections of the response of pan-Arctic C storage to global change. For example, the reference parameterization of TEM resulted in an estimate of cumulative C storage of 2032 g C m-2 for moist tundra north of 50??N, which was substantially higher than the 463 g C m-2 estimated for a parameterization of fast soil C dynamics. This uncertainty in the depiction of the role of recalcitrant soil C in long-term ecosystem C dynamics resulted from our incomplete understanding of controls over C and N transformations in Arctic soils. Mechanistic studies of these issues are needed to improve our ability to model the response of Arctic ecosystems to global change.

Global Change Biology

Negligible risk associated with the movement of processed rainbow trout, Oncorhynchus mykiss (Walbaum), from an infectious haematopoietic necrosis virus (IHNV) endemic area

To assess the risk of transmission of infectious haematopoietic necrosis virus (IHNV) associated with the movement of processed rainbow trout, Oncorhynchus mykiss, from an area where the virus is endemic, 240 freshly eviscerated fish (225-500 g) exhibiting spinal curvature or spinal compression types of deformities were tested for IHNV by virus isolation and polymerase chain reaction (PCR) techniques. Commercially produced rainbow trout, approximately 1-year-old, that exhibited spinal deformities were considered to have had a high likelihood of having survived an outbreak of IHN. Serological analysis of fish exhibiting spinal curvature or spinal compression types of deformities for anti-IHNV antibodies resulted, in 71 and 50% of the serum samples, respectively, with detectable neutralization activity suggesting previous infection with IHNV. A portion of the skin and muscle in the area of the deformity was collected, as well as brain tissue from each commercially processed fish. Tissue homogenates were tested for IHNV using the epithelioma papulosum cyprini (EPC) cell line pretreated with polyethylene glycol and the chinook salmon embryo (CHSE-214) cell line using standard methods. Nested, reverse transcriptase (RT)-PCR for the detection of IHNV used the central 1231 bp portion of the glycoprotein (G) challenge studies and is suggested as a mechanism responsible for virus clearance. These results provide scientific information that can be used to assess the risk associated with the movement of processed rainbow trout from an IHNV endemic area.

Journal of Fish Diseases

Estimating soil organic carbon redistribution in three major river basins of China based on erosion processes

Soil erosion by water affects soil organic carbon (SOC) migration and distribution, which are important processes for defining ecosystem carbon sources and sinks. Little has been done to quantify soil carbon erosion in the three major basins in China, the Yangtze River, Yellow River and Pearl River Basins, which contain the most eroded areas. This research attempts to quantify the lateral movement of SOC based on spatial and temporal patterns of water erosion rates derived from an empirical Unit Stream Power Erosion Deposition Model (USPED) model. The water erosion rates simulated by the USPED model agreed reasonably with observations ( R 2 = 0.43, P < 0.01). We showed that regional water erosion ranged within 23.3–50 Mg ha –1 year –1 during 1992–2013, inducing the lateral redistribution of SOC caused by erosion in the range of 0.027–0.049 Mg C ha –1 year –1 , and that caused by deposition of 0.0079–0.015 Mg C ha –1 year –1 , in the three basins. The total eroded SOC was 0.006, 0.002 and 0.001 Pg year –1 in the Yangtze River, Yellow River and Pearl River Basins respectively. The net eroded SOC in the three basins was ~0.0075 Pg C year –1 . Overall, the annual average redistributed SOC rate caused by erosion was greater than that caused by deposition, and the SOC loss in the Yangtze River Basin was greatest among the three basins. Our study suggests that considering both processes of erosion and deposition – as well as effects of topography, rainfall, land use types and their interactions – on these processes are important to understand SOC redistribution caused by water erosion.

Yangtze River, Yellow River and Pearl River basins

Coupled interactions between volatile activity and Fe oxidation state during arc crustal processes

Arc magmas erupted at the Earth&rsquo;s surface are commonly more oxidized than those produced at mid-ocean ridges. Possible explanations for this high oxidation state are that the transfer of fluids during the subduction process results in direct oxidation of the sub-arc mantle wedge, or that oxidation is caused by the effect of later crustal processes, including protracted fractionation and degassing of volatile-rich magmas. This study sets out to investigate the effect of disequilibrium crustal processes that may involve coupled changes in H 2 O content and Fe oxidation state, by examining the degassing and hydration of sulphur-free rhyolites. We show that experimentally hydrated melts record strong increases in Fe 3+ /&sum;Fe with increasing H 2 O concentration as a result of changes in water activity. This is relevant for the passage of H 2 O-undersaturated melts from the deep crust towards shallow crustal storage regions, and raises the possibility that vertical variations in f O 2 might develop within arc crust. Conversely, degassing experiments produce an increase in Fe 3+ /&sum;Fe with decreasing H 2 O concentration. In this case the oxidation is explained by loss of H 2 as well as H 2 O into bubbles during decompression, consistent with thermodynamic modelling, and is relevant for magmas undergoing shallow degassing en route to the surface. We discuss these results in the context of the possible controls on f O 2 during the generation, storage and ascent of magmas in arc settings, in particular considering the timescales of equilibration relative to observation as this affects the quality of the petrological record of magmatic f O 2 .

Journal of Petrology

Ecosystem processes and nitrogen export in northern U.S. watersheds.

There is much interest in the relationship of atmospheric nitrogen (N) inputs to ecosystem outputs as an indicator of possible "nitrogen saturation" by human activity. Longer-term, ecosystem-level mass balance studies suggest that the relationship is not clear and that other ecosystem processes may dominate variation in N outputs. We have been studying small, forested watershed ecosystems in five northern watersheds for periods up to 35 years. Here I summarize the research on ecosystem processes and the N budget. During the past 2 decades, average wet-precipitation N inputs ranged from about 0.1 to 6 kg N ha(-1) year(-1) among sites. In general, sites with the lowest N inputs had the highest output-to-input ratios. In the Alaska watersheds, streamwater N output exceeded inputs by 70 to 250%. The ratio of mean monthly headwater nitrate (NO3-) concentration to precipitation NO3- concentration declined with increased precipitation concentration. A series of ecosystem processes have been studied and related to N outputs. The most important appear to be seasonal change in hydrologic flowpath, soil freezing, seasonal forest-floor inorganic N pools resulting from over-winter mineralization beneath the snowpack, spatial variation in watershed forest-floor inorganic N pools, the degree to which snowmelt percolates soils, and gross soil N mineralization rates.

Scientific World Journal

A distributed pipeline for DIDSON data processing

Technological advances in the field of ecology allow data on ecological systems to be collected at high resolution, both temporally and spatially. Devices such as Dual-frequency Identification Sonar (DIDSON) can be deployed in aquatic environments for extended periods and easily generate several terabytes of underwater surveillance data which may need to be processed multiple times. Due to the large amount of data generated and need for flexibility in processing, a distributed pipeline was constructed for DIDSON data making use of the Hadoop ecosystem. The pipeline is capable of ingesting raw DIDSON data, transforming the acoustic data to images, filtering the images, detecting and extracting motion, and generating feature data for machine learning and classification. All of the tasks in the pipeline can be run in parallel and the framework allows for custom processing. Applications of the pipeline include monitoring migration times, determining the presence of a particular species, estimating population size and other fishery management tasks.

Conference Paper

Hydratools, a MATLAB® based data processing package for Sontek Hydra data

The U.S. Geological Survey (USGS) has developed a set of MATLAB tools to process and convert data collected by Sontek Hydra instruments to netCDF, which is a format used by the USGS to process and archive oceanographic time-series data. The USGS makes high-resolution current measurements within 1.5 meters of the bottom. These data are used in combination with other instrument data from sediment transport studies to develop sediment transport models. Instrument manufacturers provide software which outputs unique binary data formats. Multiple data formats are cumbersome. The USGS solution is to translate data streams into a common data format: netCDF. The Hydratools toolbox is written to create netCDF format files following EPIC conventions, complete with embedded metadata. Data are accepted from both the ADV and the PCADP. The toolbox will detect and remove bad data, substitute other sources of heading and tilt measurements if necessary, apply ambiguity corrections, calculate statistics, return information about data quality, and organize metadata. Standardized processing and archiving makes these data more easily and routinely accessible locally and over the Internet. In addition, documentation of the techniques used in the toolbox provides a baseline reference for others utilizing the data.

Conference Paper