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78 results for “biogeochemistry”
Implementing Riverine Biogeochemical Inputs in ECCO-Darwin: A Sensitivity Analysis of Terrestrial Fluxes in a Data-Assimilative Global Ocean Biogeochemistry Model
<p>Resolving riverine biogeochemical inputs in ocean biogeochemistry models is pivotal for capturing the spatiotemporal variability of nutrients and carbon in coastal regions and in the global ocean. ECCO-Darwin is a pioneering data-assimilative global-ocean biogeochemistry model, which, to date, has focused on the pelagic zone. In this work, we use an optimized version of ECCO-Darwin to perform a sensitivity analysis to quantify the response of the open ocean and coastal margins to lateral inputs of carbon and nutrients. We generate riverine inputs by combining point-source freshwater discharge from JRA55-do with the Global NEWS 2 watershed model, accounting for lateral inputs from 5171 watersheds worldwide. While adding carbon and nutrients along with freshwater improves biogeochemical skill in river plume regions and coastal waters, the open-ocean response may be overestimated due to an excess of carbon and nutrients advected offshore. This highlights the need for a more nuanced representation of land-to-ocean and nearshore processes for quantifying how global ocean primary production and carbon cycling respond to land-to-ocean inputs.</p>
Linking water age, nitrate export regime, and nitrate isotope biogeochemistry in a tile-drained agricultural field
<p>This repository contains the SAS model input data and the model results that can be used to reproduce the water age results for the three study tiles presented in Yu et al. Linking water age, nitrate export regime, and nitrate isotope biogeochemistry in a tile-drained agricultural field</p> <p><strong>File 1: SAS_model_input_TileX.csv</strong></p> <p>The input data for the SAS model calibration for the three tiles.</p> <p><strong>File 2: behavioral_parameter_sets_Model#1_TileX.csv</strong></p> <p>The behavioral parameter sets obtained from the calibration of SAS model 1 (i.e., time-invariant kQ).</p> <p><strong>File 3: behavioral_parameter_sets_Model#2_TileX.csv</strong></p> <p>The behavioral parameter sets obtained from the calibration of SAS model 2 (i.e., time-variant kQ).</p> <p><strong>File 4: Cl_simulation_results_Model#1_TileX.csv</strong></p> <p>Simulated chloride concentration based on the optimal parameter set of SAS model 1 (i.e., time-invariant kQ).</p> <p><strong>File 5: Cl_simulation_results_Model#2_TileX.csv </strong></p> <p>Simulated chloride concentration based on the optimal parameter set of SAS model 2 (i.e., time-variant kQ).</p> <p><strong>File 6: median_water_age_Model#1_TileX.csv</strong></p> <p>Median water age of tile discharge based on the optimal parameter set of SAS model 1 (i.e., time-invariant kQ).</p> <p><strong>File 7: median_water_age_Model#2_TileX.csv</strong></p> <p>Median water age of tile discharge based on the optimal parameter set of SAS model 2 (i.e., time-variant kQ).</p> <p><strong>File 8: File_column_names.txt</strong></p> <p> A text file that explains the column names for each file</p>
Linking water age, nitrate export regime, and nitrate isotope biogeochemistry in a tile-drained agricultural field [Dataset]
<p>This repository contains the SAS model input data and the model results that can be used to reproduce the water age results for the three study tiles presented in Yu et al. Linking water age, nitrate export regime, and nitrate isotope biogeochemistry in a tile-drained agricultural field</p> <p><strong>File 1: SAS_model_input_TileX.csv</strong></p> <p>The input data for the SAS model calibration for the three tiles.</p> <p><strong>File 2: behavioral_parameter_sets_Model#1_TileX.csv</strong></p> <p>The behavioral parameter sets obtained from the calibration of SAS model 1 (i.e., time-invariant kQ).</p> <p><strong>File 3: behavioral_parameter_sets_Model#2_TileX.csv</strong></p> <p>The behavioral parameter sets obtained from the calibration of SAS model 2 (i.e., time-variant kQ).</p> <p><strong>File 4: Cl_simulation_results_Model#1_TileX.csv</strong></p> <p>Simulated chloride concentration based on the optimal parameter set of SAS model 1 (i.e., time-invariant kQ).</p> <p><strong>File 5: Cl_simulation_results_Model#2_TileX.csv </strong></p> <p>Simulated chloride concentration based on the optimal parameter set of SAS model 2 (i.e., time-variant kQ).</p> <p><strong>File 6: median_water_age_Model#1_TileX.csv</strong></p> <p>Median water age of tile discharge based on the optimal parameter set of SAS model 1 (i.e., time-invariant kQ).</p> <p><strong>File 7: median_water_age_Model#2_TileX.csv</strong></p> <p>Median water age of tile discharge based on the optimal parameter set of SAS model 2 (i.e., time-variant kQ).</p> <p><strong>File 8: File_column_names.txt</strong></p> <p> A text file that explains the column names for each file</p>
Road salt inputs alter biogeochemistry but not plant community composition in exurban forested wetlands
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Data from: High-severity wildfire leads to multi-decadal impacts on soil biogeochemistry in mixed-conifer forests
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Forcing files and Model output for "Contrasting impacts of the South Pacific Split Jet and the Southern Annular Mode modulation on Southern Ocean circulation and biogeochemistry"
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Biogeochemistry initial and boundary conditions to run West Antarctic Peninsula MITgcm-REcoM2
<p>The files in this dataset include the initial and boundary conditions for all the biogeochemistry variables of the MITgcm-REcoM2 circulation, sea ice and biogeochemistry regional configuration for the West Antarctic Peninsula (WAP).</p>
Mesoscale eddies drive phytoplankton mediated biogeochemistry in the South China Sea
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DALROMS-NWA12 v1.0, a coupled circulation-sea ice-biogeochemistry model for the northwest North Atlantic: input files (3 of 3)
<p>DALROMS-NWA12 v1.0 is a coupled circulation-sea ice-biogeochemistry modelling system based on ROMS, CICE, and MCT. The model domain covers the North Atlantic Ocean from ~81 deg W to ~39 deg W and ~33.5 deg N to 76 deg N. This record includes the files necessary for nudging the currents towards Copernicus GLORYS12V1 reanalysis values in a simulation from 1 September to 31 December 2013.</p> <p>The remaining input files for this period are available at <a href="https://doi.org/10.5281/zenodo.12752190" target="_blank" rel="noopener">https://doi.org/10.5281/zenodo.12752190</a> and <a href="https://doi.org/10.5281/zenodo.12734049" target="_blank" rel="noopener">https://doi.org/10.5281/zenodo.12734049</a>.</p> <p>Model codes, scripts for compiling the model, and sample CPP header files and runtime parameter files (namelists) for physics-only simulations are available at <a href="https://doi.org/10.5281/zenodo.12752091" target="_blank" rel="noopener">https://doi.org/10.5281/zenodo.12752091</a>. CPP header and runtime parameter files for the biogeochemistry module are available upon request.</p> <p>Sample output files (from the physics and biogeochemistry modules) are available at <a href="https://doi.org/10.5281/zenodo.12744506" target="_blank" rel="noopener">https://doi.org/10.5281/zenodo.12744506</a> and <a href="https://doi.org/10.5281/zenodo.12746262" target="_blank" rel="noopener">https://doi.org/10.5281/zenodo.12746262</a>.</p>
DALROMS-NWA12 v1.0, a coupled circulation-sea ice-biogeochemistry model for the northwest North Atlantic: output files (1 of 2)
<p>DALROMS-NWA12 v1.0 is a coupled circulation-sea ice-biogeochemistry modelling system based on ROMS, CICE, and MCT. The model domain covers the North Atlantic Ocean from ~81 deg W to ~39 deg W and ~33.5 deg N to 76 deg N. This record includes daily-mean output of all (ocean circulation, sea ice, and biogeochemistry) modules for September 2013, when the simulation was initialized. Similar files for January 2015 are available at <a href="https://doi.org/10.5281/zenodo.12746262" target="_blank" rel="noopener">https://doi.org/10.5281/zenodo.12746262</a>.</p> <p>Model codes, scripts for compiling the model, and sample CPP header files and runtime parameter files (namelists) for physics-only simulations are available at <a href="https://doi.org/10.5281/zenodo.12752091" target="_blank" rel="noopener">https://doi.org/10.5281/zenodo.12752091</a>. CPP header and runtime parameter files for the biogeochemistry module are available upon request.</p> <p>Sample input files for physics-only simulations are available at <a href="https://doi.org/10.5281/zenodo.12752190" target="_blank" rel="noopener">https://doi.org/10.5281/zenodo.12752190</a>, <a href="https://doi.org/10.5281/zenodo.12734049" target="_blank" rel="noopener">https://doi.org/10.5281/zenodo.12734049</a>, and <a href="https://doi.org/10.5281/zenodo.12735153" target="_blank" rel="noopener">https://doi.org/10.5281/zenodo.12735153</a>. Input files for the biogeochemistry module are available upon request.</p>
ISLSCP II IGBP NPP Output from Terrestrial Biogeochemistry Models
This data set contains modeled annual net primary production (NPP) for the land biosphere from seventeen different global models. Annual NPP is defined as the net difference of annual carbon uptake (grams CO2/m2/yr) from the atmosphere through photosynthesis by the land vegetation and that lost back to the atmosphere through autotrophic and maintenance respiration. NPP is also related to the Net Ecosystem Exchange (NEE) of carbon accumulated by or lost from the surface by its vegetation and soils. NPP is NEE plus heterotrophic (decomposition) respiration of the vegetation and soils. Only NPP values are included in this data set as some models did not estimate NEE. Data for the mean, standard deviation and coefficient of variation of NPP for the 17 models are provided at spatial resolutions of 1.0 degree and 0.5 degrees. There are two compressed (*.zip) data files with this data set.
Ocean Biogeochemistry in the California Current System 2007-2010 L4 Monthly
A coupled physical-biogeochemical ocean model (the MITgcm with BLING biogeochemistry) is a least squares fit to all available ocean observations in the region of the California Current System. This is accomplished iteratively through the adjoint method, using the methodology developed by the Consortium for Estimating the Circulation and Climate of the Ocean (ECCO). The result is a physically realistic estimate of the ocean state. The model domain extends from 28N to 40N and from 130W to 114W. It has a 1/16-degree horizontal resolution (~7km) and 72 vertical levels.The NASA Carbon Monitoring System (CMS) is designed to make significant contributions in characterizing, quantifying, understanding, and predicting the evolution of global carbon sources and sinks through improved monitoring of carbon stocks and fluxes. The System will use the full range of NASA satellite observations and modeling/analysis capabilities to establish the accuracy, quantitative uncertainties, and utility of products for supporting national and international policy, regulatory, and management activities. CMS will maintain a global emphasis while providing finer scale regional information, utilizing space-based and surface-based data and will rapidly initiate generation and distribution of products both for user evaluation and to inform near-term policy development and planning.
LINKAGES: An Individual-based Forest Ecosystem Biogeochemistry Model
This model product contains the source codes for version 1 of the individual-based forest ecosystem biogeochemistry model LINKAGES and two subsequent versions as well as example input and output data. LINKAGES predicts long-term structure and dynamics of forest ecosystems as constrained by nitrogen availability, climate, and soil moisture. Model simulations compare favorably to field data from different geographic areas worldwide. LINKAGES, written in FORTRAN and provided in ASCII format, simulates birth, growth, and death of all trees greater than 1.43-cm dbh. Litter fall and decomposition are also simulated. Sunlight is the driving variable. Growing season degree days, soil water availability, and AET are calculated from precipitation, temperature, soil field moisture capacity, and wilting point. Decomposition and soil N availability are calculated from organic matter quantity and carbon chemistry, evapotranspiration, and degree of canopy closure. Light availability to each tree is a function of leaf biomass of taller trees. Degree days and availabilities of light and water constrain species reproduction. These variables plus soil N constrain tree growth and carbon accumulation in biomass. Tree death probability increases with age and slow growth. Leaf, root, and woody litter are returned to the soil at the end of each year to decay the following year. Climatic and forest data for eastern North America and New South Wales are provided as example model inputs. Modelers may use their own site data within any version of LINKAGES. Example model output is also provided.
Ocean Biogeochemistry from Gliders as part of the Gulf of Maine North Atlantic Time Series
This dataset contains ocean biogeochemistry data from two Slocum gliders along the Gulf of Maine North Atlantic Time Series (GNATS) transect. The transect runs approximately east-west, with only a very minor change in latitude. The gliders are deployed on the western end of the transect, travel along the transect line to the eastern end, turn around and travel back along the transect to the western end, before being recovered. Each file contains data from one deployment (a glider “mission”), and thus contains both an eastbound and a westbound measurement of each variable. A full mission takes approximately 20 – 30 days. The data are gridded by longitude (0.01° intervals) and depth (1 m intervals). For more details on dataset preparation, see the Original Publication Citation and Data Processing Workflow below.
LBA-ECO CD-06 Biogeochemistry of Ji-Parana River and Tributaries, Brazil: 1999-2003
This data set provides spatially extensive and temporally intensive surveys of the river biogeochemistry of the Ji-Parana River Basin in Western Amazonia, Rondonia, Brazil. The concentrations of major nutrient ions, dissolved organic and inorganic carbon, pH, temperature, dissolved oxygen, and conductivity were measured in Ji-Parana River and tributary samples at the defined seasonal or monthly intervals. Dominant landuse/landcover classes, slope, and soil cation exchange capacity are included for each of the extensive sampling locations derived from river basin and sub-basin characteristics.Water samples were collected from 1999 to 2003 along the main stem of the Ji-Parana River as well as from the major tributaries including the Urupa. Shapefiles with the boundaries of the major sub-basins of the study area as well as the location of the sample collection points are included for the intensive and extensive sampling campaigns as well as the Urupa River campaign. There are six comma-separated data files (.csv) and five compressed shapefiles (.zip) with this data set.
CAR Safari South African Biogeophysics and Biogeochemistry L1 V1 (CAR_SAFARI_L1C) at GES DISC
The Southern African Regional Science Initiative (SAFARI) 2000 is an international science field campaign aimed at developing a better understanding of the southern Africa earth-atmosphere-human system. The goal of SAFARI 2000 is to identify and understand the relationship between the physical, chemical, biological, and anthropogenic processes that underlie the biogeophysical and biogeochemical systems of southern Africa. Particular emphasis will be placed upon biogenic, pyrogenic, and anthropogenic emissions - their characterization and quantification, their transport and transformations in the atmosphere, their influence on regional climate and meteorology, their eventual deposition, and the effects of this deposition on ecosystems.
Global Ocean Biogeochemistry Array
The Global Ocean Biogeochemistry (GO-BGC) Array is a project funded by the US National Science Foundation (NSF Award 1946578 ) to build a global network of chemical and biological sensors that will monitor ocean health. This grant is being used to build and deploy 500 robotic ocean-monitoring floats around the globe as part of NSF’s Mid-scale Research Infrastructure-2 program. This network of floats is collecting data on the chemistry and the biology of the ocean from the surface to a depth of 2,000 meters, augmenting the existing Argo array that monitors ocean temperature and salinity. The GO-BGC Array is led by Director Ken Johnson and administered by the Monterey Bay Aquarium Research Institute. For questions specific to the HPLC/POC/PON data submitted to SeaBASS please contact Josh Plant at jplant@mbari.org.
Biogeochemistry and Optics South Pacific Experiment
Measurements made during the BIOSOPE: Biogeochemistry and Optics South Pacific Experiment in 2004.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.