Accessing BCO-DMO data
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BCO-DMO ERDDAP
Accessing BCO-DMO data |
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| griddap | Subset | tabledap | Make A Graph | wms | files | Accessible | Title | Summary | FGDC | ISO 19115 | Info | Background Info | RSS | Institution | Dataset ID | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_3009 | https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_3009.graph | https://erddap.bco-dmo.org/erddap/files/bcodmo_dataset_3009/ | public | [calvet_ak_ltop] - AK-LTOP CalVET Net Tow counts and biomass collected from multiple cruises from the Northeast Pacific, 1997-2001 (NEP project) (U.S. GLOBEC Northeast Pacific) | AK-LTOP CalVET Net Tow counts and biomass collected from multiple cruises from the Northeast Pacific, 1997-2001.\n\ncdm_data_type = Other\nVARIABLES:\ncruise_id (dimensionless)\nyear (dimensionless)\nstation_name (dimensionless)\nstation (dimensionless)\nyrday_local (dimensionless)\nmonth_local (dimensionless)\nday_local (dimensionless)\ntime_local (dimensionless)\nlatitude (degrees_north)\nlongitude (degrees_east)\ndepth_w (Depth, meters)\ndepth_cast (Depth)\nvol_filt\nspecies (dimensionless)\nfamily (dimensionless)\nphylum (dimensionless)\nsubphylum (dimensionless)\nclass (dimensionless)\nsubclass (dimensionless)\norder (dimensionless)\ninfraorder (dimensionless)\nstage (dimensionless)\nabundance (number per cubic meter)\nbiomass_g (grams wet weight per cubic meter)\n | https://erddap.bco-dmo.org/erddap/metadata/fgdc/xml/bcodmo_dataset_3009_fgdc.xml | https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_3009/index.htmlTable | https://www.bco-dmo.org/dataset/3009
| https://erddap.bco-dmo.org/erddap/rss/bcodmo_dataset_3009.rss | https://erddap.bco-dmo.org/erddap/subscriptions/add.html?datasetID=bcodmo_dataset_3009&showErrors=false&email= | BCO-DMO | bcodmo_dataset_3009 | ||||
| https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_728110 | https://erddap.bco-dmo.org/erddap/files/bcodmo_dataset_728110/ | public | [Epibenthic community taxonomy] - Table of taxonomic hierarchy and the sampling method for organisms collection in Aleutian Island kelp forests, June 2016 and July 2017 (Kelp Forest Ecosystem Engineer Loss project) (Collaborative Research: Changes in ecosystem production and benthic biodiversity following the widespread loss of an ecosystem engineer) | This dataset includes the taxonomic hierarchy for epibenthic community organisms collected in Aleutian Island kelp forests, based on biomass data. It also lists the method used to sample, either by a scrape collection or by a visual count along a swath.\n\ncdm_data_type = Other\nVARIABLES:\nTaxon (unitless)\nKingdom (unitless)\nPhylum (unitless)\nClass (unitless)\nOrder_Subclass (unitless)\nFamily (unitless)\nGenus (unitless)\nSpecies (unitless)\nSampling_method (unitless)\n | https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_728110/index.htmlTable | https://www.bco-dmo.org/dataset/728110
| https://erddap.bco-dmo.org/erddap/rss/bcodmo_dataset_728110.rss | https://erddap.bco-dmo.org/erddap/subscriptions/add.html?datasetID=bcodmo_dataset_728110&showErrors=false&email= | BCO-DMO | bcodmo_dataset_728110 | ||||||
| log in | [Integrated Energy Density data of Marine and Freshwater Organisms] - Marine and Freshwater Energy Density Data Integrated and Organized by Taxonomy from Previous Research Sources (1961 through June 2024) Discovered by a Literature Review (Nutritional ecology of climate change: Impacts on Northwest Atlantic fishes) | Energy is the currency of exchange within ecosystems which defines the strength and influence of interactions, particularly between predator and prey. The ability to estimate the productivity of an ecosystem is, therefore, dependent upon the estimation of consumer diet contents and their energetic quality. To estimate growth, reproduction, and, ultimately, survival of individuals, measures of prey quality for predators are essential both at the individual level and for scaling to ecosystem-wide fluxes and pools. Among measures of prey quality, energy density (kiloJoules per gram; kJ/g) is the most used in ecology. Considerable efforts have established estimates of energy densities for many aquatic taxa. However, a database of aquatic organism energetics constructed by integrating and organizing across multiple sources spawning marine and freshwater habitats across the globe is needed to add both depth (more samples to measure within-taxa variation) and breadth (more taxa). To generate a comprehensive energy density database of aquatic organisms, we performed a multifaceted review to find sources from the peer-reviewed and grey literature with a broad search on Web of Science, from citations of related literature, and a haphazard recommendation from experts. Estimates of energy density of whole organism live weights (kJ/g wet weight) were prioritized to better relate to diet and energetics studies. When energy density was only provided per gram dry weight, the dry weight and percentage water was used to calculate energy density per gram wet weight. Sub-organism (i.e. tissue specific) energy density estimates are included (e.g. muscle, liver, egg) when only these were reported. A total of 3810 records are included from 134 sources, covering 2016 unique taxa, of which 1771 (87.76%) are identified at the species level. Species or taxa-specific energy densities ranged from 0.015 to 17.949 kJ/g wet weight (WW) with a mean ± SD = 4.509 ± 1.94 kJ/g WW and median = 4.225 kJ/g WW. Among those phyla with more than three species (n phyla = 9), chordates (n taxa = 1283) had the highest average energy density (mean ± SD; 4.92 ± 1.90; 0.162 – 17.9 kJ/g WW) and ctenophores (n taxa = 4) had the lowest average (0.0988 ± 0.074; 0.03 to 0.205 kJ/g WW). Each record includes the organism taxonomy to the lowest resolution listed in the original source, energetic data available from the source including body composition and energy density data, number of replicates and methodology for measuring energetics information--primarily split between bomb calorimetry and proximate composition--as well as the source's author(s), year, and publication. Additional meta-data are included whenever possible based on details from the original source including the 1) environmental features: area, method, and timing of capture; 2) methodological features: storage method, storage duration, and tissue type measured; and 3) organismal features: weight, length, and sex; as well as any additional notes about the source. This comprehensive database integrates those data discoverable by our search and which met inclusion criteria identified above in a taxonomic and spatial organization framework to facilitate modeling trophic interactions, bioenergetics, growth, productivity, and energy fluxes through marine and freshwater ecosystems.\n\ncdm_data_type = Other\nVARIABLES:\nPhylum (unitless)\n... (41 more variables)\n | BCO-DMO | bcodmo_dataset_948253_v1 | ||||||||||||
| https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_768138 | https://erddap.bco-dmo.org/erddap/files/bcodmo_dataset_768138/ | public | [Palau lakes: invertebrate barcodes] - Specimen log with OTU identifiers collected from Palau marine lakes (Do Parallel Patterns Arise from Parallel Processes?) | List of all barcoded specimens of collected invertebrates with sequence name and OTU identifier collected from Palau marine lakes. FASTA files for major invertebrate groups are included in supplemental files.\n\ncdm_data_type = Other\nVARIABLES:\nOTU_id (unitless)\nID (unitless)\nlake_code (unitless)\nSequenceName (Sequence Name, unitless)\nPhylum (unitless)\nClass (unitless)\nOrder (unitless)\nFamily (unitless)\nGenus (unitless)\nSpecies (unitless)\nCRRF_ID (unitless)\n | https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_768138/index.htmlTable | https://www.bco-dmo.org/dataset/768138
| https://erddap.bco-dmo.org/erddap/rss/bcodmo_dataset_768138.rss | https://erddap.bco-dmo.org/erddap/subscriptions/add.html?datasetID=bcodmo_dataset_768138&showErrors=false&email= | BCO-DMO | bcodmo_dataset_768138 | ||||||
| https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_768196 | https://erddap.bco-dmo.org/erddap/files/bcodmo_dataset_768196/ | public | [Palau lakes: voucher summary] - Voucher summary of invertebrates and barcoded OTU's with field identifications, collected from Palau marine lakes (Do Parallel Patterns Arise from Parallel Processes?) | Voucher summary of invertebrates and barcoded OTU's with field identifications, collected from Palau marine lakes.\n\ncdm_data_type = Other\nVARIABLES:\nCRRF_ID (unitless)\nPhylum (unitless)\nClass (unitless)\nOrder (unitless)\nFamily (unitless)\nGenus (unitless)\nSpecies (unitless)\nID_name (unitless)\nOTU_id (specimens)\nlake_code (unitless)\ncomment (unitless)\n | https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_768196/index.htmlTable | https://www.bco-dmo.org/dataset/768196
| https://erddap.bco-dmo.org/erddap/rss/bcodmo_dataset_768196.rss | https://erddap.bco-dmo.org/erddap/subscriptions/add.html?datasetID=bcodmo_dataset_768196&showErrors=false&email= | BCO-DMO | bcodmo_dataset_768196 | ||||||
| log in | [Subsurface Nitrospirota and Nitrospinota Origins] - Collection of subsurface bacteria Nitrospirota and Nitrospinota genome data including IMG and NCBI accessions for sequence datasets in June 2021 (Slow Life in Crust project) (Microbial activity in the crustal deep biosphere) | The phyla Nitrospirota and Nitrospinota have received significant research attention due to their unique mitrogen metabolisms important to biogeochemical and industrial processes. These phyla are common inhabitants of marine and terrestrial subsurface environments and contain members capable of diverse physiologies in addition to nitrite oxidation and complete ammonia oxidation. We used phylogenomics and gene-based analysis with ancestral state reconstruction and gene-tree-species tree reconciliation methods to investigate the life histories of these two phyla. This dataset includes list of previously-published sequence datasets that were used for the analysis. The data and interpretations are published at DOI 10.1038/s41396-023-01397-x. Additional metadata such as NCBI accessions, assembly release dates, and NCBI taxon ids were added in December 2024.\n\ncdm_data_type = Other\nVARIABLES:\nID (unitless)\nIMG_genome_id (unitless)\nGenBank_assembly (unitless)\nSample (unitless)\nCorrected_BioSample (unitless)\nBioProject (unitless)\nrelease_date (unitless)\nlast_updated_date (seconds since 1970-01-01T00:00:00Z)\npublication_date (seconds since 1970-01-01T00:00:00Z)\nDomain (unitless)\nPhylum (unitless)\nClass (unitless)\nOrder (unitless)\nFamily (unitless)\nGenus (unitless)\nSpecies (unitless)\nNCBI_organism_taxid (unitless)\nIsolation_Source (unitless)\nIsolationPlot (unitless)\n... (11 more variables)\n | BCO-DMO | bcodmo_dataset_933610_v1 |