Accessing BCO-DMO data
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BCO-DMO ERDDAP
Accessing BCO-DMO data |
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| Dataset Title: | [Metagenome from the Pacific Ocean OMZ] - Sample information and accession numbers for metagenome samples collected in the Eastern Tropical Pacific Oxygen Minimum Zone on R/V Sally Ride cruise SR2114 during December 2021 to January 2022 (Collaborative Research: Microdiversity drives ecosystem function: SAR11 bacteria as models for oceanic nitrogen loss) 
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| Institution: | BCO-DMO (Dataset ID: bcodmo_dataset_998771_v1) |
| Information: | Summary
| License
| FGDC
| ISO 19115
| Metadata
| Background
| Files
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Attributes {
s {
Sample_ID {
String long_name "Sample_id";
String units "unitless";
}
DNA_Concentration {
Float32 actual_range 2.3, 13.0;
String long_name "Dna_concentration";
String units "micromoles per liter";
}
Date_Sampled {
String long_name "Date_sampled";
String units "unitless";
}
Date_Extracted {
String long_name "Date_extracted";
String units "unitless";
}
latitude {
String _CoordinateAxisType "Lat";
Float32 actual_range 11.8122, 16.9798;
String axis "Y";
String ioos_category "Location";
String long_name "Latitude";
String standard_name "latitude";
String units "degrees_north";
}
longitude {
String _CoordinateAxisType "Lon";
Float32 actual_range -107.7, -90.4497;
String axis "X";
String ioos_category "Location";
String long_name "Longitude";
String standard_name "longitude";
String units "degrees_east";
}
depth {
String _CoordinateAxisType "Height";
String _CoordinateZisPositive "down";
Float32 actual_range 112.0, 601.1;
String axis "Z";
String ioos_category "Location";
String long_name "Depth";
String positive "down";
String standard_name "depth";
String units "m";
}
Volume_Filtered {
Int32 actual_range 1820, 2600;
String long_name "Volume_filtered";
String units "milliliters (mL)";
}
Station {
Int32 actual_range 20, 45;
String long_name "Station";
String units "unitless";
}
Oxygen_Concentration {
Float32 actual_range 0.01, 12.17;
String long_name "Oxygen_concentration";
String units "micromoles per kilogram";
}
Experiment_Accession {
String long_name "Experiment_accession";
String units "unitless";
}
Instrument {
String long_name "Instrument";
String units "unitless";
}
Study_Accession {
String long_name "Study_accession";
String units "unitless";
}
Sample_Accession {
String long_name "Sample_accession";
String units "unitless";
}
Bioproejct_number {
String long_name "Bioproejct_number";
String units "unitless";
}
Total_Bases {
String long_name "Total_bases";
String units "number of bases";
}
Library_Name {
String long_name "Library_name";
String units "Matches Sample ID above plus another unique identifier.";
}
}
NC_GLOBAL {
String cdm_data_type "Other";
String Conventions "COARDS, CF-1.6, ACDD-1.3";
String creator_email "info@bco-dmo.org";
String creator_name "BCO-DMO";
String creator_url "https://www.bco-dmo.org/";
String doi "10.26008/1912/bco-dmo.998771.1";
Float64 Easternmost_Easting -90.4497;
Float64 geospatial_lat_max 16.9798;
Float64 geospatial_lat_min 11.8122;
String geospatial_lat_units "degrees_north";
Float64 geospatial_lon_max -90.4497;
Float64 geospatial_lon_min -107.7;
String geospatial_lon_units "degrees_east";
Float64 geospatial_vertical_max 601.1;
Float64 geospatial_vertical_min 112.0;
String geospatial_vertical_positive "down";
String geospatial_vertical_units "m";
String history
"2026-07-04T06:16:15Z (local files)
2026-07-04T06:16:15Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_998771_v1.html";
String infoUrl "https://osprey.bco-dmo.org/dataset/998771";
String institution "BCO-DMO";
String license
"The data may be used and redistributed for free but is not intended
for legal use, since it may contain inaccuracies. Neither the data
Contributor, ERD, NOAA, nor the United States Government, nor any
of their employees or contractors, makes any warranty, express or
implied, including warranties of merchantability and fitness for a
particular purpose, or assumes any legal liability for the accuracy,
completeness, or usefulness, of this information.";
Float64 Northernmost_Northing 16.9798;
String sourceUrl "(local files)";
Float64 Southernmost_Northing 11.8122;
String summary "This dataset represents the shotgun metagenome samples used in used in Zhao et al., ISME J 2025. Samples for metagenomic sequencing were collected from the oxygen minimum zone in the Eastern Tropical Pacific Ocean during the R/V Sally Ride (SR2114) cruise, December 2021 – January 2022. Sea water was collected from all nine depths for all five sampling stations reported in the Zhao et al., paper (See Table for details). Collections were made using Niskin bottles on a rosette containing a conductivity–temperature–depth profiler (Sea-Bird SBE 911plus). DNA was extracted from biomass on collecting filters using the MoBio Power Soil kit (MoBio Inc. Carlsbad, CA, USA) and libraries were prepared for metagenomic sequencing using the Illumina DNA library prep kit with unique dual indexing according to manufacturer's instructions, except that the protocol was terminated after isolation of cleaned double stranded libraries. An equimolar mixture of the libraries was sequenced on an Illumina NovaSeq 6000 instrument at the Molecular Evolution Core, Georgia Institute of Technology. The shotgun metagenomes are available in the National Center for Biotechnology Information (NCBI) under BioProject number PRJNA1124864.";
String title "[Metagenome from the Pacific Ocean OMZ] - Sample information and accession numbers for metagenome samples collected in the Eastern Tropical Pacific Oxygen Minimum Zone on R/V Sally Ride cruise SR2114 during December 2021 to January 2022 (Collaborative Research: Microdiversity drives ecosystem function: SAR11 bacteria as models for oceanic nitrogen loss)";
Float64 Westernmost_Easting -107.7;
}
}
Data Access Protocol (DAP) and its
selection constraints.
The URL specifies what you want: the dataset, a description of the graph or the subset of the data, and the file type for the response.
Tabledap request URLs must be in the form
https://coastwatch.pfeg.noaa.gov/erddap/tabledap/datasetID.fileType{?query}
For example,
https://coastwatch.pfeg.noaa.gov/erddap/tabledap/pmelTaoDySst.htmlTable?longitude,latitude,time,station,wmo_platform_code,T_25&time>=2015-05-23T12:00:00Z&time<=2015-05-31T12:00:00Z
Thus, the query is often a comma-separated list of desired variable names,
followed by a collection of
constraints (e.g., variable<value),
each preceded by '&' (which is interpreted as "AND").
For details, see the tabledap Documentation.