Accessing BCO-DMO data
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BCO-DMO ERDDAP
Accessing BCO-DMO data |
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| Dataset Title: | [SAGs from the Pacific Ocean OMZ] - Single-cell amplified genomes (SAGs) collected during CTD casts in the Eastern Tropical Pacific Ocean on R/V Atlantis cruise AT50-08 during February-March 2023 (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_998887_v1) |
| Information: | Summary
| License
| FGDC
| ISO 19115
| Metadata
| Background
| Files
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Attributes {
s {
SAG_identifier {
String long_name "Sag_identifier";
String units "unitless";
}
Station {
String long_name "Station";
String units "unitless";
}
latitude {
String _CoordinateAxisType "Lat";
Float32 actual_range 18.1667, 18.8833;
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 -106.2833, -104.9;
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";
Int32 actual_range 40, 1000;
String axis "Z";
String ioos_category "Location";
String long_name "Depth";
String positive "down";
String standard_name "depth";
String units "m";
}
Collection_date {
String long_name "Collection_date";
String units "unitless";
}
Genome {
String long_name "Genome";
String units "unitless";
}
Clade {
String long_name "Clade";
String units "unitless";
}
Completeness {
Float32 actual_range 43.98, 97.59;
String long_name "Completeness";
String units "ranging from 0 to 100%";
}
Contamination {
Float32 actual_range 0.0, 7.23;
String long_name "Contamination";
String units "ranging from 0 to 100%";
}
Strain_heterogeneity {
Int32 actual_range 0, 100;
String long_name "Strain_heterogeneity";
String units "ranging from 0 to 100%";
}
Experiment_Accession {
String long_name "Experiment_accession";
String units "unitless";
}
Study_Accession {
String long_name "Study_accession";
String units "unitless";
}
Sample_Accession {
String long_name "Sample_accession";
String units "unitless";
}
SAG_ID {
String long_name "Sag_id";
String units "unitless";
}
}
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.998887.1";
Float64 Easternmost_Easting -104.9;
Float64 geospatial_lat_max 18.8833;
Float64 geospatial_lat_min 18.1667;
String geospatial_lat_units "degrees_north";
Float64 geospatial_lon_max -104.9;
Float64 geospatial_lon_min -106.2833;
String geospatial_lon_units "degrees_east";
Float64 geospatial_vertical_max 1000.0;
Float64 geospatial_vertical_min 40.0;
String geospatial_vertical_positive "down";
String geospatial_vertical_units "m";
String history
"2026-06-13T11:48:25Z (local files)
2026-06-13T11:48:25Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_998887_v1.html";
String infoUrl "https://osprey.bco-dmo.org/dataset/998887";
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 18.8833;
String sourceUrl "(local files)";
Float64 Southernmost_Northing 18.1667;
String summary "This dataset describes assembled genomes of single-cell amplified genomes (SAGs) used in Zhao et al., ISME 2025. Water samples were collected during conductivity–temperature–depth (CTD) casts from an oxygen minimum zone in the Eastern Tropical Pacific Ocean, where the SAR11 make up ~20% of the total microbial community, during the R/V Atlantis cruise AT50-08. Sorting was performed on 4 April 2023 (within 2 months from the date the first sample was collected) and SAGs were generated with the modified genomic DNA amplification technique, WGA-Y, which enables a substantially improved average genome recovery from single cells (serviceS-202). In total, 105 SAGs with Cp values<3h were randomly selected for sequencing. Genome assembly and draft annotation were performed by Single Cell Genomics Facility (SCGC), Maine, USA as described in the center's webpage https://scgc.bigelow.org/capabilities/service-description/ and in the Zhao et al., paper. The single-cell amplified genomes are available in the National Center for Biotechnology Information (NCBI) under BioProject number PRJNA1124867.";
String title "[SAGs from the Pacific Ocean OMZ] - Single-cell amplified genomes (SAGs) collected during CTD casts in the Eastern Tropical Pacific Ocean on R/V Atlantis cruise AT50-08 during February-March 2023 (Collaborative Research: Microdiversity drives ecosystem function: SAR11 bacteria as models for oceanic nitrogen loss)";
Float64 Westernmost_Easting -106.2833;
}
}
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.