ERDDAP > tabledap > Data Access Form

Dataset Title:	[Water column methane, methane oxidation, and pmoA gene copies] - Water column methane, methane oxidation, and pmoA gene copies above southern California methane seeps determined from samples collected on R/V Atlantis cruise AT50-12 in July 2023 (Collaborative Research: Redefining the footprint of deep ocean methane seepage for benthic ecosystems)
Institution:	BCO-DMO   (Dataset ID: bcodmo_dataset_986866_v1)
Information:	Summary | License | FGDC | ISO 19115 | Metadata | Background | Files | Make a graph

 

Variable	Optional Constraint #1		Optional Constraint #2		Minimum	Maximum
Date_UTC (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"2023-07-17"	"2023-07-26"
CTD_Start_Time_or_Alvin_Niskin_Closure_UTC (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"01:00:00"	"23:50:00"
time (Iso_datetime_utc, UTC)	!= =~ <= >= = < >		!= =~ <= >= = < >		2023-07-17T16:50:00Z	2023-07-26T15:45:00Z
Site_Name (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"Del Mar Seep"	"Santa Monica (800 ..."
CTD_or_Alvin_Sample_Number (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"11"	"AD5201-A"
Waypoint (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		1	10
latitude (degrees_north)	!= =~ <= >= = < >		!= =~ <= >= = < >		32.8339	33.8003
longitude (degrees_east)	!= =~ <= >= = < >		!= =~ <= >= = < >		-118.6488	-117.7765
Water_Depth (meters below sea level (mbsl))	!= =~ <= >= = < >		!= =~ <= >= = < >		2	1045
Methane (nanomoles per liter (nmol L-1))	!= =~ <= >= = < >		!= =~ <= >= = < >		32.69	249228.0
Methane_oxidation_Replicate_1 (nanomoles per liter per day (nmol L-1 d-1))	!= =~ <= >= = < >		!= =~ <= >= = < >		0.0	392.06
Methane_oxidation_Replicate_2 (nanomoles per liter per day (nmol L-1 d-1))	!= =~ <= >= = < >		!= =~ <= >= = < >		0.009	376.731
Methane_oxidation_Replicate_3 (nanomoles per liter per day (nmol L-1 d-1))	!= =~ <= >= = < >		!= =~ <= >= = < >		0.0	593.979
pmoA_gene_copy_number (Log pmoA copies per liter)	!= =~ <= >= = < >		!= =~ <= >= = < >		2.5	6.05

 

Server-side Functions

distinct()

orderBy orderByDescending orderByClosest orderByCount orderByLimit orderByMax orderByMin orderByMinMax orderByMean orderBySum (" Date_UTC CTD_Start_Time_or_Alvin_Niskin_Closure_UTC time Site_Name CTD_or_Alvin_Sample_Number Waypoint latitude longitude Water_Depth Methane Methane_oxidation_Replicate_1 Methane_oxidation_Replicate_2 Methane_oxidation_Replicate_3 pmoA_gene_copy_number Date_UTC CTD_Start_Time_or_Alvin_Niskin_Closure_UTC time Site_Name CTD_or_Alvin_Sample_Number Waypoint latitude longitude Water_Depth Methane Methane_oxidation_Replicate_1 Methane_oxidation_Replicate_2 Methane_oxidation_Replicate_3 pmoA_gene_copy_number Date_UTC CTD_Start_Time_or_Alvin_Niskin_Closure_UTC time Site_Name CTD_or_Alvin_Sample_Number Waypoint latitude longitude Water_Depth Methane Methane_oxidation_Replicate_1 Methane_oxidation_Replicate_2 Methane_oxidation_Replicate_3 pmoA_gene_copy_number Date_UTC CTD_Start_Time_or_Alvin_Niskin_Closure_UTC time Site_Name CTD_or_Alvin_Sample_Number Waypoint latitude longitude Water_Depth Methane Methane_oxidation_Replicate_1 Methane_oxidation_Replicate_2 Methane_oxidation_Replicate_3 pmoA_gene_copy_number Date_UTC CTD_Start_Time_or_Alvin_Niskin_Closure_UTC time Site_Name CTD_or_Alvin_Sample_Number Waypoint latitude longitude Water_Depth Methane Methane_oxidation_Replicate_1 Methane_oxidation_Replicate_2 Methane_oxidation_Replicate_3 pmoA_gene_copy_number ")

File type: (more information) .asc - View OPeNDAP-style ISO-8859-1 comma-separated text. .csv - Download a ISO-8859-1 comma-separated text table (line 1: names; line 2: units; ISO 8601 times). .csvp - Download a ISO-8859-1 .csv file with line 1: name (units). Times are ISO 8601 strings. .csv0 - Download a ISO-8859-1 .csv file without column names or units. Times are ISO 8601 strings. .dataTable - A JSON file formatted for use with the Google Visualization client library (Google Charts). .das - View the dataset's metadata via an ISO-8859-1 OPeNDAP Dataset Attribute Structure (DAS). .dds - View the dataset's structure via an ISO-8859-1 OPeNDAP Dataset Descriptor Structure (DDS). .dods - OPeNDAP clients use this to download the data in the DODS binary format. .esriCsv - Download a ISO_8859_1 .csv file for ESRI's ArcGIS 9.x and below (separate date and time columns). .fgdc - View the dataset's UTF-8 FGDC .xml metadata. .geoJson - Download longitude,latitude,otherColumns data as a UTF-8 GeoJSON .json file. .graph - View a Make A Graph web page. .help - View a web page with a description of tabledap. .html - View an OPeNDAP-style HTML Data Access Form. .htmlTable - View a UTF-8 .html web page with the data in a table. Times are ISO 8601 strings. .iso19115 - View the dataset's ISO 19115-2/19139 UTF-8 .xml metadata. .itx - Download an ISO-8859-1 Igor Text File. Each response column becomes a wave. .json - View a table-like UTF-8 JSON file (missing value = 'null'; times are ISO 8601 strings). .jsonlCSV1 - View a UTF-8 JSON Lines CSV file with column names on line 1 (mv = 'null'; times are ISO 8601 strings). .jsonlCSV - View a UTF-8 JSON Lines CSV file without column names (mv = 'null'; times are ISO 8601 strings). .jsonlKVP - View a UTF-8 JSON Lines file with Key:Value pairs (missing value = 'null'; times are ISO 8601 strings). .mat - Download a MATLAB binary file. .nc - Download a flat, table-like, NetCDF-3 binary file with COARDS/CF/ACDD metadata. .ncHeader - View the UTF-8 header (the metadata) for the NetCDF-3 .nc file. .ncCF - Download a NetCDF-3 CF Discrete Sampling Geometries file (Contiguous Ragged Array). .ncCFHeader - View the UTF-8 header (the metadata) for the .ncCF file. .ncCFMA - Download a NetCDF-3 CF Discrete Sampling Geometries file (Multidimensional Array). .ncCFMAHeader - View the UTF-8 header (the metadata) for the .ncCFMA file. .nccsv - Download a NetCDF-3-like 7-bit ASCII NCCSV .csv file with COARDS/CF/ACDD metadata. .nccsvMetadata - View the dataset's metadata as the top half of a 7-bit ASCII NCCSV .csv file. .ncoJson - Download a UTF-8 NCO lvl=2 JSON file with COARDS/CF/ACDD metadata. .odvTxt - Download longitude,latitude,time,otherColumns as an ISO-8859-1 ODV Generic Spreadsheet File (.txt). .subset - View an HTML form which uses faceted search to simplify picking subsets of the data. .tsv - Download a ISO-8859-1 tab-separated text table (line 1: names; line 2: units; ISO 8601 times). .tsvp - Download a ISO-8859-1 .tsv file with line 1: name (units). Times are ISO 8601 strings. .tsv0 - Download a ISO-8859-1 .tsv file without column names or units. Times are ISO 8601 strings. .wav - Download a .wav audio file. All columns must be numeric and of the same type. .xhtml - View a UTF-8 XHTML (XML) file with the data in a table. Times are ISO 8601 strings. .kml - View a .kml file, suitable for Google Earth. .smallPdf - View a small .pdf image file with a graph or map. .pdf - View a standard, medium-sized .pdf image file with a graph or map. .largePdf - View a large .pdf image file with a graph or map. .smallPng - View a small .png image file with a graph or map. .png - View a standard, medium-sized .png image file with a graph or map. .largePng - View a large .png image file with a graph or map. .transparentPng - View a .png image file (just the data, without axes, landmask, or legend).

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The Dataset Attribute Structure (.das) for this Dataset

Attributes {
 s {
  Date_UTC {
    String long_name "Date_utc";
    String units "unitless";
  }
  CTD_Start_Time_or_Alvin_Niskin_Closure_UTC {
    String long_name "Ctd_start_time_or_alvin_niskin_closure_utc";
    String units "unitless";
  }
  time {
    String _CoordinateAxisType "Time";
    Float64 actual_range 1.6896126e+9, 1.6903863e+9;
    String axis "T";
    String ioos_category "Time";
    String long_name "Iso_datetime_utc";
    String standard_name "time";
    String time_origin "01-JAN-1970 00:00:00";
    String units "seconds since 1970-01-01T00:00:00Z";
  }
  Site_Name {
    String long_name "Site_name";
    String units "unitless";
  }
  CTD_or_Alvin_Sample_Number {
    String long_name "Ctd_or_alvin_sample_number";
    String units "unitless";
  }
  Waypoint {
    Int32 actual_range 1, 10;
    String long_name "Waypoint";
    String units "unitless";
  }
  latitude {
    String _CoordinateAxisType "Lat";
    Float32 actual_range 32.8339, 33.8003;
    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 -118.6488, -117.7765;
    String axis "X";
    String ioos_category "Location";
    String long_name "Longitude";
    String standard_name "longitude";
    String units "degrees_east";
  }
  Water_Depth {
    Int32 actual_range 2, 1045;
    String long_name "Water_depth";
    String units "meters below sea level (mbsl)";
  }
  Methane {
    Float32 actual_range 32.69, 249228.0;
    String long_name "Methane";
    String units "nanomoles per liter (nmol L-1)";
  }
  Methane_oxidation_Replicate_1 {
    Float32 actual_range 0.0, 392.06;
    String long_name "Methane_oxidation_replicate_1";
    String units "nanomoles per liter per day (nmol L-1 d-1)";
  }
  Methane_oxidation_Replicate_2 {
    Float32 actual_range 0.009, 376.731;
    String long_name "Methane_oxidation_replicate_2";
    String units "nanomoles per liter per day (nmol L-1 d-1)";
  }
  Methane_oxidation_Replicate_3 {
    Float32 actual_range 0.0, 593.979;
    String long_name "Methane_oxidation_replicate_3";
    String units "nanomoles per liter per day (nmol L-1 d-1)";
  }
  pmoA_gene_copy_number {
    Float32 actual_range 2.5, 6.05;
    String long_name "Pmoa_gene_copy_number";
    String units "Log pmoA copies per liter";
  }
 }
  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 defaultDataQuery "&time<now";
    String doi "10.26008/1912/bco-dmo.986866.1";
    Float64 Easternmost_Easting -117.7765;
    Float64 geospatial_lat_max 33.8003;
    Float64 geospatial_lat_min 32.8339;
    String geospatial_lat_units "degrees_north";
    Float64 geospatial_lon_max -117.7765;
    Float64 geospatial_lon_min -118.6488;
    String geospatial_lon_units "degrees_east";
    String history 
"2026-04-08T22:34:05Z (local files)
2026-04-08T22:34:05Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_986866_v1.html";
    String infoUrl "https://osprey.bco-dmo.org/dataset/986866";
    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 33.8003;
    String sourceUrl "(local files)";
    Float64 Southernmost_Northing 32.8339;
    String summary "Marine methane (CH₄) seeps are dynamic biogeochemical systems that modulate carbon cycling and support high-biomass communities through microbial methane (CH₄) oxidation. While most CH₄ is consumed anaerobically in sediments, a fraction enters the water column, where aerobic methanotrophs form a biological filter limiting CH₄ flux to the atmosphere. However, the extent to which this microbial activity and CH₄ influence extend beyond visibly active seep zones remains poorly constrained, with implications for deep-sea food webs, biogeochemical gradients, and carbon cycling. We investigated CH₄ dynamics and methanotroph distribution across three seep sites on the Southern California margin (Del Mar, Santa Monica (800 meters) Mound, Lasuen Knoll; ~400–1200 meters depth). Using radiotracer (³H-CH₄) incubations, CH₄ concentration profiling, and particulate methane monooxygenase (pmoA) gene quantification, we sampled vertical and horizontal transects and near-bottom waters via the HOV Alvin. CH₄ oxidation was active not only within seep plumes but also in off-seep regions, with the highest rate (454 nanomoles per liter per day) observed within a CH₄-rich bubble plume. pmoA gene abundances remained relatively stable across both seep and off-seep waters, suggesting a persistent CH₄-oxidizing potential. These findings support an expanded \"methanosphere,\" a CH₄-influenced microbial zone shaped by physical transport and environmental gradients. This dataset is part of a PhD thesis: Klonicki-Ference, Emily F. \"Microbial Regulation of Methane and Redox Dynamics in the Water Column: From a Proterozoic Ocean Analog to Modern Marine Seeps.\" PhD diss., University of California, Los Angeles, 2025.";
    String time_coverage_end "2023-07-26T15:45:00Z";
    String time_coverage_start "2023-07-17T16:50:00Z";
    String title "[Water column methane, methane oxidation, and pmoA gene copies] - Water column methane, methane oxidation, and pmoA gene copies above southern California methane seeps determined from samples collected on R/V Atlantis cruise AT50-12 in July 2023 (Collaborative Research: Redefining the footprint of deep ocean methane seepage for benthic ecosystems)";
    Float64 Westernmost_Easting -118.6488;
  }
}

 

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Using tabledap to Request Data and Graphs from Tabular Datasets

tabledap lets you request a data subset, a graph, or a map from a tabular dataset (for example, buoy data), via a specially formed URL. tabledap uses the OPeNDAP 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.

• (easy) You can get data by using the dataset's Data Access Form or Subset form. They make the URL for you.
• (easy) You can make a graph or map by using the dataset's Make A Graph form. It makes the URL for you.
• (not hard) You can bypass the forms and get the data or make a graph or map by generating the URL by hand or with a computer program or script.

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.

 

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