Accessing BCO-DMO data
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BCO-DMO ERDDAP
Accessing BCO-DMO data |
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| Dataset Title: | [IODP360 - CHNS analyses] - Supplementary Table 1: Results of CHNS analyses in rock samples at different depths and sample images. (Collaborative Research: Delineating The Microbial Diversity and Cross-domain Interactions in The Uncharted Subseafloor Lower Crust Using Meta-omics and Culturing Approaches) 
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| Institution: | BCO-DMO (Dataset ID: bcodmo_dataset_810902) |
| Information: | Summary
| License
| FGDC
| ISO 19115
| Metadata
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Attributes {
s {
Sample_ID {
String bcodmo_name "sample";
String description "Sample ID";
String long_name "Sample ID";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P02/current/ACYC/";
String units "unitless";
}
depth {
String _CoordinateAxisType "Height";
String _CoordinateZisPositive "down";
Float64 _FillValue NaN;
Float64 actual_range 10.7, 747.7;
String axis "Z";
String bcodmo_name "depth";
Float64 colorBarMaximum 8000.0;
Float64 colorBarMinimum -8000.0;
String colorBarPalette "TopographyDepth";
String description "Depth below sea floor";
String ioos_category "Location";
String long_name "Depth";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P09/current/DEPH/";
String positive "down";
String standard_name "depth";
String units "m";
}
TOC {
Float32 _FillValue NaN;
Float32 actual_range 0.006, 0.018;
String bcodmo_name "TOC";
String description "Total Organic Carbon";
String long_name "TOC";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/CORGCOTX/";
String units "percentage (%)";
}
TON {
String bcodmo_name "TON";
String description "Total Organic Nitrogen - bd = below detection limit";
String long_name "TON";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/NTOTZZZZ/";
String units "percentage (%)";
}
Total_C_Total_N {
Float32 _FillValue NaN;
Float32 actual_range 4.08, 12.4;
String bcodmo_name "C_to_N";
String description "Total Carbon/Total Nitrogen";
String long_name "Total C Total N";
String units "percentage (%)";
}
Ratio_13C_12C {
Float32 _FillValue NaN;
Float32 actual_range -27.8, -23.0;
String bcodmo_name "d13C_DIC";
String description "Ratio of stable isotopes 13C/12C";
String long_name "Ratio 13 C 12 C";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/D13CMIBX/";
String units "percentage (%)";
}
Clay_OH {
Float32 _FillValue NaN;
Float32 actual_range 0.0, 1.083;
String bcodmo_name "percent composition";
String description "wt% OH from clays (150-300°C)";
String long_name "Clay OH";
String units "percentage (%)";
}
Observations {
String bcodmo_name "sample_descrip";
String description "Lithology and alteration observations";
String long_name "Observations";
String units "unitless";
}
Reference_Picture {
String bcodmo_name "sample_descrip";
String description "Sample image. See \"Data Files\" section of metadata for .zip file of images.";
String fileAccessBaseUrl "https://datadocs.bco-dmo.org/docs/Subseafloor_Lower_Crust_Microbiology/data_docs/810902/pictures/";
String long_name "Reference Picture";
String units "unitless";
}
latitude {
String _CoordinateAxisType "Lat";
Float64 _FillValue NaN;
Float64 actual_range -32.70567, -32.70567;
String axis "Y";
String bcodmo_name "latitude";
Float64 colorBarMaximum 90.0;
Float64 colorBarMinimum -90.0;
String description "Latitude, south is negative";
String ioos_category "Location";
String long_name "Latitude";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P09/current/LATX/";
String standard_name "latitude";
String units "degrees_north";
}
longitude {
String _CoordinateAxisType "Lon";
Float64 _FillValue NaN;
Float64 actual_range 57.278183, 57.278183;
String axis "X";
String bcodmo_name "longitude";
Float64 colorBarMaximum 180.0;
Float64 colorBarMinimum -180.0;
String description "Longitude, west is negative";
String ioos_category "Location";
String long_name "Longitude";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P09/current/LONX/";
String standard_name "longitude";
String units "degrees_east";
}
}
NC_GLOBAL {
String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv,.esriCsv,.geoJson";
String acquisition_description
"Powderized rock material 462 from each sample (produced in the laminar flow
hood on the JOIDES Resolution using a sterile mortar and pestle) was
immediately transferred to sterile, muffled glass containers and stored in a
desiccator until analysis of carbon and nitrogen according to established
methods. Briefly, samples were weighed into methanol rinsed silver boats (4 x
6 mm, Costech). 96-well glass plates (combusted 4 hrs at 450\\u00b0C) holding
these samples were placed in a vacuum desiccator that also contained an open
dish with about 50 mL fresh, concentrated (12N) HCl. An inverted
crystallization dish was placed over the samplesto protect them from water
condensation. The desiccator was closed and pumped out with an airdriven
aspirator, to a reading of about ~ 0.5 atm and the desiccator was placed in an
oven kept between 60 and 65 \\u00b0C. Acidification was allowed to run for 60
to 72 hours. When acidification was complete, the samples were removed and set
in the oven to dry (60-65 \\u00b0C), and then placed in a vacuum desiccator
charged with indicating silica gel (Fisher S162-500, activated by heating
above 220 \\u00b0C for several hours) and pumped down again and dried for about
24 hours.
\\u00a0";
String awards_0_award_nid "709555";
String awards_0_award_number "OCE-1658031";
String awards_0_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1658031";
String awards_0_funder_name "NSF Division of Ocean Sciences";
String awards_0_funding_acronym "NSF OCE";
String awards_0_funding_source_nid "355";
String awards_0_program_manager "David L. Garrison";
String awards_0_program_manager_nid "50534";
String cdm_data_type "Other";
String comment
"SUpplementary Table 1: CHNS analysis
PI: Virginia Edgcomb
Data Version 1: 2020-05-11";
String Conventions "COARDS, CF-1.6, ACDD-1.3";
String creator_email "info@bco-dmo.org";
String creator_name "BCO-DMO";
String creator_type "institution";
String creator_url "https://www.bco-dmo.org/";
String data_source "extract_data_as_tsv version 2.3 19 Dec 2019";
String dataset_current_state "Final and no updates";
String date_created "2020-05-08T12:26:32Z";
String date_modified "2020-07-08T16:51:07Z";
String defaultDataQuery "&time<now";
String doi "10.26008/1912/bco-dmo.810902.1";
Float64 Easternmost_Easting 57.278183;
Float64 geospatial_lat_max -32.70567;
Float64 geospatial_lat_min -32.70567;
String geospatial_lat_units "degrees_north";
Float64 geospatial_lon_max 57.278183;
Float64 geospatial_lon_min 57.278183;
String geospatial_lon_units "degrees_east";
Float64 geospatial_vertical_max 747.7;
Float64 geospatial_vertical_min 10.7;
String geospatial_vertical_positive "down";
String geospatial_vertical_units "m";
String history
"2024-11-08T06:21:41Z (local files)
2024-11-08T06:21:41Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_810902.html";
String infoUrl "https://www.bco-dmo.org/dataset/810902";
String institution "BCO-DMO";
String instruments_0_acronym "IR Mass Spec";
String instruments_0_dataset_instrument_nid "810915";
String instruments_0_description "The Isotope-ratio Mass Spectrometer is a particular type of mass spectrometer used to measure the relative abundance of isotopes in a given sample (e.g. VG Prism II Isotope Ratio Mass-Spectrometer).";
String instruments_0_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/LAB16/";
String instruments_0_instrument_name "Isotope-ratio Mass Spectrometer";
String instruments_0_instrument_nid "469";
String instruments_0_supplied_name "DeltaPlus isotope ratio mass spectrometer";
String instruments_1_acronym "Costech ECS 4010";
String instruments_1_dataset_instrument_nid "810914";
String instruments_1_description "The ECS 4010 Nitrogen / Protein Analyzer is an elemental combustion analyser for CHNSO elemental analysis and Nitrogen / Protein determination. The GC oven and separation column have a temperature range of 30-110 degC, with control of +/- 0.1 degC.";
String instruments_1_instrument_name "Costech International Elemental Combustion System (ECS) 4010";
String instruments_1_instrument_nid "793023";
String instruments_1_supplied_name "Costech 4010 Elemental Analyzer";
String keywords "bco, bco-dmo, biological, chemical, clay, Clay_OH, data, dataset, depth, dmo, erddap, latitude, longitude, management, observations, oceanography, office, picture, preliminary, ratio, Ratio_13C_12C, reference, Reference_Picture, sample, Sample_ID, toc, ton, total, Total_C_Total_N";
String license "https://www.bco-dmo.org/dataset/810902/license";
String metadata_source "https://www.bco-dmo.org/api/dataset/810902";
Float64 Northernmost_Northing -32.70567;
String param_mapping "{'810902': {'Latitude': 'flag - latitude', 'Depth': 'flag - depth', 'Longitude': 'flag - longitude'}}";
String parameter_source "https://www.bco-dmo.org/mapserver/dataset/810902/parameters";
String people_0_affiliation "Woods Hole Oceanographic Institution";
String people_0_affiliation_acronym "WHOI";
String people_0_person_name "Virginia P. Edgcomb";
String people_0_person_nid "51284";
String people_0_role "Principal Investigator";
String people_0_role_type "originator";
String people_1_affiliation "Woods Hole Oceanographic Institution";
String people_1_affiliation_acronym "WHOI";
String people_1_person_name "Virginia P. Edgcomb";
String people_1_person_nid "51284";
String people_1_role "Contact";
String people_1_role_type "related";
String people_2_affiliation "Woods Hole Oceanographic Institution";
String people_2_affiliation_acronym "WHOI BCO-DMO";
String people_2_person_name "Karen Soenen";
String people_2_person_nid "748773";
String people_2_role "BCO-DMO Data Manager";
String people_2_role_type "related";
String project "Subseafloor Lower Crust Microbiology";
String projects_0_acronym "Subseafloor Lower Crust Microbiology";
String projects_0_description
"NSF abstract:
The lower ocean crust has remained largely unexplored and represents one of the last frontiers for biological exploration on Earth. Preliminary data indicate an active subsurface biosphere in samples of the lower oceanic crust collected from Atlantis Bank in the SW Indian Ocean as deep as 790 m below the seafloor. Even if life exists in only a fraction of the habitable volume where temperatures permit and fluid flow can deliver carbon and energy sources, an active lower oceanic crust biosphere would have implications for deep carbon budgets and yield insights into microbiota that may have existed on early Earth. This is all of great interest to other research disciplines, educators, and students alike. A K-12 education program will capitalize on groundwork laid by outreach collaborator, A. Martinez, a 7th grade teacher in Eagle Pass, TX, who sailed as outreach expert on Drilling Expedition 360. Martinez works at a Title 1 school with ~98% Hispanic and ~2% Native American students and a high number of English Language Learners and migrants. Annual school visits occur during which the project investigators present hands on-activities introducing students to microbiology, and talks on marine microbiology, the project, and how to pursue science related careers. In addition, monthly Skype meetings with students and PIs update them on project progress. Students travel to the University of Texas Marine Science Institute annually, where they get a campus tour and a 3-hour cruise on the R/V Katy, during which they learn about and help with different oceanographic sampling approaches. The project partially supports two graduate students, a Woods Hole undergraduate summer student, the participation of multiple Texas A+M undergraduate students, and 3 principal investigators at two institutions, including one early career researcher who has not previously received NSF support of his own.
Given the dearth of knowledge of the lower oceanic crust, this project is poised to transform our understanding of life in this vast environment. The project assesses metabolic functions within all three domains of life in this crustal biosphere, with a focus on nutrient cycling and evaluation of connections to other deep marine microbial habitats. The lower ocean crust represents a potentially vast biosphere whose microbial constituents and the biogeochemical cycles they mediate are likely linked to deep ocean processes through faulting and subsurface fluid flow. Atlantis Bank represents a tectonic window that exposes lower oceanic crust directly at the seafloor. This enables seafloor drilling and research on an environment that can transform our understanding of connections between the deep subseafloor biosphere and the rest of the ocean. Preliminary analysis of recovered rocks from Expedition 360 suggests the interaction of seawater with the lower oceanic crust creates varied geochemical conditions capable of supporting diverse microbial life by providing nutrients and chemical energy. This project is the first interdisciplinary investigation of the microbiology of all 3 domains of life in basement samples that combines diversity and \"meta-omics\" analyses, analysis of nutrient addition experiments, high-throughput culturing and physiological analyses of isolates, including evaluation of their ability to utilize specific carbon sources, Raman spectroscopy, and lipid biomarker analyses. Comparative genomics are used to compare genes and pathways relevant to carbon cycling in these samples to data from published studies of other deep-sea environments. The collected samples present a rare and time-sensitive opportunity to gain detailed insights into microbial life, available carbon and energy sources for this life, and of dispersal of microbiota and connections in biogeochemical processes between the lower oceanic crust and the overlying aphotic water column.
About the study area:
The International Ocean Discovery Program (IODP) Expedition 360 explored the lower crust at Atlantis Bank, a 12 Ma oceanic core complex on the ultraslow-spreading SW Indian Ridge. This oceanic core complex represents a tectonic window that exposes lower oceanic crust and mantle directly at the seafloor, and the expedition provided an unprecedented opportunity to access this habitat in the Indian Ocean.";
String projects_0_end_date "2020-01";
String projects_0_geolocation "SW Indian Ridge, Indian Ocean";
String projects_0_name "Collaborative Research: Delineating The Microbial Diversity and Cross-domain Interactions in The Uncharted Subseafloor Lower Crust Using Meta-omics and Culturing Approaches";
String projects_0_project_nid "709556";
String projects_0_start_date "2017-02";
String publisher_name "Biological and Chemical Oceanographic Data Management Office (BCO-DMO)";
String publisher_type "institution";
String sourceUrl "(local files)";
Float64 Southernmost_Northing -32.70567;
String standard_name_vocabulary "CF Standard Name Table v55";
String subsetVariables "latitude,longitude";
String summary "Results of CHNS analyses in rock samples at different depths and sample images taken on board of the R/V JOIDES Resolution between November 30, 2015 and January 30, 2016";
String title "[IODP360 - CHNS analyses] - Supplementary Table 1: Results of CHNS analyses in rock samples at different depths and sample images. (Collaborative Research: Delineating The Microbial Diversity and Cross-domain Interactions in The Uncharted Subseafloor Lower Crust Using Meta-omics and Culturing Approaches)";
String version "1";
Float64 Westernmost_Easting 57.278183;
String xml_source "osprey2erddap.update_xml() v1.5";
}
}
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.