Accessing BCO-DMO data
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BCO-DMO ERDDAP
Accessing BCO-DMO data |
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| Dataset Title: | [IODP360 - Drill fluid contamination testing] - Supplementary Table 2: Drill fluid contamination testiFMC in drilling. GC mass spectrometry measurements of concentrations of the tracers PFMD and Png fluid and sample materials (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_810923) |
| Information: | Summary
| License
| ISO 19115
| Metadata
| Background
| Files
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Attributes {
s {
Tracer {
String bcodmo_name "sample_descrip";
String description "PFMB or PMCH tracer";
String long_name "Tracer";
String units "unitless";
}
Sample {
String bcodmo_name "sample";
String description "Sample ID";
String long_name "Sample";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P02/current/ACYC/";
String units "unitless";
}
Replicate {
String bcodmo_name "replicate";
String description "Replicate number";
String long_name "Replicate";
String units "unitless";
}
Drilling_Fluid {
String bcodmo_name "unknown";
String description "Tracer concentration in drilling fluid";
String long_name "Drilling Fluid";
String units "part per billion (ppb); Abbreviations: bd=below detection limit; ad=above detection limit/-a: after 4 washes; -b: after 3 washes ; -c: no core liner used";
}
Core_Exterior_Before_Cleaning {
String bcodmo_name "unknown";
String description "Tracer concentration on core exterior before cleaning";
String long_name "Core Exterior Before Cleaning";
String units "part per billion (ppb); Abbreviations: bd=below detection limit; ad=above detection limit/-a: after 4 washes; -b: after 3 washes ; -c: no core liner used";
}
Core_Exterior_After_Cleaning {
String bcodmo_name "unknown";
String description "Tracer concentration on core exterior after cleaning";
String long_name "Core Exterior After Cleaning";
String units "part per billion (ppb); Abbreviations: bd=below detection limit; ad=above detection limit/-a: after 4 washes; -b: after 3 washes ; -c: no core liner used";
}
Core_Interior {
String bcodmo_name "unknown";
String description "Tracer concentration on core";
String long_name "Core Interior";
String units "part per billion (ppb); Abbreviations: bd=below detection limit; ad=above detection limit/-a: after 4 washes; -b: after 3 washes ; -c: no core liner used";
}
}
NC_GLOBAL {
String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv";
String acquisition_description
"Contamination controls. Rotary coring contaminates the exteriors of core
samples due to the circulation of drilling fluids (a mixture of Sepiolite and
surface seawater) around the drilling bits. Extreme care was taken to
remove/minimize this contamination and to not introduce new contamination
during sample handling and analysis. During IODP Expedition 360, a new less
volatile tracer, perfluoromethyldecalin (PFMD), was successfully tested and
calibrated and thus used to quantify intrusion of drilling fluids into the
interior of samples.";
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 2: Drill fluid
PI: Virginia Edgcomb
Data Version 1: 2020-05-12
Abbreviations: bd=below detection limit; ad=above detection limit
Superscripts: -a: after 4 washes; -b: after 3 washes ; -c: no core liner used";
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 "2020-05-08T14:03:57Z";
String date_modified "2020-07-08T20:29:20Z";
String defaultDataQuery "&time<now";
String doi "10.26008/1912/bco-dmo.810923.1";
String history
"2024-12-21T14:15:36Z (local files)
2024-12-21T14:15:36Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_810923.html";
String infoUrl "https://www.bco-dmo.org/dataset/810923";
String institution "BCO-DMO";
String instruments_0_acronym "Gas Chromatograph";
String instruments_0_dataset_instrument_nid "810927";
String instruments_0_description "Instrument separating gases, volatile substances, or substances dissolved in a volatile solvent by transporting an inert gas through a column packed with a sorbent to a detector for assay. (from SeaDataNet, BODC)";
String instruments_0_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/LAB02/";
String instruments_0_instrument_name "Gas Chromatograph";
String instruments_0_instrument_nid "661";
String instruments_0_supplied_name "Gas Chromatograph (GC) Hewlett Packard 5890";
String keywords "after, bco, bco-dmo, before, biological, chemical, cleaning, core, Core_Exterior_After_Cleaning, Core_Exterior_Before_Cleaning, Core_Interior, data, dataset, dmo, drilling, Drilling_Fluid, erddap, exterior, fluid, interior, management, oceanography, office, preliminary, replicate, sample, tracer";
String license "https://www.bco-dmo.org/dataset/810923/license";
String metadata_source "https://www.bco-dmo.org/api/dataset/810923";
String param_mapping "{'810923': {}}";
String parameter_source "https://www.bco-dmo.org/mapserver/dataset/810923/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)";
String standard_name_vocabulary "CF Standard Name Table v55";
String summary "Supplementary Table 2: Drill fluid contamination testing. GC mass spectrometry measurements of concentrations of the tracers PFMD and PFMC in drilling fluid and sample materials.";
String title "[IODP360 - Drill fluid contamination testing] - Supplementary Table 2: Drill fluid contamination testiFMC in drilling. GC mass spectrometry measurements of concentrations of the tracers PFMD and Png fluid and sample materials (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";
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.