BCO-DMO ERDDAP
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Row Type Variable Name Attribute Name Data Type Value
attribute NC_GLOBAL access_formats String .htmlTable,.csv,.json,.mat,.nc,.tsv,.esriCsv,.geoJson
attribute NC_GLOBAL acquisition_description String Crushed core samples stored in falcon tubes at -80 \\u00b0C were first milled\nfor 10 min to a fine powder and subsequently extracted with a modified Bligh\nand Dyer method after Sturt et al. (2004). Prior to milling and extraction of\neach sample a procedure blank was performed. First a milling blank was\nperformed using combusted sea sand (fired at 450 \\u00b0C for 5 hrs) to clean\nthe mill and to limit cross-contamination of samples. Subsequently, this sea\nsand was then transferred to geo-cleaned (rinsed three times with a mixture of\nmethanol, MeOH and dichloromethane, DCM) Teflon\\u00ae containers used for\nextraction of the samples and solvent-extracted in the same manner as the\nsamples. For this, 100 ng of an internal standard (C46 GTGT) and ca. 50 mL of\na solvent mixture of DCM:MeOH:buffer (2:1:0.8, v/v) was added to the sample in\nthe Teflon\\u00ae container and ultrasonicated for 10 mins using a geo-cleaned\nultrasonic stick.\n \nAfter ultrasonication, the samples were centrifuged (1750 rpm at 10 min) and\nthe supernatant was transferred to a fired separatory funnel. The samples were\nextracted in four steps, for the first two steps a phosphate buffer (K2HPO4,\n50 mM at pH 7.4) was used, in the second step the phosphate buffer was\nreplaced by 5 was used, in the second step the phosphate buffer was replaced\nby 5 % trichloroacetic acid (50 g L-1 at pH 2), and in the last step only\nDCM:MeOH (9:1, v/v) was used. Equal amounts of DCM and deionized MilliQ water\nwere added to the extract collected in the separatory funnel, the mixture was\nshaken, and the organic phase was collected as the total lipid extract (TLE)\nand blown to dryness under a gentle stream of nitrogen.\n \nAn aliquot of the TLE was analyzed via ultra-high-pressure liquid\nchromatography (UHPLC) coupled to mass spectrometry (MS) on a Dionex Ultimate\n3000RS UHPLC connected to an ABSciEX QTRAP4500 Triple Quadrupole/Ion Trap MS\n(UHPLC-Triple Quad-MS) via a Turbolon electrospray ion source (ESI).\nSeparation of compounds was achieved on a Waters Acquity BEH C18 column (1.7\n\\u03bcm, 2.1x150 mm) equipped with a guard column of the same material\nfollowing the protocol described in Klein et al. (2015). Compounds of interest\nwere screened for by using multiple reaction monitoring (MRM) and selected ion\nmonitoring (SIM) techniques after Klein et al. (2015). Concentrations of\nlipids were determined relative to the internal C46 GTGT standard and were\ncorrected for individual response factors using commercially available\nstandards (diC16-DEG, archaeol) and isolated standards from cultures (GDGT-0,\n1G-AR, 2G522AR, 1G-GDGT-0, 2G-GDGT-0). The presence of crenarchaeol was\nconfirmed by core GDGT analysis after Becker et al. (2013).\n \nBriefly an aliquot of the TLE was analysed on Dionex Ultimate 3000RS UHPLC\nconnected to a Bruker maXis ultra-high resolution quadrupole time-of-flight\nmass spectrometer, equipped with an APCI II source. Compounds were separated\nusing two aquity BEH HILIC amide columns (1.7 \\u03bcm, 2.1x300 mm) in tandem\nmaintained at 50 \\u00b0C, and n-hexane as eluent A and n528\nhexane:isopropanol, 90:10, v:v as eluent B (REF). Drilling mud and extraction\nblank contamination controls were also run for lipid biomarker analyses.
attribute NC_GLOBAL awards_0_award_nid String 709555
attribute NC_GLOBAL awards_0_award_number String OCE-1658031
attribute NC_GLOBAL awards_0_data_url String http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1658031 (external link)
attribute NC_GLOBAL awards_0_funder_name String NSF Division of Ocean Sciences
attribute NC_GLOBAL awards_0_funding_acronym String NSF OCE
attribute NC_GLOBAL awards_0_funding_source_nid String 355
attribute NC_GLOBAL awards_0_program_manager String David L. Garrison
attribute NC_GLOBAL awards_0_program_manager_nid String 50534
attribute NC_GLOBAL cdm_data_type String Other
attribute NC_GLOBAL comment String Supplementary Table 3A: Lipid biomarkers ratio \n  Pi: Virginia Edgcomb  \n  Data Version 1: 2020-06-22
attribute NC_GLOBAL Conventions String COARDS, CF-1.6, ACDD-1.3
attribute NC_GLOBAL creator_email String info at bco-dmo.org
attribute NC_GLOBAL creator_name String BCO-DMO
attribute NC_GLOBAL creator_type String institution
attribute NC_GLOBAL creator_url String https://www.bco-dmo.org/ (external link)
attribute NC_GLOBAL data_source String extract_data_as_tsv version 2.3  19 Dec 2019
attribute NC_GLOBAL dataset_current_state String Final and no updates
attribute NC_GLOBAL date_created String 2020-05-13T15:50:57Z
attribute NC_GLOBAL date_modified String 2020-07-08T20:32:38Z
attribute NC_GLOBAL defaultDataQuery String &time<now
attribute NC_GLOBAL doi String 10.26008/1912/bco-dmo.811268.1
attribute NC_GLOBAL Easternmost_Easting double 57.278183
attribute NC_GLOBAL geospatial_lat_max double -32.70567
attribute NC_GLOBAL geospatial_lat_min double -32.70567
attribute NC_GLOBAL geospatial_lat_units String degrees_north
attribute NC_GLOBAL geospatial_lon_max double 57.278183
attribute NC_GLOBAL geospatial_lon_min double 57.278183
attribute NC_GLOBAL geospatial_lon_units String degrees_east
attribute NC_GLOBAL geospatial_vertical_max double 747.8
attribute NC_GLOBAL geospatial_vertical_min double 10.7
attribute NC_GLOBAL geospatial_vertical_positive String down
attribute NC_GLOBAL geospatial_vertical_units String m
attribute NC_GLOBAL infoUrl String https://www.bco-dmo.org/dataset/811268 (external link)
attribute NC_GLOBAL institution String BCO-DMO
attribute NC_GLOBAL instruments_0_acronym String HPLC
attribute NC_GLOBAL instruments_0_dataset_instrument_description String All membrane lipid analyses were performed at MARUM (Bremen, Germany) with an ultra-high-pressure liquid chromatography (UHPLC) coupled to mass spectrometry (MS) on a Dionex Ultimate 3000RS UHPLC connected to an ABSciEX QTRAP4500 Triple Quadrupole/Ion Trap MS (UHPLC-Triple Quad-MS) via a Turbolon electrospray ion source (ESI)
attribute NC_GLOBAL instruments_0_dataset_instrument_nid String 811272
attribute NC_GLOBAL instruments_0_description String A High-performance liquid chromatograph (HPLC) is a type of liquid chromatography used to separate compounds that are dissolved in solution. HPLC instruments consist of a reservoir of the mobile phase, a pump, an injector, a separation column, and a detector. Compounds are separated by high pressure pumping of the sample mixture onto a column packed with microspheres coated with the stationary phase. The different components in the mixture pass through the column at different rates due to differences in their partitioning behavior between the mobile liquid phase and the stationary phase.
attribute NC_GLOBAL instruments_0_instrument_external_identifier String https://vocab.nerc.ac.uk/collection/L05/current/LAB11/ (external link)
attribute NC_GLOBAL instruments_0_instrument_name String High Performance Liquid Chromatograph
attribute NC_GLOBAL instruments_0_instrument_nid String 506
attribute NC_GLOBAL instruments_1_acronym String Mass Spec
attribute NC_GLOBAL instruments_1_dataset_instrument_description String All membrane lipid analyses were performed at MARUM (Bremen, Germany) with an ultra-high-pressure liquid chromatography (UHPLC) coupled to mass spectrometry (MS) on a Dionex Ultimate 3000RS UHPLC connected to an ABSciEX QTRAP4500 Triple Quadrupole/Ion Trap MS (UHPLC-Triple Quad-MS) via a Turbolon electrospray ion source (ESI).
attribute NC_GLOBAL instruments_1_dataset_instrument_nid String 811273
attribute NC_GLOBAL instruments_1_description String General term for instruments used to measure the mass-to-charge ratio of ions; generally used to find the composition of a sample by generating a mass spectrum representing the masses of sample components.
attribute NC_GLOBAL instruments_1_instrument_external_identifier String https://vocab.nerc.ac.uk/collection/L05/current/LAB16/ (external link)
attribute NC_GLOBAL instruments_1_instrument_name String Mass Spectrometer
attribute NC_GLOBAL instruments_1_instrument_nid String 685
attribute NC_GLOBAL keywords String archaea, Archaea_IPLcore, archaeol, ars, average, bacteria, Bacteria_average_chain_length, bacterial, bco, bco-dmo, biological, chain, chemical, core, Core_lipids_bacterial_diether_glyerol_lipids, Core_lipids_core_archaeol, Core_lipids_core_GDGT, data, dataset, depth, diether, dmo, erddap, G_GDGTs_core_GDGT, gar, gars, GARs_core_ARs, gdgt, gdgts, ggdgt, glyerol, intact, Intact_polar_lipids_1G_2GAR, Intact_polar_lipids_1G_2GGDGT, iplcore, latitude, length, lipids, longitude, management, oceanography, office, polar, preliminary, sample
attribute NC_GLOBAL license String https://www.bco-dmo.org/dataset/811268/license (external link)
attribute NC_GLOBAL metadata_source String https://www.bco-dmo.org/api/dataset/811268 (external link)
attribute NC_GLOBAL Northernmost_Northing double -32.70567
attribute NC_GLOBAL param_mapping String {'811268': {'Latitude': 'flag - latitude', 'Depth': 'flag - depth', 'Longitude': 'flag - longitude'}}
attribute NC_GLOBAL parameter_source String https://www.bco-dmo.org/mapserver/dataset/811268/parameters (external link)
attribute NC_GLOBAL people_0_affiliation String Woods Hole Oceanographic Institution
attribute NC_GLOBAL people_0_affiliation_acronym String WHOI
attribute NC_GLOBAL people_0_person_name String Virginia P. Edgcomb
attribute NC_GLOBAL people_0_person_nid String 51284
attribute NC_GLOBAL people_0_role String Principal Investigator
attribute NC_GLOBAL people_0_role_type String originator
attribute NC_GLOBAL people_1_affiliation String Woods Hole Oceanographic Institution
attribute NC_GLOBAL people_1_affiliation_acronym String WHOI
attribute NC_GLOBAL people_1_person_name String Virginia P. Edgcomb
attribute NC_GLOBAL people_1_person_nid String 51284
attribute NC_GLOBAL people_1_role String Contact
attribute NC_GLOBAL people_1_role_type String related
attribute NC_GLOBAL people_2_affiliation String Woods Hole Oceanographic Institution
attribute NC_GLOBAL people_2_affiliation_acronym String WHOI BCO-DMO
attribute NC_GLOBAL people_2_person_name String Karen Soenen
attribute NC_GLOBAL people_2_person_nid String 748773
attribute NC_GLOBAL people_2_role String BCO-DMO Data Manager
attribute NC_GLOBAL people_2_role_type String related
attribute NC_GLOBAL project String Subseafloor Lower Crust Microbiology
attribute NC_GLOBAL projects_0_acronym String Subseafloor Lower Crust Microbiology
attribute NC_GLOBAL projects_0_description String NSF abstract:\nThe 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.\nGiven 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.\nAbout the study area:\nThe 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.
attribute NC_GLOBAL projects_0_end_date String 2020-01
attribute NC_GLOBAL projects_0_geolocation String SW Indian Ridge, Indian Ocean
attribute NC_GLOBAL projects_0_name String Collaborative Research: Delineating The Microbial Diversity and Cross-domain Interactions in The Uncharted Subseafloor Lower Crust Using Meta-omics and Culturing Approaches
attribute NC_GLOBAL projects_0_project_nid String 709556
attribute NC_GLOBAL projects_0_start_date String 2017-02
attribute NC_GLOBAL publisher_name String Biological and Chemical Oceanographic Data Management Office (BCO-DMO)
attribute NC_GLOBAL publisher_type String institution
attribute NC_GLOBAL sourceUrl String (local files)
attribute NC_GLOBAL Southernmost_Northing double -32.70567
attribute NC_GLOBAL standard_name_vocabulary String CF Standard Name Table v55
attribute NC_GLOBAL subsetVariables String latitude,longitude
attribute NC_GLOBAL summary String Overview of archaeal and bacterial lipid biomarkers and cell counts. Concentration of archaeal and bacterial lipid biomarkers, ratio of core vs intact polar lipids and average chain length of bacterial dietherglycerol lipids. Samples  taken on board of the R/V JOIDES Resolution between November 30, 2015 and January 30, 2016
attribute NC_GLOBAL title String [IODP360 - Archaeal and bacterial lipid biomarkers] - Supplementary Table 3A: Concentration of archaeal and bacterial lipid biomarkers, ratio of core vs intact polar lipids and average chain length of bacterial dietherglycerol lipids. (Collaborative Research: Delineating The Microbial Diversity and Cross-domain Interactions in The Uncharted Subseafloor Lower Crust Using Meta-omics and Culturing Approaches)
attribute NC_GLOBAL version String 1
attribute NC_GLOBAL Westernmost_Easting double 57.278183
attribute NC_GLOBAL xml_source String osprey2erddap.update_xml() v1.5
variable Sample String
attribute Sample bcodmo_name String sample
attribute Sample description String Sample ID
attribute Sample long_name String Sample
attribute Sample nerc_identifier String https://vocab.nerc.ac.uk/collection/P02/current/ACYC/ (external link)
attribute Sample units String unitless
variable latitude double
attribute latitude _CoordinateAxisType String Lat
attribute latitude _FillValue double NaN
attribute latitude actual_range double -32.70567, -32.70567
attribute latitude axis String Y
attribute latitude bcodmo_name String latitude
attribute latitude colorBarMaximum double 90.0
attribute latitude colorBarMinimum double -90.0
attribute latitude description String Latitude, south is negative
attribute latitude ioos_category String Location
attribute latitude long_name String Latitude
attribute latitude nerc_identifier String https://vocab.nerc.ac.uk/collection/P09/current/LATX/ (external link)
attribute latitude standard_name String latitude
attribute latitude units String degrees_north
variable longitude double
attribute longitude _CoordinateAxisType String Lon
attribute longitude _FillValue double NaN
attribute longitude actual_range double 57.278183, 57.278183
attribute longitude axis String X
attribute longitude bcodmo_name String longitude
attribute longitude colorBarMaximum double 180.0
attribute longitude colorBarMinimum double -180.0
attribute longitude description String Longitude, west is negative
attribute longitude ioos_category String Location
attribute longitude long_name String Longitude
attribute longitude nerc_identifier String https://vocab.nerc.ac.uk/collection/P09/current/LONX/ (external link)
attribute longitude standard_name String longitude
attribute longitude units String degrees_east
variable depth double
attribute depth _CoordinateAxisType String Height
attribute depth _CoordinateZisPositive String down
attribute depth _FillValue double NaN
attribute depth actual_range double 10.7, 747.8
attribute depth axis String Z
attribute depth bcodmo_name String depth
attribute depth colorBarMaximum double 8000.0
attribute depth colorBarMinimum double -8000.0
attribute depth colorBarPalette String TopographyDepth
attribute depth description String Depth below seafloor
attribute depth ioos_category String Location
attribute depth long_name String Depth
attribute depth nerc_identifier String https://vocab.nerc.ac.uk/collection/P09/current/DEPH/ (external link)
attribute depth positive String down
attribute depth standard_name String depth
attribute depth units String m
variable Intact_polar_lipids_1G_2GGDGT float
attribute Intact_polar_lipids_1G_2GGDGT _FillValue float NaN
attribute Intact_polar_lipids_1G_2GGDGT actual_range float 0.0, 104.0
attribute Intact_polar_lipids_1G_2GGDGT bcodmo_name String unknown
attribute Intact_polar_lipids_1G_2GGDGT description String Intact polar lipids 1G-,2G-GDGT - mono, diglycosidic glycerol dialkyl glycerol tetraether
attribute Intact_polar_lipids_1G_2GGDGT long_name String Intact Polar Lipids 1 G 2 GGDGT
attribute Intact_polar_lipids_1G_2GGDGT units String picograms per gram (pg/g)
variable Intact_polar_lipids_1G_2GAR float
attribute Intact_polar_lipids_1G_2GAR _FillValue float NaN
attribute Intact_polar_lipids_1G_2GAR actual_range float 3.8, 1423.0
attribute Intact_polar_lipids_1G_2GAR bcodmo_name String unknown
attribute Intact_polar_lipids_1G_2GAR description String Intact polar lipids 1G-,2G-AR - mono,diglycosidic archaeol
attribute Intact_polar_lipids_1G_2GAR long_name String Intact Polar Lipids 1 G 2 GAR
attribute Intact_polar_lipids_1G_2GAR units String picograms per gram (pg/g)
variable Core_lipids_core_GDGT float
attribute Core_lipids_core_GDGT _FillValue float NaN
attribute Core_lipids_core_GDGT actual_range float 5.9, 780.0
attribute Core_lipids_core_GDGT bcodmo_name String unknown
attribute Core_lipids_core_GDGT description String Core lipids cire GDGT - glycerol dialkyl glycerol tetraethe
attribute Core_lipids_core_GDGT long_name String Core Lipids Core GDGT
attribute Core_lipids_core_GDGT units String picograms per gram (pg/g)
variable Core_lipids_core_archaeol float
attribute Core_lipids_core_archaeol _FillValue float NaN
attribute Core_lipids_core_archaeol actual_range float 0.0, 3679.0
attribute Core_lipids_core_archaeol bcodmo_name String unknown
attribute Core_lipids_core_archaeol description String Core lipids core archaeik
attribute Core_lipids_core_archaeol long_name String Core Lipids Core Archaeol
attribute Core_lipids_core_archaeol units String picograms per gram (pg/g)
variable Core_lipids_bacterial_diether_glyerol_lipids float
attribute Core_lipids_bacterial_diether_glyerol_lipids _FillValue float NaN
attribute Core_lipids_bacterial_diether_glyerol_lipids actual_range float 1.0, 480.0
attribute Core_lipids_bacterial_diether_glyerol_lipids bcodmo_name String unknown
attribute Core_lipids_bacterial_diether_glyerol_lipids description String Core lipids bacterial diether glyerol lipids
attribute Core_lipids_bacterial_diether_glyerol_lipids long_name String Core Lipids Bacterial Diether Glyerol Lipids
attribute Core_lipids_bacterial_diether_glyerol_lipids units String picograms per gram (pg/g)
variable G_GDGTs_core_GDGT float
attribute G_GDGTs_core_GDGT _FillValue float NaN
attribute G_GDGTs_core_GDGT actual_range float 1.4, 99.0
attribute G_GDGTs_core_GDGT bcodmo_name String unknown
attribute G_GDGTs_core_GDGT description String G- glycerol dialkyl glycerol tetraethers/core glycerol dialkyl glycerol tetraethers
attribute G_GDGTs_core_GDGT long_name String G GDGTs Core GDGT
attribute G_GDGTs_core_GDGT units String picograms per gram (pg/g)
variable GARs_core_ARs float
attribute GARs_core_ARs _FillValue float NaN
attribute GARs_core_ARs actual_range float 0.0, 100.0
attribute GARs_core_ARs bcodmo_name String unknown
attribute GARs_core_ARs description String G- archaeols core archaeols
attribute GARs_core_ARs long_name String GARs Core ARs
attribute GARs_core_ARs units String picograms per gram (pg/g)
variable Archaea_IPLcore byte
attribute Archaea_IPLcore _FillValue byte 127
attribute Archaea_IPLcore actual_range byte 4, 60
attribute Archaea_IPLcore bcodmo_name String unknown
attribute Archaea_IPLcore description String Archaea: Intact polar lipids/core
attribute Archaea_IPLcore long_name String Archaea IPLcore
attribute Archaea_IPLcore units String picograms per gram (pg/g)
variable Bacteria_average_chain_length float
attribute Bacteria_average_chain_length _FillValue float NaN
attribute Bacteria_average_chain_length actual_range float 30.3, 34.5
attribute Bacteria_average_chain_length bcodmo_name String length
attribute Bacteria_average_chain_length description String Average chain length Bacteria
attribute Bacteria_average_chain_length long_name String Bacteria Average Chain Length
attribute Bacteria_average_chain_length units String picograms per gram (pg/g)

 
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