ERDDAP > info > bcodmo_dataset_815380

Grid DAP Data	Sub- set	Table DAP Data	Make A Graph	W M S	Source Data Files	Acces- sible	Title	Sum- mary	FGDC, ISO, Metadata	Back- ground Info	RSS	E mail	Institution	Dataset ID
		data	graph		files	public	[Carbon NEXAFS bulk data] - Carbon near edge X-ray absorption fine structure (NEXAFS) spectra from pelagic sediment from the North Atlantic gyre, South Pacific gyre, and Peru Basin from cruises KN223 (R/V Knorr), KNOX02RR (R/V Roger Revelle), and ODP leg 201 between 2002 and 2014 (Geochemical controls on organic carbon quantity and quality in the deep subsurface)		F   I   M	background			BCO-DMO	bcodmo_dataset_815380

The Dataset's Variables and Attributes

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	See Estes el al. (2019) for complete methods. Sediment slurries were generated by subsampling ~0.1 g of wet sediment from samples stored at 4 \u00b0C into a sterile microcentrifuge tube. Then, 0.2\u20130.5 ml of 0.2 \u03bcm filtered 18 M\u03a9 water was added and the sample shaken. Sediment slurry (1\u201310 \u03bcl) was pipetted onto silicon wafers and air-dried. The beamline was operated with a 500 l mm\u20131 spherical grating monochromator and entrance and exit slits set to 40 \u03bcm, which yielded an absolute energy resolution of less than 0.3 eV. The samples were attached to an aluminium sample stick in a single load and analysed under ultrahigh vacuum conditions (pressure ~10\u22129 mbar). The measurements were made in the total electron yield (TEY) mode on a spot size of less than 1 mm2 using a grazing incidence angle of 45\u00b0, where previous trials determined that the incidence angle did not yield a difference in results. The TEY mode was selected instead of fluorescence as we observed dampening of the fluorescence signal, probably due to matrix- induced absorption. Spectra were collected around the C 1s edge, from 260 to 340 eV, with a dwell time of 0.2 s. To avoid beam damage and variation of the background due to charging, scans were taken at different positions on the sample. The spectra analysed were the average of 2\u20133 scans taken at different positions on the sample. The dark current was measured prior to the collection of each spectrum and subtracted from the raw data. Spectra were then normalized to no load current measured by a mesh upstream of the chamber with freshly evaporated gold. Instruments: Bulk carbon NEXAFS spectroscopy was conducted on beamlines 8-2 and 10-1 at the Stanford Synchrotron Radiation Lightsource. The absolute energy calibration of the carbon spectra was achieved by shifting the energy such that the first dip in the incoming intensity due to carbon contamination on the beamline optics (carbon dip) occurred at 284.7 eV.
attribute	NC_GLOBAL	awards_0_award_nid	String	554980
attribute	NC_GLOBAL	awards_0_award_number	String	OCE-0939564
attribute	NC_GLOBAL	awards_0_data_url	String	http://www.nsf.gov/awardsearch/showAward?AWD_ID=0939564
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	Carbon NEXAFS bulk data PI: Emily Estes Data Version 1: 2020-07-22
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/
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	2020-06-15T21:58:56Z
attribute	NC_GLOBAL	date_modified	String	2020-07-23T15:27:52Z
attribute	NC_GLOBAL	defaultDataQuery	String	&time<now
attribute	NC_GLOBAL	doi	String	10.26008/1912/bco-dmo.815380.1
attribute	NC_GLOBAL	Easternmost_Easting	double	-50.62
attribute	NC_GLOBAL	geospatial_lat_max	double	45.96333
attribute	NC_GLOBAL	geospatial_lat_min	double	12.01667
attribute	NC_GLOBAL	geospatial_lat_units	String	degrees_north
attribute	NC_GLOBAL	geospatial_lon_max	double	-50.62
attribute	NC_GLOBAL	geospatial_lon_min	double	-165.64333
attribute	NC_GLOBAL	geospatial_lon_units	String	degrees_east
attribute	NC_GLOBAL	geospatial_vertical_max	double	5699.0
attribute	NC_GLOBAL	geospatial_vertical_min	double	3705.0
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/815380
attribute	NC_GLOBAL	institution	String	BCO-DMO
attribute	NC_GLOBAL	instruments_0_acronym	String	Spectrometer
attribute	NC_GLOBAL	instruments_0_dataset_instrument_description	String	Bulk carbon synchrotron-based near edge x-ray fine structure (NEXAFS) spectroscopy was conducted on beamlines 8-2 and 10-1 at the Stanford Synchrotron Radiation Lightsource.
attribute	NC_GLOBAL	instruments_0_dataset_instrument_nid	String	815390
attribute	NC_GLOBAL	instruments_0_description	String	A spectrometer is an optical instrument used to measure properties of light over a specific portion of the electromagnetic spectrum.
attribute	NC_GLOBAL	instruments_0_instrument_external_identifier	String	https://vocab.nerc.ac.uk/collection/L22/current/TOOL0460/
attribute	NC_GLOBAL	instruments_0_instrument_name	String	Spectrometer
attribute	NC_GLOBAL	instruments_0_instrument_nid	String	667
attribute	NC_GLOBAL	keywords	String	absorption, bco, bco-dmo, biological, chemical, comment, core, core_depth, core_type, data, dataset, date, depth, dmo, erddap, expedition, latitude, longitude, management, oceanography, office, preliminary, sample, sample_comment, site, time, type, v, water, water_depth
attribute	NC_GLOBAL	license	String	https://www.bco-dmo.org/dataset/815380/license
attribute	NC_GLOBAL	metadata_source	String	https://www.bco-dmo.org/api/dataset/815380
attribute	NC_GLOBAL	Northernmost_Northing	double	45.96333
attribute	NC_GLOBAL	param_mapping	String	{'815380': {'latitude': 'master - latitude', 'water_depth': 'master - depth', 'longitude': 'master - longitude'}}
attribute	NC_GLOBAL	parameter_source	String	https://www.bco-dmo.org/mapserver/dataset/815380/parameters
attribute	NC_GLOBAL	people_0_affiliation	String	Texas A&M University
attribute	NC_GLOBAL	people_0_affiliation_acronym	String	TAMU
attribute	NC_GLOBAL	people_0_person_name	String	Emily Estes
attribute	NC_GLOBAL	people_0_person_nid	String	779219
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	Colleen Hansel
attribute	NC_GLOBAL	people_1_person_nid	String	756932
attribute	NC_GLOBAL	people_1_role	String	Co-Principal Investigator
attribute	NC_GLOBAL	people_1_role_type	String	originator
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	Amber D. York
attribute	NC_GLOBAL	people_2_person_nid	String	643627
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	Org C Sed II,Org C Sed I
attribute	NC_GLOBAL	projects_0_acronym	String	Org C Sed II
attribute	NC_GLOBAL	projects_0_description	String	Abstract from the C-DEBI project page: Sediment underlying ocean gyres receives minimal input of fresh organic matter yet sustains a small but active heterotrophic microbial community. The concentration and composition of the organic carbon (OC) available to this deep biosphere however is unknown. We analyzed the content and composition of OC in pelagic sediment in order to identify mechanism(s) that dictate the balance between OC preservation and utilization by microorganisms. Sediment cores from the North Atlantic gyre (KN223), South Pacific Gyre (Knox02-RR), and Peru Basin (IODP site 1231) allowed for a global comparison and a test of how sediment lithology and redox state affect OC preservation. OC was present in low concentrations in all samples (0.01—0.61%), at depths up to 112 meters below seafloor and estimated sediment ages of up to 50 million years. Synchrotron-based near edge X-ray absorption fine structure (NEXAFS) spectroscopy was conducted on over 100 samples, one of the first applications of NEXAFS to sedimentary environments. NEXAFS revealed an OC reservoir dominated by amide and carboxylic functionalities in a scaffolding of O-alkyl and aliphatic carbons. Detection of extractable, extracellular proteins supports this composition and suggests that sedimentary OC is protein-derived. This composition was common across all sites and depths, implicating physical rather than chemical mechanisms in OC preservation on long timescales. This study thereby points to physical access rather than energy or metabolic potential as a key constraint on subsurface heterotrophic life.
attribute	NC_GLOBAL	projects_0_end_date	String	2017-07
attribute	NC_GLOBAL	projects_0_geolocation	String	North Atlantic gyre, South Pacific gyre
attribute	NC_GLOBAL	projects_0_name	String	Geochemical controls on organic carbon quantity and quality in the deep subsurface
attribute	NC_GLOBAL	projects_0_project_nid	String	779216
attribute	NC_GLOBAL	projects_0_project_website	String	https://www.darkenergybiosphere.org/award/3d-spatial-mapping-of-the-energetic-return-of-1000-metabolisms-within-the-compositional-variation-of-oceanic-crusts-near-mid-ocean-ridges/
attribute	NC_GLOBAL	projects_0_start_date	String	2016-06
attribute	NC_GLOBAL	projects_1_acronym	String	Org C Sed I
attribute	NC_GLOBAL	projects_1_description	String	Abstract from the C-DEBI project page: Minerals have recently been identified as a primary host for organic carbon (OC) within marine sediments. This strong physical and chemical carbon-mineral association is believed to reduce, and in some cases completely eliminate, the bioavailablilty of this carbon for microbial life. The paucity of information regarding the nature of this carbon-mineral association and the composition of the hosted carbon, however, precludes our ability to predict the ultimate fate of this OC and its involvement in deep subsurface life. Here, we addressed this knowledge gap by using a suite of bulk and spatially-resolved geochemical and mineralogical techniques to characterize OC-mineral associations within the deep subsurface. We characterized sediment samples collected on the 2014 North Atlantic long coring expedition (KN223) in the western subtropical North Atlantic that included three geochemically distinct long cores to a depth of 24-30 m and spanned OC-limited oxic to anoxic sediments. We find measurable and relevant OC concentrations throughout the sediment cores, that decreases linearly over ~25 meters burial depth, from ~0.15 to 0.075 mol OC/kg solid. OC within the sediments is compositionally complex on both a macro- and micro-scale, spanning a gradient of lability even at depth. Proteins are observed throughout the sediment depth profiles, where they appear to constitute a substantial fraction of the TOC. Correspondingly, a low C:N ratio is observed, consistent with proteinaceous carbon within the sediments. In sum, these findings point to a substantial mineral-hosted OC reservoir within the deep subsurface that may fuel the deep biosphere and select for protein-based heterotrophy.
attribute	NC_GLOBAL	projects_1_end_date	String	2016-03
attribute	NC_GLOBAL	projects_1_geolocation	String	North Atlantic gyre, South Pacific gyre
attribute	NC_GLOBAL	projects_1_name	String	Elucidating the extent and composition of mineral-hosted carbon in the deep biosphere
attribute	NC_GLOBAL	projects_1_project_nid	String	779223
attribute	NC_GLOBAL	projects_1_project_website	String	https://www.darkenergybiosphere.org/award/elucidating-the-extent-and-composition-of-mineral-hosted-carbon-in-the-deep-biosphere/
attribute	NC_GLOBAL	projects_1_start_date	String	2015-04
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	12.01667
attribute	NC_GLOBAL	standard_name_vocabulary	String	CF Standard Name Table v55
attribute	NC_GLOBAL	summary	String	Carbon near edge X-ray absorption fine structure (NEXAFS) spectra from pelagic sediment from the North Atlantic gyre, South Pacific gyre, and Peru Basin from cruises KN223 (R/V Knorr), KNOX02RR (R/V Roger Revelle), and ODP leg 201 between 2002 and 2014.
attribute	NC_GLOBAL	title	String	[Carbon NEXAFS bulk data] - Carbon near edge X-ray absorption fine structure (NEXAFS) spectra from pelagic sediment from the North Atlantic gyre, South Pacific gyre, and Peru Basin from cruises KN223 (R/V Knorr), KNOX02RR (R/V Roger Revelle), and ODP leg 201 between 2002 and 2014 (Geochemical controls on organic carbon quantity and quality in the deep subsurface)
attribute	NC_GLOBAL	version	String	1
attribute	NC_GLOBAL	Westernmost_Easting	double	-165.64333
attribute	NC_GLOBAL	xml_source	String	osprey2erddap.update_xml() v1.5
variable	location		String
attribute	location	bcodmo_name	String	site
attribute	location	description	String	Sample origin
attribute	location	long_name	String	Location
attribute	location	units	String	unitless
variable	expedition		String
attribute	expedition	bcodmo_name	String	cruise_id
attribute	expedition	description	String	Cruise name
attribute	expedition	long_name	String	Expedition
attribute	expedition	units	String	unitless
variable	date		String
attribute	date	bcodmo_name	String	date
attribute	date	description	String	date sample collection in ISO 8601 format yyyy-mm-dd
attribute	date	long_name	String	Date
attribute	date	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P01/current/ADATAA01/
attribute	date	source_name	String	date
attribute	date	time_precision	String	1970-01-01
attribute	date	units	String	unitless
variable	latitude		double
attribute	latitude	_CoordinateAxisType	String	Lat
attribute	latitude	_FillValue	double	NaN
attribute	latitude	actual_range	double	12.01667, 45.96333
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
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/
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	-165.64333, -50.62
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
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/
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	3705.0, 5699.0
attribute	depth	axis	String	Z
attribute	depth	bcodmo_name	String	depth
attribute	depth	description	String	Water depth
attribute	depth	ioos_category	String	Location
attribute	depth	long_name	String	Water Depth
attribute	depth	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P09/current/DEPH/
attribute	depth	positive	String	down
attribute	depth	standard_name	String	depth
attribute	depth	units	String	m
variable	core_type		String
attribute	core_type	bcodmo_name	String	sample_type
attribute	core_type	description	String	Coring device used
attribute	core_type	long_name	String	Core Type
attribute	core_type	units	String	unitless
variable	core_depth		float
attribute	core_depth	_FillValue	float	NaN
attribute	core_depth	actual_range	float	0.0125, 112.65
attribute	core_depth	bcodmo_name	String	meters below seafloor
attribute	core_depth	description	String	Sample depth (meters below seafloor)
attribute	core_depth	long_name	String	Core Depth
attribute	core_depth	units	String	meters (m)
variable	site		String
attribute	site	bcodmo_name	String	site
attribute	site	description	String	Site number
attribute	site	long_name	String	Site
attribute	site	units	String	unitless
variable	sample_comment		String
attribute	sample_comment	bcodmo_name	String	comment
attribute	sample_comment	description	String	Comment about sample
attribute	sample_comment	long_name	String	Sample Comment
variable	absorption		float
attribute	absorption	_FillValue	float	NaN
attribute	absorption	actual_range	float	-1.28061, 13.96284
attribute	absorption	bcodmo_name	String	absorbance
attribute	absorption	description	String	absorption. arbitrary units (normalized)
attribute	absorption	long_name	String	Absorption
attribute	absorption	units	String	unitless
variable	eV		double
attribute	eV	_FillValue	double	NaN
attribute	eV	actual_range	double	280.0, 320.0
attribute	eV	bcodmo_name	String	eV
attribute	eV	description	String	electron volts (incident energy)
attribute	eV	long_name	String	E V
attribute	eV	units	String	electron volts (eV)

The information in the table above is also available in other file formats (.csv, .htmlTable, .itx, .json, .jsonlCSV1, .jsonlCSV, .jsonlKVP, .mat, .nc, .nccsv, .tsv, .xhtml) via a RESTful web service.