Dataset: Proteinaceous material content

Name: Protein assay of proteinaceous material in pelagic sediment from the North Atlantic gyre, South Pacific gyre, and Peru Basin from cruises KN223, KNOX02RR, and ODP leg 201 between 2002 and 2013
Published: 2020-06-15
Keywords: pelagic sediment, protein, proteinaceous material, deep biosphere, oceans

Cite This Dataset

DOI:10.26008/1912/bco-dmo.782742.1

Spatial Extent: N:33.4833 E:-50.62 S:-38.0617 W:-165.6433

Temporal Extent: 2002 - 2013

Project:

Elucidating the extent and composition of mineral-hosted carbon in the deep biosphere (Org C Sed I)

Geochemical controls on organic carbon quantity and quality in the deep subsurface (Org C Sed II)

Program:

Center for Dark Energy Biosphere Investigations (C-DEBI)

Principal Investigator:

Emily Estes (Texas A&M University, TAMU)

Co-Principal Investigator:

Colleen Hansel (Woods Hole Oceanographic Institution, WHOI)

BCO-DMO Data Manager:

Amber D. York (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Version:

Version Date:

2020-06-15

Restricted:

Validated:

Yes

Current State:

Final no updates expected

Protein assay of proteinaceous material in pelagic sediment from the North Atlantic gyre, South Pacific gyre, and Peru Basin from cruises KN223, KNOX02RR, and ODP leg 201 between 2002 and 2013

Abstract:

Protein assay of proteinaceous material in 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 2013. Sediment samples were taken with gravity corers, multi corers, piston and advanced piston corers (APC).

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Archival Copy

Version Date	Archive	Persistent Identifier	Date Assigned
2020-06-15	Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)	10.26008/1912/bco-dmo.782742.1	2020-07-14

Description

These data were published in Estes et al. (2019) as Figure 1.

Methods & Sampling

Sediment samples were stored at 4°C prior to analysis. Proteinaceous material was extracted and quantified with Qubit fluorescent reagent (Life Technologies), following Estes et al. (2016) as modified from Ehrenreich and Widdel (1994).

Assay was quantified using bovine serum albumin standard (Bio-Rad).

See Estes el al. 2019, for complete methods.

Data Processing Description

BCO-DMO Data Manager Processing Notes:
* exported data in xlsx file "Estes protein data.xlsx" to csv file
* added a conventional header with dataset name, PI name, version date
* modified parameter names to conform with BCO-DMO naming conventions
* blank values in this dataset are displayed as "nd" for "no data." nd is the default missing data identifier in the BCO-DMO system.
* latitude and longitude in degrees decimal minutes converted to decimal degrees then rounded to 5 decimal places.
* protein and prot_stdev rounded to two decimal places
* date format converted to ISO 8601 format yyyy-mm-dd

Data Files

File
protein.csv (Comma Separated Values (.csv), 7.93 KB) MD5:326b12f5a8382be156be6ada87669fe4 Primary data file for dataset ID 782742

More Information about this dataset

Funding Sources

Funding Source	Award Number
NSF Division of Ocean Sciences	OCE-0939564

Deployments

Deployment	Synonyms	Start Date	Platform	Investigator
JRES-201	IODP Leg 201 ODP leg 201	2002-01-27	R/V JOIDES Resolution	Steven L. D'Hondt (Co-Chief Scientist) Dr Bo B. Jorgensen (Co-Chief Scientist)	data info
KN223		2014-10-25	R/V Knorr	Richard W Murray (Chief Scientist)	data info
KNOX02RR	SPG South Pacific Gyre Knox02-RR	2006-12-17	R/V Roger Revelle	Steven L. D'Hondt (Chief Scientist)	data info

Instruments

Advanced Piston Corer

Supplied Name:

Supplied Description:

Instrument Type

Generic Name: Advanced Piston Corer

Acronym: APC

Generic Description:

The JOIDES Resolution's Advanced Piston Corer (APC) is used in soft ooze and sediments. The APC is a hydraulically actuated piston corer designed to recover relatively undisturbed samples from very soft to firm sediments.

More information is available from IODP (PDF).

Gravity Corer

Supplied Name:

Supplied Description:

Instrument Type

Generic Name: Gravity Corer

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/51/

Generic Description:

The gravity corer allows researchers to sample sediment layers at the bottom of lakes or oceans. The coring device is deployed from the ship and gravity carries it to the seafloor. (http://www.whoi.edu/instruments/viewInstrument.do?id=1079).

Multi Corer

Supplied Name:

Supplied Description:

Instrument Type

Generic Name: Multi Corer

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/51/

Generic Description:

The Multi Corer is a benthic coring device used to collect multiple, simultaneous, undisturbed sediment/water samples from the seafloor. Multiple coring tubes with varying sampling capacity depending on tube dimensions are mounted in a frame designed to sample the deep ocean seafloor. For more information, see Barnett et al. (1984) in Oceanologica Acta, 7, pp. 399-408.

Piston Corer

Supplied Name:

Supplied Description:

Instrument Type

Generic Name: Piston Corer

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/51/

Generic Description:

The piston corer is a type of bottom sediment sampling device. A long, heavy tube is plunged into the seafloor to extract samples of mud sediment. A piston corer uses a "free fall" of the coring rig to achieve a greater initial force on impact than gravity coring. A sliding piston inside the core barrel reduces inside wall friction with the sediment and helps to evacuate displaced water from the top of the corer. A piston corer is capable of extracting core samples up to 90 feet in length.

Parameters

Date and time formats are described in python strftime() syntax.

Supplied Name	Supplied description	Supplied Units	Standard Name
location	Sample origin	unitless	site
expedition	Cruise name	unitless	cruise_id
site	Site number	unitless	site
latitude	Latitude	decimal degrees	lat
longitude	Longitude	decimal degrees	lon
water_depth	Water depth	meters (m)	depth
core_type	Coring device used	unitless	sample_type
depth	Sample depth (meters below seafloor)	meters (m)	mbsf
protein	Content of proteinaceous material	micrograms of protein per milligram of sediment (μg protein/mg sediment)	proteins
prot_stdev	Standard deviation of the content of proteinaceous material (triplicate analyses).	micrograms of protein per milligram of sediment (μg protein/mg sediment)	proteins
date	date sample collection in ISO 8601 format yyyy-mm-dd	unitless	date