Dataset: Abyssal deposit feeders AACSIA

Name: Amino acid compound specific isotope analyses of abyssal deposit feeders, gut contents, and surrounding surface sediments collected on R/V Atlantis cruise AT42-10 and R/V Western Flyer Pulse 72 in the eastern North Pacific in 2019
Published: 2021-03-30
Keywords: Amino Acid, abyssal plain, Deposit feeders, compound specific isotope analysis, gut content, Station M, biota, oceans

Cite This Dataset

DOI:10.26008/1912/bco-dmo.840749.1

Spatial Extent: N:34.5 E:-123.06 S:34.5 W:-123.06

Temporal Extent: 2019-05-01 - 2019-10-24

Project:

Collaborative Research: Assessing the relative importance of small vs large particles as sources of nutrition to abyssal communities (Abyssal food web)

Principal Investigator:

Jeffrey C. Drazen (University of Hawaiʻi at Mānoa)

Co-Principal Investigator:

Brian N. Popp (University of Hawaiʻi at Mānoa)

Contact:

Sonia Romero (University of Hawaiʻi at Mānoa, SOEST)

BCO-DMO Data Manager:

Dana Stuart Gerlach (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Taylor Heyl (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Version:

Version Date:

2021-03-30

Restricted:

Validated:

Yes

Current State:

Final no updates expected

Amino acid compound specific isotope analyses of abyssal deposit feeders, gut contents, and surrounding surface sediments collected on R/V Atlantis cruise AT42-10 and R/V Western Flyer Pulse 72 in the eastern North Pacific in 2019

Abstract:

Abyssal ecosystems depend on the quantity and quality of organic material reaching the deep-sea floor. During R/V Atlantis cruise (AT42-10) in May 2019 and R/V Western Flyer cruise (Pulse 72) in October 2019, samples from deep-sea benthic communities were collected in the eastern North Pacific Ocean. Station M was visited to investigate how surface ocean processes are coupled to food-webs at the deep ocean seafloor and to understand the sources of nutrition to the deep-sea benthos. This dataset presents compound specific stable isotope analyses of amino acids (AA-CSIA) of abyssal deposit feeders, their gut contents, and the surrounding sediments.

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Archival Copy

Version Date	Archive	Persistent Identifier	Date Assigned
2021-03-30	Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)	10.26008/1912/bco-dmo.840749.1	2021-06-03

Methods & Sampling

Sediment cores and megafauna were collected in May and October 2019 using the HOV Alvin and the ROV Doc Ricketts, respectively. Upon retrieval to the surface, samples were placed in a cool room (5º C) for further processing. Sediment cores of 7 centimeters diameter were sliced and the surface sediments (0–0.5 cm) were placed in petri dishes and stored frozen at -80º C. Specimens of megafauna were weighed and measured, then dissected using a scalpel. We made a longitudinal cut along the digestive tract and took a sample of the foregut and hindgut contents, avoiding gut tissue. Then we removed the remaining guts and took a sample from cleaned body tissue, or in the case of echinoids, from the test. All samples were placed in cryovials and frozen in liquid nitrogen, and subsequently stored at -80º C. In the laboratory, samples of sediments, gut contents and body tissue were freeze dried and ground to a homogenous powder using mortar and pestle.

For analysis of bulk nitrogen and carbon isotopic composition, samples were placed in silver capsules in the following amounts: ~ 0.7 milligrams of body tissue from holothurians, 3 miligrams of body tissue from echinoids, ~ 5 miligrams of gut content, and ~ 20 miligrams of sediment. Samples were acidified to remove carbonates with 1M HCl, which was added dropwise until bubbling ceased, then dried at 60ºC and packed.

For δ15N and δ13C analysis of individual amino acids, samples were analyzed following the methods of Hannides et al. (2013). For the analysis of carbon isotope composition, we also derivatized and analyzed under the same conditions a sample containing a set of 13 pure amino acids. δ13C values were corrected based on the analysis of that set of pure amino acids (Silfer et al. 1991; Arthur et al. 2014).

Data Processing Description

BCO-DMO processing description:
- Converted dates to ISO date format (yyyy-mm-dd)
- Adjusted field/parameter names to comply with database requirements
- Missing data identifier ‘NA’ replaced with 'nd' (BCO-DMO's default missing data identifier)
- Converted latitudes and longitudes to decimal degrees
- Added a conventional header with dataset name, PI names, version date

Data Files

File
amino_acid_isotope_analyses.csv (Comma Separated Values (.csv), 10.09 KB) MD5:2ff52786f45b0c0f7e864d545bb8f9a3 Primary data file for dataset ID 840749

More Information about this dataset

Funding Sources

Funding Source	Award Number
NSF Division of Ocean Sciences	OCE-1829612

Deployments

Deployment	Start Date	Platform	Investigator
Pulse72_ROV_dives	2019-10-17	Doc Ricketts		data info
Pulse 72	2019-10-16	R/V Western Flyer	Kenneth Smith (Chief Scientist)	data info
AT42-10_Alvin_dives	2019-05-01	Alvin		data info
AT42-10	2019-04-28	R/V Atlantis	Jeffrey C. Drazen (Chief Scientist)	data info

Instruments

Alvin tube core

Supplied Name:

Supplied Description:

Sediment cores and megafauna were collected in May 2019 using the HOV Alvin

Instrument Type

Generic Name: Alvin tube core

Acronym: Tube Core

Generic Description:

A plastic tube, about 40 cm (16 inches) long, is pushed into the sediment by Alvin's manipulator arm to collect a sediment core.

CHN Elemental Analyzer

Supplied Name: Costech Model 4010

Supplied Description:

Bulk nitrogen and carbon isotopic composition were determined using an isotope ratio mass spectrometer (DeltaPlusXP or Delta-V-Advantage) coupled to an elemental analyzer (Costech Model 4010).

Instrument Type

Generic Name: CHN Elemental Analyzer

Acronym: CHN_EA

Generic Description:

A CHN Elemental Analyzer is used for the determination of carbon, hydrogen, and nitrogen content in organic and other types of materials, including solids, liquids, volatile, and viscous samples.

Continuous Flow Interface for Mass Spectrometers

Supplied Name: ConFlo IV (input from IRMS, output to GC)

Supplied Description:

Carbon isotope composition of amino acids was measured using a Thermo-Fisher Scientific MAT 253 isotope ratio mass spectrometer interfaced with a Trace Ultra GC-III via ConFlo IV.

Instrument Type

Generic Name: Continuous Flow Interface for Mass Spectrometers

Generic Description:

A Continuous Flow Interface connects solid and liquid sample preparation devices to instruments that measure isotopic composition. It allows the introduction of the sample and also reference and carrier gases.
Examples: Finnigan MATConFlo II, ThermoScientific ConFlo IV, and Picarro Caddy.

Note: This is NOT an analyzer

Gas Chromatograph

Supplied Name: Thermo Finnigan GC-C III

Supplied Description:

Nitrogen isotope composition of amino acids was determined using an isotope ratio mass spectrometer (Thermo Scientific Delta V Plus) interfaced with a Thermo Finnigan GC-C III.

Instrument Type

Generic Name: Gas Chromatograph

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/LAB02/

Generic 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)

Isotope-ratio Mass Spectrometer

Supplied Name: DeltaPlusXP or Delta-V-Advantage

Supplied Description:

Bulk nitrogen and carbon isotopic composition were determined using an isotope ratio mass spectrometer (DeltaPlusXP or Delta-V-Advantage) coupled to an elemental analyzer (Costech Model 4010).

Instrument Type

Generic Name: Isotope-ratio Mass Spectrometer

Acronym: IR Mass Spec; IRMS

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/LAB16/

Generic 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).

Isotope-ratio Mass Spectrometer

Supplied Name: Thermo Scientific Delta V Plus

Supplied Description:

Nitrogen isotope composition of amino acids was determined using an isotope ratio mass spectrometer (Thermo Scientific Delta V Plus) interfaced with a Thermo Finnigan GC-C III.

Instrument Type

Generic Name: Isotope-ratio Mass Spectrometer

Acronym: IR Mass Spec; IRMS

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/LAB16/

Generic 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).

Isotope-ratio Mass Spectrometer

Supplied Name: Thermo-Fisher Scientific MAT 253

Supplied Description:

Carbon isotope composition of amino acids was measured using a Thermo-Fisher Scientific MAT 253 isotope ratio mass spectrometer interfaced with a Trace Ultra GC-III via ConFlo IV.

Instrument Type

Generic Name: Isotope-ratio Mass Spectrometer

Acronym: IR Mass Spec; IRMS

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/LAB16/

Generic 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).

Remotely Operated Vehicle

Supplied Name: ROV Doc Ricketts

Supplied Description:

Sediment cores and megafauna were collected in October 2019 using the ROV Doc Ricketts

Instrument Type

Generic Name: Remotely Operated Vehicle

Acronym: ROV

Generic Description:

Remotely operated underwater vehicles (ROVs) are unoccupied, highly maneuverable underwater robots operated by a person aboard a surface vessel. They are linked to the ship by a group of cables that carry electrical signals back and forth between the operator and the vehicle. Most are equipped with at least a video camera and lights. Additional equipment is commonly added to expand the vehicle’s capabilities. These may include a still camera, a manipulator or cutting arm, water samplers, and instruments that measure water clarity, light penetration, and temperature.

Parameters

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

Supplied Name	Supplied description	Supplied Units	Standard Name
Sample	Sample identification code	unitless	sample
Cruise	Cruise designation	unitless	cruise_id
Site	Site designation	unitless	site
ISO_Date_initial	Initial sampling date UTC (yyyy-mm-dd) Format: %Y-%m-%d	unitless	date
ISO_Date_final	Final sampling date UTC (yyyy-mm-dd) Format: %Y-%m-%d	unitless	date
Latitude	Latitude	decimal degrees	lat
Longitude	Longitude (West is negative)	decimal degrees	lon
Type	Type of sample: Sediment= surface sediment (0-5 mm); Body= deposit feeder body tissue; Gut= gut content	unitless	sample_type
Species	Species of deposit feeder: Scotoplanes= S. globosa; Echinocrepis= E. rostrata; Onerophanta= O. mutabilis	unitless	species
Type_gut	Gut section: Hgut= hindgut; Fgut= foregut	unitless	sample_type
delta15N	Bulk nitrogen isotopic composition	per mil (‰) vs AIR	d15N
delta13C	Bulk carbon isotopic composition	per mil (‰) vs VPDB	d13C
ALA_N	Mean delta15N value of all injections for Alanine	per mil (‰) vs AIR	d15N_bio
GLY_N	Mean delta15N value of all injections for Glycine	per mil (‰) vs AIR	d15N_bio
THR_N	Mean delta15N value of all injections for Threonine	per mil (‰) vs AIR	d15N_bio
SER_N	Mean delta15N value of all injections for Serine	per mil (‰) vs AIR	d15N_bio
VAL_N	Mean delta15N value of all injections for Valine	per mil (‰) vs AIR	d15N_bio
LEU_N	Mean delta15N value of all injections for Leucine	per mil (‰) vs AIR	d15N_bio
ILE_N	Mean delta15N value of all injections for Isoleucine	per mil (‰) vs AIR	d15N_bio
PRO_N	Mean delta15N value of all injections for Proline	per mil (‰) vs AIR	d15N_bio
ASX_N	Mean delta15N value of all injections for Aspartic Acid and Asparagine	per mil (‰) vs AIR	d15N_bio
GLX_N	Mean delta15N value of all injections for Glutamic Acid and Glutamine	per mil (‰) vs AIR	d15N_bio
PHE_N	Mean delta15N value of all injections for Phenylalanine	per mil (‰) vs AIR	d15N_bio
TYR_N	Mean delta15N value of all injections for Thyrosine	per mil (‰) vs AIR	d15N_bio
LYS_N	Mean delta15N value of all injections for Lysine	per mil (‰) vs AIR	d15N_bio
ALA_N_sd	Standard deviation of delta15N values from all injections for Alanine	per mil (‰) vs AIR	std_dev
GLY_N_sd	Standard deviation of delta15N values from all injections for Glycine	per mil (‰) vs AIR	std_dev
THR_N_sd	Standard deviation of delta15N values from all injections for Theronine	per mil (‰) vs AIR	std_dev
SER_N_sd	Standard deviation of delta15N values from all injections for Serine	per mil (‰) vs AIR	std_dev
VAL_N_sd	Standard deviation of delta15N values from all injections for Valine	per mil (‰) vs AIR	std_dev
LEU_N_sd	Standard deviation of delta15N values from all injections for Leucine	per mil (‰) vs AIR	std_dev
ILE_N_sd	Standard deviation of delta15N values from all injections for Isoleucine	per mil (‰) vs AIR	std_dev
PRO_N_sd	Standard deviation of delta15N values from all injections for Proline	per mil (‰) vs AIR	std_dev
ASX_N_sd	Standard deviation of delta15N values from all injections for Aspartic Acid and Asparagine	per mil (‰) vs AIR	std_dev
GLX_N_sd	Standard deviation of delta15N values from all injections for Glutamic Acid and Glutamine	per mil (‰) vs AIR	std_dev
PHE_N_sd	Standard deviation of delta15N values from all injections for Phenylalanine	per mil (‰) vs AIR	std_dev
TYR_N_sd	Standard deviation of delta15N values from all injections for Thyrosine	per mil (‰) vs AIR	std_dev
LYS_N_sd	Standard deviation of delta15N values from all injections for Lysine	per mil (‰) vs AIR	std_dev
ALA_C	Mean delta13C value of all injections for Alanine	per mil (‰) vs VPDB	d13C_bio
GLY_C	Mean delta13C value of all injections for Glycine	per mil (‰) vs VPDB	d13C_bio
THR_C	Mean delta13C value of all injections for Theronine	per mil (‰) vs VPDB	d13C_bio
SER_C	Mean delta13C value of all injections for Serine	per mil (‰) vs VPDB	d13C_bio
VAL_C	Mean delta13C value of all injections for Valine	per mil (‰) vs VPDB	d13C_bio
LEU_C	Mean delta13C value of all injections for Leucine	per mil (‰) vs VPDB	d13C_bio
ILE_C	Mean delta13C value of all injections for Isoleucine	per mil (‰) vs VPDB	d13C_bio
PRO_C	Mean delta13C value of all injections for Proline	per mil (‰) vs VPDB	d13C_bio
ASX_C	Mean delta13C value of all injections for Aspartic Acid and Asparagine	per mil (‰) vs VPDB	d13C_bio
GLX_C	Mean delta13C value of all injections for Glutamic Acid and Glutamine	per mil (‰) vs VPDB	d13C_bio
PHE_C	Mean delta13C value of all injections for Phenylalanine	per mil (‰) vs VPDB	d13C_bio
TYR_C	Mean delta13C value of all injections for Thyrosine	per mil (‰) vs VPDB	d13C_bio
LYS_C	Mean delta13C value of all injections for Lysine	per mil (‰) vs VPDB	d13C_bio
ALA_C_sd	Standard deviation of delta13C values from all injections for Alanine	per mil (‰) vs VPDB	std_dev
GLY_C_sd	Standard deviation of delta13C values from all injections for Glycine	per mil (‰) vs VPDB	std_dev
THR_C_sd	Standard deviation of delta13C values from all injections for Theronine	per mil (‰) vs VPDB	std_dev
SER_C_sd	Standard deviation of delta13C values from all injections for Serine	per mil (‰) vs VPDB	std_dev
VAL_C_sd	Standard deviation of delta13C values from all injections for Valine	per mil (‰) vs VPDB	std_dev
LEU_C_sd	Standard deviation of delta13C values from all injections for Leucine	per mil (‰) vs VPDB	std_dev
ILE_C_sd	Standard deviation of delta13C values from all injections for Isoleucine	per mil (‰) vs VPDB	std_dev
PRO_C_sd	Standard deviation of delta13C values from all injections for Proline	per mil (‰) vs VPDB	std_dev
ASX_C_sd	Standard deviation of delta13C values from all injections for Aspartic Acid and Asparagine	per mil (‰) vs VPDB	std_dev
GLX_C_sd	Standard deviation of delta13C values from all injections for Glutamic Acid and Glutamine	per mil (‰) vs VPDB	std_dev
PHE_C_sd	Standard deviation of delta13C values from all injections for Phenylalanine	per mil (‰) vs VPDB	std_dev
TYR_C_sd	Standard deviation of delta13C values from all injections for Thyrosine	per mil (‰) vs VPDB	std_dev
LYS_C_sd	Standard deviation of delta13C values from all injections for Lysine	per mil (‰) vs VPDB	std_dev

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Dataset: Abyssal deposit feeders AACSIA