Dataset: Low-pH springs: foraminifera boron isotopes

Name: Isotopes (d11B, 87Sr/86Sr, d18O, d13C), elemental concentrations (B, Mg, Ca), and carbon content collected from the foraminifera Ammonia parkinsoniana and sediments in Celestun Lagoon, Yucatan, Mexico in June 2009 and May 2015
Published: 2024-10-25
Keywords: boron isotopes, groundwater, benthic foraminifera, coastal pH, oceans

Cite This Dataset

DOI:10.26008/1912/bco-dmo.941327.1

Spatial Extent: N:20.95925 E:-90.32955 S:20.83918 W:-90.38802

Celestún Biosphere Reserve, Yucatan, Mexico. 20.88 N 90.36 E depth 0.5 m.

Temporal Extent: 2009-06-14 - 2015-05-26

Project:

Calcification in low saturation seawater: What can we learn from organisms in the proximity of low pH; undersaturated submarine springs (CalcificationLowSatSeawater)

Program:

Science, Engineering and Education for Sustainability NSF-Wide Investment (SEES): Ocean Acidification (formerly CRI-OA) (SEES-OA)

Principal Investigator:

Adina Paytan (University of California-Santa Cruz, UCSC)

Co-Principal Investigator:

Jorge A. Herrera-Silveira (Unidad Mérida del Centro de Investigación y de Estudios Avanzados, CINVESTAV)

Chen-Feng You (National Cheng Kung University)

Scientist:

Hou-Chun Arrien Liu (National Cheng Kung University)

Joseph H. Street (University of California-Santa Cruz, UCSC)

Tzu-Hao David Wang (National Cheng Kung University)

Student:

Kyle H. Hardage (University of California-Santa Cruz, UCSC)

Contact:

Adina Paytan (University of California-Santa Cruz, UCSC)

Data Manager:

Kyle H. Hardage (University of California-Santa Cruz, UCSC)

BCO-DMO Data Manager:

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

Version:

Version Date:

2024-10-25

Restricted:

Validated:

Yes

Current State:

Final no updates expected

Isotopes (d11B, 87Sr/86Sr, d18O, d13C), elemental concentrations (B, Mg, Ca), and carbon content collected from the foraminifera Ammonia parkinsoniana and sediments in Celestun Lagoon, Yucatan, Mexico in June 2009 and May 2015

Abstract:

This dataset includes isotopes (δ11B, 87Sr/86Sr, δ18O, δ13C), elemental concentrations (B, Mg, Ca), and carbon content collected from the foraminifera Ammonia parkinsoniana and sediments in Celestun Lagoon, Yucatan, Mexico in June 2009 and May 2015. Sediment cores were taken with push corers and piston corers. Sampling site were distributed unevenly along a transect along the lagoon. These data were collected to investigate the influence of low-pH groundwater-seawater mixing on the boron isotope pH proxy.

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Archival Copy

Version Date	Archive	Persistent Identifier (PID)	Date PID Issued
2024-10-25	Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)	10.26008/1912/bco-dmo.941327.1	2024-12-18

Methods & Sampling

Location: Celestún Biosphere Reserve, Yucatan, Mexico. 20.88 N 90.36 E depth 0.5 m.
Collection: Data collected from dinghy. No vessel name. June 2009 and May 2015.

Sediment cores were collected during three expeditions to Celestun Lagoon in 2006, 2009, and 2015. Sediments were stored in cold (4 Celcius) storage. Short cores were sectioned at 2 cm intervals, and long cores were processed at 5 cm resolution. Foraminifera samples were sieved, deflocculated, and handpicked for geochemical analysis, including δ11B, 87Sr/86Sr, and δ18O.

Additional methods citations:

Boron isotope method: Wang et al. (2020).
Strontium isotope method: Liu et al. (2012).
pH and borate equations: Foster et al. (2016).
Organic carbon in sediments. Modified to use chilled sulfuric acid with sonication to ensure complete decarbonation: Verardo et al. (1990).

Related dataset descriptions (See section "Related Datasets" for data citations):

Water samples:
BCO-DMO dataset https://www.bco-dmo.org/dataset/941377 contains water sample data collected concurrently with the May 2015 sampling event.

This study and Paytan (2021, BCO-DMO dataset https://www.bco-dmo.org/dataset/564766) both derive groundwater from the same regional aquifer in Yucatan, Mexico, and both studies review the effects of low-pH springs on saturation and calcification of organisms. They are different sample material.

The sediment cores and assemblages in Hardage et al. (2021, doi:10.25921/qkc1-yw35) at NOAA provide the sample material for the geochemistry reported in this study (foraminifera, bulk sediment, physical observations). The Hardage et al. (2021) dataset also contains additional lithology and geochemistry that can be paired with these new data for interested parties.

Organism Life Science Identifier (LSID):
Ammonia parkinsoniana, urn:lsid:marinespecies.org:taxname:418095

Instrument and equipment list:

Piston, Bolivia, Livingstone corers: coring devices used to collect sediments.
0.5 mL micro-centrifuge tubes: used to store crushed foraminifera for cleaning.
Neptune multi-collector inductively coupled plasma mass spectrometer (MC-ICPMS).
Thermo Scientific Element XR ICPMS.
Kiel IV Carbonate Device.
ThermoScientific MAT-253 dual-inlet isotope ratio mass spectrometer.
Carlo Erba elemental analyzer IRMS.

Data Processing Description

Element data were corrected for blank, drift, mass bias, and calcium matrix effects.

Boron isotopes were corrected using the standard-sample-standard bracket technique to correct drift and bias across each individual sample.

Note about aggregated data (means, standard deviations):
The averages are from the instruments themselves, not from true replicates. They typically take 4 to 10 readings and average the result, depending on the instrument. Since these are mass spectrometers counting individual ions, this averaging is necessary to reduce noise.

BCO-DMO Processing

* Data table from submitted file "Hardage_boron_foraminifera_parameter_values.csv" was imported into the BCO-DMO data system for this dataset. Values "-999" imported as missing data values.
** In the BCO-DMO data system missing data identifiers are displayed according to the format of data you access. For example, in csv files it will be blank (null) values. In Matlab .mat files it will be NaN values. When viewing data online at BCO-DMO, the missing value will be shown as blank (null) values.

Data Files

File
941327_v1_foram-boron-isotopes.csv (Comma Separated Values (.csv), 5.81 KB) MD5:1aaad96db0f3b7df43f4cec937c62e7f Measured geochemistry values and uncertainty for foraminifera calcite and sediment organic matter. Primary data file for dataset ID 941327, version 1

More Information about this dataset

Funding Sources

Funding Source	Award Number
NSF Division of Ocean Sciences	OCE-1040952

Deployments

None available yet

Instruments

Elemental Analyzer

Supplied Name: Carlo Erba elemental analyzer IRMS

Supplied Description:

Instrument Type

Generic Name: Elemental Analyzer

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/LAB01/

Generic Description:

Instruments that quantify carbon, nitrogen and sometimes other elements by combusting the sample at very high temperature and assaying the resulting gaseous oxides. Usually used for samples including organic material.

Inductively Coupled Plasma Mass Spectrometer

Supplied Name: Thermo Scientific Element XR ICPMS

Supplied Description:

Instrument Type

Generic Name: Inductively Coupled Plasma Mass Spectrometer

Acronym: ICP Mass Spec

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/LAB15/

Generic Description:

An ICP Mass Spec is an instrument that passes nebulized samples into an inductively-coupled gas plasma (8-10000 K) where they are atomized and ionized. Ions of specific mass-to-charge ratios are quantified in a quadrupole mass spectrometer.

Isotope-ratio Mass Spectrometer

Supplied Name: Kiel IV Carbonate Device

Supplied Description:

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: ThermoScientific MAT-253 dual-inlet isotope ratio mass spectrometer.

Supplied Description:

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).

Multi Collector Inductively Coupled Plasma Mass Spectrometer

Supplied Name: Neptune multi-collector inductively coupled plasma mass spectrometer (MC-ICPMS).

Supplied Description:

Instrument Type

Generic Name: Multi Collector Inductively Coupled Plasma Mass Spectrometer

Acronym: MC-ICPMS

Generic Description:

A Multi Collector Inductively Coupled Plasma Mass Spectrometry (MC-ICPMS) is a type of mass spectrometry where the sample is ionized in a plasma (a partially ionized gas, such as Argon, containing free electrons) that has been generated by electromagnetic induction. A series of collectors is used to detect several ion beams simultaneously.

A MC-ICPMS is a hybrid mass spectrometer that combines the advantages of an inductively coupled plasma source and the precise measurements of a magnetic sector multicollector mass spectrometer. The primary advantage of the MC-ICPMS is its ability to analyze a broader range of elements, including those with high ionization potential that are difficult to analyze by Thermal Ionization Mass Spectrometry (TIMS). The ICP source also allows flexibility in how samples are introduced to the mass spectrometer and allows the analysis of samples introduced either as an aspirated solution or as an aerosol produced by laser ablation.

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
date	Date of sample collection in ISO 8601 format. GMT-6 (Central Standard Time in Yucatan, Mexico) Format: %Y-%m-%d	date	date_local
site	Site code for sediment sample.	unitless	site
lat	Site latitude in WGS84; north is positive.	decimal degrees	lat
long	Site longitude in WGS84; east is negative.	decimal degrees	lon
distance	Distance along the central lagoon axis from the northern fringe mangrove to the southern lagoon opening to the ocean.	kilometers (km)	length
core	Sediment core taken at site. Subsampled for analysis of sediment organic matter and calcite of the benthic foraminifera Ammonia parkinsoniana.	unitless	core_id
depth	Depth in the sediment core, which is the same as depth below sediment-water interface.	centimeters (cm)	depth
MgCa	Magnesium to calcium ratio measured in the calcite of Ammonia parkinsoniana.	millimol per mole (mmol/mol)	no_bcodmo_term
MgCa_2sd	Magnesium to calcium ratio 2 standard deviations, determined from lab standards.	millimol per mole (mmol/mol)	no_bcodmo_term
BCa	Boron to calcium ratio measured in the calcite of Ammonia parkinsoniana.	micromol per mole (umol/mol)	no_bcodmo_term
BCa_2sd	Boron to calcium ratio 2 standard deviations, determined from lab standards.	micromol per mole (umol/mol)	no_bcodmo_term
d11B	Boron-11 isotope ratio measured in the calcite of Ammonia parkinsoniana.	per mil (0/00)	d11B
d11B_2sd	Boron-11 isotope ratio 2 standard deviations, determined from lab standards.	per mil (0/00)	d11B
d18O	Oxygen-18 isotope ratio measured in the calcite of Ammonia parkinsoniana. Uncertainty is +- 0.06, determined from lab standards.	per mil (0/00)	d18O
d13C	Carbon-13 isotope ratio measured in the calcite of Ammonia parkinsoniana. Uncertainty is +- 0.13, determined from lab standards.	per mil (0/00)	d13C
Sr8786	Radiogenic strontium ratio 87Sr/86Sr measured in the calcite of Ammonia parkinsoniana.	unitless	no_bcodmo_term
Sr8786_2sd	Radiogenic strontium ratio 87Sr/86Sr 2 standard deviations, determined from lab standards.	unitless	no_bcodmo_term
d13C_om	Carbon-13 isotope ratio measured in the organic matter (carbon) fraction of bulk sediment.	per mil (0/00)	d13C
d13C_om_2sd	Carbon-13 isotope ratio standard deviation, determined from lab standards.	per mil (0/00)	d13C
om_content	Weight percent organic matter (carbon) content of bulk sediment.	percent (%)	no_bcodmo_term
om_content_2sd	Weight percent organic matter (carbon) standard deviation, determined from lab standards.	percent (%)	no_bcodmo_term