Dataset: Shell Concentrations

Name: Shell Concentrations from an adult Eastern oyster ocean acidification exposure experiment on adult Eastern oysters from Plum Island Sound in 2017
Published: 2023-02-02
Keywords: Oyster, extrapallial fluid, trace elements, ocean acidification, biota, oceans

Cite This Dataset

DOI:10.26008/1912/bco-dmo.888902.1

Spatial Extent: N:42.751636 E:-70.837023 S:42.751636 W:-70.837023

Temporal Extent: 2017-04 - 2017-04

Project:

Collaborative Research: Does ocean acidification induce a methylation response that affects the fitness of the next generation in oysters? (Epigenetics to Ocean)

Principal Investigator:

Katie Lotterhos (Northeastern University)

Co-Principal Investigator:

Justin B. Ries (Northeastern University)

Student:

Elise McNally (Northeastern University)

Contact:

Justin B. Ries (Northeastern University)

BCO-DMO Data Manager:

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

Version:

Version Date:

2023-02-02

Restricted:

Validated:

Yes

Current State:

Final no updates expected

Shell Concentrations from an adult Eastern oyster ocean acidification exposure experiment on adult Eastern oysters from Plum Island Sound in 2017

Abstract:

Trace, minor, and major element data from adult Eastern oyster ocean acidification exposure experiments were conducted at the Ries Lab at the Northeastern University Marine Science Center on samples from Plum Island Sound in 2017. This dataset represents shell Concentrations of the adult eastern oyster (Crassostrea virginica) exposed to experimental ocean acidification (OA) over 80 days.

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Archival Copy

Version Date	Archive	Persistent Identifier	Date Assigned
2023-02-02	Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)	10.26008/1912/bco-dmo.888902.1	2023-02-23

Methods & Sampling

This dataset represents Crassostrea virginica shell samples analyzed for trace and minor elements in adult Eastern oyster ocean acidification exposure experiments at the Ries Lab at the Northeastern University Marine Science Center on samples from Plum Island Sound in 2017.

The collection and culturing of C. virginica specimens are detailed in Downey-Wall, A.M., L.P. Cameron, B.M. Ford, E.M. McNally, Y.R. Venkataraman, S.B. Roberts, J.B. Ries, and K.E. Lotterhos. 2020. Ocean acidification induces subtle shifts in gene expression and DNA methylation in the mantle tissue of the Eastern oyster (Crassostrea virginica). Frontiers in Marine Science doi: 10.3389/fmars.2020.566419.

Shells were cleaned thoroughly in 90 percent ethanol (Fisher Reagent Alcohol CAS: 64-17-5). Cleaned shells were dried at room temperature for 48 hours and stored in sealed plastic bags. The inner (lamellar) layer of oyster shells was sampled for elemental analysis. Shells were sampled by gently moving a Shiyang-III dental drill outfitted with a round bit across the low-Mg calcite surfaces of the interior shell. The powdered shell was placed in 15-milliliter (mL) polypropylene centrifuge tubes leached in 5 percent ultra-pure nitric acid solution (Fisher TraceMetal Grade Nitric Acid UN2031).

Elemental analysis
Shell samples were analyzed for trace and minor elements by inductively coupled plasma mass spectrometry (ICPMS). Shell samples were also acidified with ultra-pure nitric acid for analysis. Shell samples were analyzed for a suite of 57 elements (including Ca) by ActLabs, Ontario, Canada using the ActLabs ICPMS Ultratrace 4 method.

Data Processing Description

Concentration data were received from ActLabs:
https://actlabs.com/geochemistry/exploration-geochemistry/4-acid-near-total-digestion/

Concentration data were negative-corrected (i.e., for intercept correction of the calibration) by adding the lowest negative value along with a de minimis constant (0.000001) to each sample for each element that exhibited negative concentration values.

Data Files

File
shell_concentrationdata.csv (Comma Separated Values (.csv), 46.11 KB) MD5:4d2c4777b507ddf4f060f11dc7518915 Primary data file for dataset 888902, version 1.

More Information about this dataset

Funding Sources

Funding Source	Award Number
NSF Division of Ocean Sciences	OCE-1635423

Deployments

None available yet

Instruments

Drill

Supplied Name: Shiyang-III dental drill

Supplied Description:

Instrument Type

Generic Name: Drill

Generic Description:

A drill is a tool used for making round holes or driving fasteners. There are many types of drills: some are powered manually, and others use electricity (electric drill) or compressed air as the motive power. Drills with a percussive action (hammer drills) are mostly used in hard materials such as masonry (brick, concrete, and stone) or rock. Some types of hand-held drills are also used to drive screws and other fasteners.

Inductively Coupled Plasma Mass Spectrometer

Supplied Name:

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.

scale

Supplied Name: Mettler Toledo scale

Supplied Description:

Mettler Toledo scale (precision = 0.001g)

Instrument Type

Generic Name: scale

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/LAB13/

Generic Description:

An instrument used to measure weight or mass.

Parameters

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

Supplied Name	Supplied description	Supplied Units	Standard Name
RunID	Unique id for analysis run	unitless	exp_id
SampleID	Unique identifier for the sample	unitless	sample
OystID	Unique identifier for the bivalve used when sample ID was just labelled as shell	unitless	individual
Species	sample shell type; M = mantle R = repair AM = above mud UM = under mud	unitless	species
SampleType	species that the shell sample was taken from	unitless	sample_type
Ag_ppm	measured concentration of silver	parts per million	trace_element_conc
Al_perc	measured concentration of aluminum	percent	trace_element_conc
As_ppm	measured concentration of arsenic	parts per million	trace_element_conc
Au_ppb	measured concentration of gold	parts per billion	trace_element_conc
B_ppm	measured concentration of boron	parts per million	trace_element_conc
Ba_ppm	measured concentration of barium	parts per million	trace_element_conc
Be_ppm	measured concentration of beryllium	parts per million	trace_element_conc
Bi_ppm	measured concentration of bismuth	parts per million	trace_element_conc
Ca_perc	measured concentration of calcium	percent	trace_element_conc
Cd_ppm	measured concentration of cadmium	parts per million	trace_element_conc
Ce_ppm	measured concentration of Cerium	parts per million	trace_element_conc
Co_ppm	measured concentration of cobalt	parts per million	trace_element_conc
Cr_ppm	measured concentration of chromium	parts per million	trace_element_conc
Cs_ppm	measured concentration of cesium	parts per million	trace_element_conc
Cu_ppm	measured concentration of copper	parts per million	trace_element_conc
Dy_ppm	measured concentration of dysprosium	parts per million	trace_element_conc
Er_ppm	measured concentration of erbium	parts per million	trace_element_conc
Eu_ppm	measured concentration of europium	parts per million	trace_element_conc
Fe_perc	measured concentration of iron	percent	trace_element_conc
Ga_ppm	measured concentration of gallium	parts per million	trace_element_conc
Gd_ppm	measured concentration of gadolinium	parts per million	trace_element_conc
Ge_ppm	measured concentration of germanium	parts per million	trace_element_conc
Hf_ppm	measured concentration of hafnium	parts per million	trace_element_conc
Hg_ppb	measured concentration of mercury	parts per billion	trace_element_conc
Ho_ppm	measured concentration of holmium	parts per million	trace_element_conc
In_ppm	measured concentration of indium	parts per million	trace_element_conc
K_perc	measured concentration of potassium	percent	trace_element_conc
La_ppm	measured concentration of lanthanum	parts per million	trace_element_conc
Li_ppm	measured concentration of lithium	parts per million	trace_element_conc
Lu_ppm	measured concentration of lutetium	parts per million	trace_element_conc
Mg_perc	measured concentration of magnesium	percent	trace_element_conc
Mn_ppm	measured concentration of manganese	parts per million	trace_element_conc
Mo_ppm	measured concentration of molybdenum	parts per million	trace_element_conc
Na_perc	measured concentration of sodium	percent	trace_element_conc
Nb_ppm	measured concentration of niobium	parts per million	trace_element_conc
Nd_ppm	measured concentration of neodymium	parts per million	trace_element_conc
Ni_ppm	measured concentration of nickel	parts per million	trace_element_conc
P_perc	measured concentration of phosphorus	percent	trace_element_conc
Pb_ppm	measured concentration of lead	parts per million	trace_element_conc
Pr_ppm	measured concentration of praseodymium	parts per million	trace_element_conc
Rb_ppm	measured concentration of rubidium	parts per million	trace_element_conc
Re_ppm	measured concentration of rhenium	parts per million	trace_element_conc
S_perc	measured concentration of sulfur	percent	trace_element_conc
Sb_ppm	measured concentration of antimony	parts per million	trace_element_conc
Sc_ppm	measured concentration of scandium	parts per million	trace_element_conc
Se_ppm	measured concentration of selenium	parts per million	trace_element_conc
Sm_ppm	measured concentration of samarium	parts per million	trace_element_conc
Sn_ppm	measured concentration of tin	parts per million	trace_element_conc
Sr_ppm	measured concentration of strontium	parts per million	trace_element_conc
Ta_ppm	measured concentration of tantalum	parts per million	trace_element_conc
Tb_ppm	measured concentration of terbium	parts per million	trace_element_conc
Te_ppm	measured concentration of tellurium	parts per million	trace_element_conc
Th_ppm	measured concentration of thorium	parts per million	trace_element_conc
Ti_perc	measured concentration of titanium	percent	trace_element_conc
Tl_ppm	measured concentration of thallium	parts per million	trace_element_conc
Tm_ppm	measured concentration of thulium	parts per million	trace_element_conc
U_ppm	measured concentration of uranium	parts per million	trace_element_conc
V_ppm	measured concentration of vanadium	parts per million	trace_element_conc
W_ppm	measured concentration of tungsten	parts per million	trace_element_conc
Y_ppm	measured concentration of yttrium	parts per million	trace_element_conc
Yb_ppm	measured concentration of ytterbium	parts per million	trace_element_conc
Zn_ppm	measured concentration of zinc	parts per million	trace_element_conc
Zr_ppm	measured concentration of zirconium	parts per million	trace_element_conc

Database

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Dataset: Shell Concentrations