Dataset: Control incubation data during calcification experiments

Name: Control incubation data during Mytilus californianus calcification experiments from 2020 to 2022 (OA decoupling project)
Published: 2024-05-06
Keywords: calcification, ocean acidification, carbonate chemistry, mussel, oceans

Cite This Dataset

Spatial Extent: N:38.371361 E:-123.076306 S:38.371361 W:-123.076306

Laboratory experiments were conducted at the Bodega Marine Laboratory in Bodega Bay, CA, USA and specimens were collected from Carmet Beach

Temporal Extent: 2020-01-12 - 2022-04-22

Project:

Invertebrate calcification and behavior in seawater of decoupled carbonate chemistry (OA decoupling)

Principal Investigator:

Brian Gaylord (University of California-Davis, UC Davis)

Student:

Aaron T. Ninokawa (University of California-Davis, UC Davis-BML)

Alisha Saley (University of California-Davis, UC Davis-BML)

Roya Shalchi (University of California-Davis, UC Davis-BML)

Contact:

Aaron T. Ninokawa (State University of New York College of Environmental Science and Forestry, SUNY ESF)

BCO-DMO Data Manager:

Sawyer Newman (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Version:

Version Date:

2024-05-06

Restricted:

Validated:

Yes

Current State:

Final no updates expected

Control incubation data during Mytilus californianus calcification experiments from 2020 to 2022 (OA decoupling project)

Abstract:

These data support Incubation data for Mytilus californianus calcification. These incubations did not contain mussels and demonstrate that background alkalinity changes during experimental modules were minor. These data support Incubation data for Mytilus californianus calcification. These data demonstrate that background alkalinity changes during experimental modules were minor.

Expand/Collapse All

Methods & Sampling

Experiment details

We conducted additional incubations (n=87, between 3 and 9 per experiment day) without mussels throughout the trials as experimental blanks to determine background changes in alkalinity. We excluded from our analysis any experimental days where background alkalinity changes exceeded 5 µmol kg-1.

The mean of the absolute values of alkalinity change during the incubations of these experimental blanks was 1.3 ± 1.2 µmol kg-1 (n = 72).

Data Processing Description

We performed all computations with R statistical software, version 4.1.0. We performed carbonate system calculations using the package seacarb, using equilibrium constants from Lueker et al. We computed linear mixed models using the lmer function in in the lmertest package in R and focused on assessing likely candidate parameters as fixed factors, and mussel collection date as a random intercept to account for natural seasonal differences between cohorts. Conditional R2 was calculated with the package MuMIn. We determined parameters for non-linear fits employed to model dissolution rates by minimizing the sum of squares of model residuals using the optim function.

Colors for plots were chosen from color palettes in the cmocean package in R.

BCO-DMO Processing

- Removed special characters (e.g., periods) from column names and replaced with underscores
- Replaced NAs with "" (blanks) to indicate no data values
- Changed the presentation of species values from "mytilus_californianus" to "Mytilus californianus" and added AphiaID and LSID to the data file
- All numeric float fields rounded to 2 degrees of precision
- A column was added to the data file to represent the incubation start time in UTC, this new column is called ISO_start_DateTime_UTC

Data Files

File
925714_v1_control_incubation_data_during_calcification_experiments.csv (Comma Separated Values (.csv), 15.00 KB) MD5:7dbd28d27f7056792422fd2138f1bacc Primary data file for dataset ID 925714, version 1

More Information about this dataset

Funding Sources

Funding Source	Award Number
NSF Division of Ocean Sciences	OCE-2129942

Deployments

None available yet

Instruments

None available yet

Parameters

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

Supplied Name	Supplied description	Supplied Units	Standard Name
species	Mussel species used in incubation	units	species
AphiaID	Unique identifier for the listed taxon in the Aphia database	unitless	taxon_code
LSID	Life Science Identifier (LSID) for the listed taxon	unitless	taxon_code
module	Experimental module corresponding to different mussel collection events	unitless	sample_type
date_local	Incubation date in Pacific Standard Time Format: %Y-%m-%d %H:%M:%S	unitless	date
start_time_local	Start time of the incubation in Pacific Standard Time Format: %H:%M	unitless	time_begin
ISO_start_DateTime_UTC	Start time of the incubation in UTC Format: %Y-%m-%dT%H:%M:%SZ	unitless	time_begin
duration	Duration of incubation in hours	hours (h)	time_inc
salinity	Incubation Salinity	PSU	sal
temperature	Incubation Temperature	degrees Celcius (c)	temp_inc
TA	Mean alkalinity during incubation	umol kg-1	TALK
ph	Mean pH during incubation, total scale	unitless	pH
hco3	Mean bicarbonate ion concentration during incubation	umol kg-1	bicarbonate
co3	Mean carbonate ion concentration during incubation	umol kg-1	carbonate
omega	Mean aragonite saturation state during incubation, corrected for calcium concentration where calcium was modified	unitless	OM_ar
pco2	Mean partial pressure of carbon dioxide during incubation	uatm	pCO2
dic	Mean dissolved inorganic carbon concentration, [CO2] + [HCO3-] + [CO32-], during the incubation	umol kg-1	DIC
do	Mean dissolved oxygen concentration during the incubation	umol kg-1	O2
incubation_water_mass	Mass of seawater in incubation vessel	kilograms (kg)	mass
delta_ta	Measured change in alkalinity during incubation	umol kg-1	TALK
delta_nh3	Measured change in ammonia concentration during incubation	umol kg-1	NH3_f

Database

Contribute Data

Dataset: Control incubation data during calcification experiments