Citation:

PANGAEA.963471

Name: Seawater carbonate chemistry and oyster holobiont response to acidification and hypoxia
Published: 2023-11-23
License: https://creativecommons.org/licenses/by/4.0/
Keywords: Animalia; Benthic animals; Benthos; Bottles or small containers/Aquaria (<20 L); Coast and continental shelf; Immunology/Self-protection; Laboratory experiment; Magallana angulata; Magallana sikamea; Mollusca; North Pacific; Other studied parameter or process; Oxygen; Single species; Temperate

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Abstract:

The data set is composed of data measured from an experiment involving exposing oyster holobiont to acidification and hypoxia. We aimed to understand the physiological trade-offs involved in oysters based on their exposure to stressful environments and how the microbial community associated with the oysters will also respond. We also measure changes in nutrient processing capability of the holobiont by measuring changes in nutrient concentrations.

Keyword(s):

Animalia; Benthic animals; Benthos; Bottles or small containers/Aquaria (<20 L); Coast and continental shelf; Immunology/Self-protection; Laboratory experiment; Magallana angulata; Magallana sikamea; Mollusca; North Pacific; Other studied parameter or process; Oxygen; Single species; Temperate

Supplement to:

Hemraj, Deevesh Ashley; Falkenberg, Laura J; Cheung, Khan; Man, Lauren; Carini, Alessia; Russell, Bayden D (2023): Acidification and hypoxia drive physiological trade-offs in oysters and partial loss of nutrient cycling capacity in oyster holobiont. Frontiers in Ecology and Evolution, 11, 1083315, https://doi.org/10.3389/fevo.2023.1083315

Source:

Hemraj, Deevesh Ashley; Falkenberg, Laura J; Cheung, Khan; Man, Lauren; Carini, Alessia; Russell, Bayden D (2023): Oyster Holobiont response to acidification and hypoxia Hemraj et al., 2023 Frontiers Ecology Evolution. HKU Data Repository, https://doi.org/10.25442/HKU.22717084.V1

Documentation:

Gattuso, Jean-Pierre; Epitalon, Jean-Marie; Lavigne, Héloïse; Orr, James; Gentili, Bernard; Hagens, Mathilde; Hofmann, Andreas; Mueller, Jens-Daniel; Proye, Aurélien; Rae, James; Soetaert, Karline (2022): seacarb: seawater carbonate chemistry with R. R package version 3.3.1. https://cran.r-project.org/web/packages/seacarb/index.html

Project(s):

Ocean Acidification International Coordination Centre (OA-ICC)

Comment:

In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Gattuso et al, 2022) was used to compute a complete and consistent set of carbonate system variables, as described by Nisumaa et al. (2010). In this dataset the original values were archived in addition with the recalculated parameters (see related PI). The date of carbonate chemistry calculation by seacarb is 2023-09-06.

Parameter(s):

#	Name	Short Name	Unit	Principal Investigator	Method/Device	Comment
1	Type of study	Study type		Russell, Bayden D
2	Species	Species		Russell, Bayden D
3	Treatment	Treat		Russell, Bayden D
4	Heat shock protein 70	Hsp 70	ng	Russell, Bayden D
5	Total oxidative capacity	TAC	mmol/l	Russell, Bayden D
6	Malondialdehyde	MDA	µmol/l	Russell, Bayden D
7	Sample ID	Sample ID		Russell, Bayden D
8	Granulocytes	Gran	#/ml	Russell, Bayden D
9	Agranulocytes	Agran	#/ml	Russell, Bayden D
10	Phagocytosis	Phago	%	Russell, Bayden D		cells unstained
11	Phagocytosis	Phago	%	Russell, Bayden D		cells engulfed 1 beads
12	Phagocytosis	Phago	%	Russell, Bayden D		cells engulfed 2 beads
13	Phagocytosis	Phago	%	Russell, Bayden D		cells engulfed 3 beads
14	Ammonium	[NH4]+	µmol/l	Russell, Bayden D
15	Nitrite	[NO2]-	µmol/l	Russell, Bayden D
16	Nitrate	[NO3]-	µmol/l	Russell, Bayden D
17	pH	pH		Russell, Bayden D		NBS scale
18	pH, standard error	pH std e	±	Russell, Bayden D		NBS scale
19	Oxygen, dissolved	DO	mg/l	Russell, Bayden D
20	Oxygen, dissolved, standard error	DO std e	±	Russell, Bayden D
21	Temperature, water	Temp	°C	Russell, Bayden D
22	Temperature, water, standard error	T std e	±	Russell, Bayden D
23	Salinity	Sal		Russell, Bayden D
24	Salinity, standard error	Sal std e	±	Russell, Bayden D
25	Alkalinity, total	AT	µmol/kg	Russell, Bayden D	Potentiometric titration
26	Alkalinity, total, standard error	AT std e	±	Russell, Bayden D	Potentiometric titration
27	Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)	pCO2water_SST_wet	µatm	Russell, Bayden D	Calculated using CO2SYS
28	Partial pressure of carbon dioxide (water) at sea surface temperature (wet air), standard error	pCO2water_SST_wet std e	±	Russell, Bayden D	Calculated using CO2SYS
29	Bicarbonate ion	[HCO3]-	µmol/kg	Russell, Bayden D	Calculated using CO2SYS
30	Bicarbonate, standard error	[HCO3]- std e	±	Russell, Bayden D	Calculated using CO2SYS
31	Calcite saturation state	Omega Cal		Russell, Bayden D	Calculated using CO2SYS
32	Calcite saturation state, standard error	Omega Cal std e	±	Russell, Bayden D	Calculated using CO2SYS
33	Aragonite saturation state	Omega Arg		Russell, Bayden D	Calculated using CO2SYS
34	Aragonite saturation state, standard error	Omega Arg std e	±	Russell, Bayden D	Calculated using CO2SYS
35	Carbonate system computation flag	CSC flag		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
36	pH	pH		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)	total scale
37	Carbon dioxide	CO2	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
38	Fugacity of carbon dioxide (water) at sea surface temperature (wet air)	fCO2water_SST_wet	µatm	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
39	Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)	pCO2water_SST_wet	µatm	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
40	Bicarbonate ion	[HCO3]-	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
41	Carbonate ion	[CO3]2-	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
42	Carbon, inorganic, dissolved	DIC	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
43	Aragonite saturation state	Omega Arg		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
44	Calcite saturation state	Omega Cal		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)

License:

Creative Commons Attribution 4.0 International (CC-BY-4.0)

Status:

Curation Level: Enhanced curation (CurationLevelC)

Size:

7231 data points

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