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Chen, Limei; Huang, Gengyin; Liang, Shuang; Liang, Jian; Wang, Hefeng; Liu, Huiru; Wang, Xiaoyu; Li, Li; Guo, Yongjun; Liu, Wenguang (2024): Seawater carbonate chemistry and oxygen consumption rates and ammonia excretion rates of Mactra veneriformis [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.974228

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Published: 2024-12-18 • DOI registered: 2025-01-16

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Abstract:
In this study, oxygen consumption rate, ammonia excretion rate, and transcriptome sequencing of mantle tissue analyses were conducted in white and purple shell-color populations of M. veneriformis under OA stress (pH = 7.6).
This dataset is included in the OA-ICC data compilation maintained in the framework of the IAEA Ocean Acidification International Coordination Centre (see https://oa-icc.ipsl.fr). Original data were extracted from tables in the related paper (see Related to) by the OA-ICC data curator. In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Gattuso et al, 2024) 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 2024-12-17.
Keyword(s):
Animalia; Benthic animals; Benthos; Coast and continental shelf; Containers and aquaria (20-1000 L or < 1 m**2); Laboratory experiment; Mactra veneriformis; Mollusca; North Pacific; Other metabolic rates; Respiration; Single species; Temperate
Related to:
Chen, Limei; Huang, Gengyin; Liang, Shuang; Liang, Jian; Wang, Hefeng; Liu, Huiru; Wang, Xiaoyu; Li, Li; Guo, Yongjun; Liu, Wenguang (2024): Comparative Physiological and Transcriptome Analyses Reveal the Responses to Ocean Acidification Challenge of Mactra veneriformis with Different Shell Colors. Fishes, 9(12), 486, https://doi.org/10.3390/fishes9120486
References:
Nisumaa, Anne-Marin; Pesant, Stephane; Bellerby, Richard G J; Delille, Bruno; Middelburg, Jack J; Orr, James C; Riebesell, Ulf; Tyrrell, Toby; Wolf-Gladrow, Dieter A; Gattuso, Jean-Pierre (2010): EPOCA/EUR-OCEANS data compilation on the biological and biogeochemical responses to ocean acidification. Earth System Science Data, 2(2), 167-175, https://doi.org/10.5194/essd-2-167-2010
Yang, Yan; Brockmann, Patrick; Galdino, Carolina; Schindler, Uwe; Gazeau, Frédéric (2024): An update of data compilation on the biological response to ocean acidification and overview of the OA-ICC data portal. Earth System Science Data, 16(8), 3771-3780, https://doi.org/10.5194/essd-16-3771-2024
Yang, Yan; Hansson, L; Gattuso, Jean-Pierre (2016): Data compilation on the biological response to ocean acidification: an update. Earth System Science Data, 8(1), 79-87, https://doi.org/10.5194/essd-8-79-2016
Related code / software:
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 (2024): seacarb: seawater carbonate chemistry with R. R package version 3.3.3. https://cran.r-project.org/web/packages/seacarb/index.html
Project(s):
Ocean Acidification International Coordination Centre (OA-ICC)
Coverage:
Latitude: 39.010000 * Longitude: 117.820000
Date/Time Start: 2023-07-08T00:00:00 * Date/Time End: 2023-07-08T00:00:00
Event(s):
Dongjianggang * Latitude: 39.010000 * Longitude: 117.820000 * Date/Time: 2023-07-08T00:00:00
Parameter(s):
#NameShort NameUnitPrincipal InvestigatorMethod/DeviceComment
1 Type of studyStudy typeGuo, Yongjun
2 Species, unique identificationSpecies UIDGuo, Yongjun
3 Species, unique identification (URI)Species UID (URI)Guo, Yongjun
4 Species, unique identification (Semantic URI)Species UID (Semantic URI)Guo, Yongjun
5 GroupGroupGuo, Yongjun
6 Time in daysTime ddaysGuo, Yongjun
7 Treatment: pHT:pHGuo, Yongjun
8 Respiration rate, oxygenResp O2mg/g/hGuo, Yongjun
9 Respiration rate, oxygen, standard deviationResp O2 std dev±Guo, Yongjun
10 Ammonia excretionNH3/[NH4]+ excmg/g/hGuo, Yongjun
11 Ammonia excretion, standard deviationNH3/[NH4]+ exc std dev±Guo, Yongjun
12 Respiration rate/ammonia excretionO/NGuo, Yongjun
13 Respiration rate/ammonia excretion, standard deviationO/N std dev±Guo, Yongjun
14 SalinitySalGuo, Yongjun
15 pH, total scalepHTGuo, YongjunPotentiometric
16 pH, standard deviationpH std dev±Guo, YongjunPotentiometrictotal scale
17 Temperature, waterTemp°CGuo, Yongjun
18 Temperature, water, standard deviationTemp std dev±Guo, Yongjun
19 Alkalinity, totalATµmol/kgGuo, YongjunPotentiometric titration
20 Alkalinity, total, standard deviationAT std dev±Guo, YongjunPotentiometric titration
21 Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)pCO2water_SST_wetµatmGuo, YongjunCalculated using CO2SYS
22 Partial pressure of carbon dioxide, standard deviationpCO2 std dev±Guo, YongjunCalculated using CO2SYS
23 Aragonite saturation stateOmega ArgGuo, YongjunCalculated using CO2SYS
24 Aragonite saturation state, standard deviationOmega Arg std dev±Guo, YongjunCalculated using CO2SYS
25 Calcite saturation stateOmega CalGuo, YongjunCalculated using CO2SYS
26 Calcite saturation state, standard deviationOmega Cal std dev±Guo, YongjunCalculated using CO2SYS
27 Carbonate system computation flagCSC flagYang, YanCalculated using seacarb after Nisumaa et al. (2010)
28 Carbon dioxideCO2µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
29 Fugacity of carbon dioxide (water) at sea surface temperature (wet air)fCO2water_SST_wetµatmYang, YanCalculated using seacarb after Nisumaa et al. (2010)
30 Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)pCO2water_SST_wetµatmYang, YanCalculated using seacarb after Nisumaa et al. (2010)
31 Bicarbonate ion[HCO3]-µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
32 Carbonate ion[CO3]2-µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
33 Carbon, inorganic, dissolvedDICµmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
34 Aragonite saturation stateOmega ArgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
35 Calcite saturation stateOmega CalYang, YanCalculated 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:
264 data points

Data

Download dataset as tab-delimited text — use the following character encoding:

1 
Study type		2 
Species UID		3 
Species UID (URI)		4 
Species UID (Semantic URI)		5 
Group		6 
Time d [days]		7 
T:pH		8 
Resp O2 [mg/g/h]		9 
Resp O2 std dev [±]		10 
NH3/[NH4]+ exc [mg/g/h]		11 
NH3/[NH4]+ exc std dev [±]		12 
O/N		13 
O/N std dev [±]		14 
Sal		15 
pHT
(Potentiometric)		16 
pH std dev [±]
(total scale, Potentiometric)		17 
Temp [°C]		18 
Temp std dev [±]		19 
AT [µmol/kg]
(Potentiometric titration)		20 
AT std dev [±]
(Potentiometric titration)		21 
pCO2water_SST_wet [µatm]
(Calculated using CO2SYS)		22 
pCO2 std dev [±]
(Calculated using CO2SYS)		23 
Omega Arg
(Calculated using CO2SYS)		24 
Omega Arg std dev [±]
(Calculated using CO2SYS)		25 
Omega Cal
(Calculated using CO2SYS)		26 
Omega Cal std dev [±]
(Calculated using CO2SYS)		27 
CSC flag
(Calculated using seacarb afte...)		28 
CO2 [µmol/kg]
(Calculated using seacarb afte...)		29 
fCO2water_SST_wet [µatm]
(Calculated using seacarb afte...)		30 
pCO2water_SST_wet [µatm]
(Calculated using seacarb afte...)		31 
[HCO3]- [µmol/kg]
(Calculated using seacarb afte...)		32 
[CO3]2- [µmol/kg]
(Calculated using seacarb afte...)		33 
DIC [µmol/kg]
(Calculated using seacarb afte...)		34 
Omega Arg
(Calculated using seacarb afte...)		35 
Omega Cal
(Calculated using seacarb afte...)
laboratoryMactra veneriformismarinespecies.orgurn:lsid:marinespecies.org:taxname:540845purple color157.61.3090.0500.0870.00313.1320.160257.630.1240.1250027.01548161.300.012.040.2843.301410.681415.252314.1079.742437.141.322.07
laboratoryMactra veneriformismarinespecies.orgurn:lsid:marinespecies.org:taxname:540845purple color158.11.0870.0130.0600.00315.7930.506258.120.1240.1260044.543973.690.065.800.1812.63411.35412.692085.31222.062319.993.665.76
laboratoryMactra veneriformismarinespecies.orgurn:lsid:marinespecies.org:taxname:540845purple color307.61.6430.0600.1360.06010.6010.587257.630.1240.1250027.01548161.300.012.040.2843.301410.681415.252314.1079.742437.141.322.07
laboratoryMactra veneriformismarinespecies.orgurn:lsid:marinespecies.org:taxname:540845purple color308.11.0620.1140.0620.07015.0951.082258.120.1240.1260044.543973.690.065.800.1812.63411.35412.692085.31222.062319.993.665.76
laboratoryMactra veneriformismarinespecies.orgurn:lsid:marinespecies.org:taxname:540845white color157.61.6070.0070.0880.03816.0150.753257.630.1240.1250027.01548161.300.012.040.2843.301410.681415.252314.1079.742437.141.322.07
laboratoryMactra veneriformismarinespecies.orgurn:lsid:marinespecies.org:taxname:540845white color158.11.4390.0250.0500.07921.7490.882258.120.1240.1260044.543973.690.065.800.1812.63411.35412.692085.31222.062319.993.665.76
laboratoryMactra veneriformismarinespecies.orgurn:lsid:marinespecies.org:taxname:540845white color307.61.8130.0350.1230.08913.0580.918257.630.1240.1250027.01548161.300.012.040.2843.301410.681415.252314.1079.742437.141.322.07
laboratoryMactra veneriformismarinespecies.orgurn:lsid:marinespecies.org:taxname:540845white color308.11.4010.1160.0660.03620.8601.000258.120.1240.1260044.543973.690.065.800.1812.63411.35412.692085.31222.062319.993.665.76