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Liu, Botao; Huo, Da; Gaitan-Espitia, Juan Diego; Guo, Xueying; Yang, Hongsheng; Zhang, Libin (2025): Seawater carbonate chemistry and locomotor behavior of sea cucumber Apostichopus japonicus [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.981112

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Published: 2025-04-14 • DOI registered: 2025-05-13

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Abstract:
This study investigates the impact of combined stressors—ocean warming, acidification and hypoxia on the locomotion behavior of Apostichopus japonicus under future ocean scenarios. Cumulative movement distance, cumulative movement time, mean velocity, and maximum velocity of sea cucumbers were measured.
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 2025-04-11.
Keyword(s):
Animalia; Apostichopus japonicus; Behaviour; Benthic animals; Benthos; Coast and continental shelf; Containers and aquaria (20-1000 L or < 1 m**2); Echinodermata; Laboratory experiment; North Pacific; Oxygen; Single species; Temperate; Temperature
Related to:
Liu, Botao; Huo, Da; Gaitán-Espitia, Juan Diego; Guo, Xueying; Yang, Hongsheng; Zhang, Libin (2025): Multiple-stressor effects of ocean warming, acidification and hypoxia on the locomotor behavior of sea cucumber Apostichopus japonicus. Aquaculture, 603, 742366, https://doi.org/10.1016/j.aquaculture.2025.742366
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)
Parameter(s):
#NameShort NameUnitPrincipal InvestigatorMethod/DeviceComment
1 Type of studyStudy typeZhang, Libin
2 Species, unique identificationSpecies UIDZhang, Libin
3 Species, unique identification (Semantic URI)Species UID (Semantic URI)Zhang, Libin
4 Species, unique identification (URI)Species UID (URI)Zhang, Libin
5 TreatmentTreatZhang, Libin
6 ReplicatesRepl#Zhang, Libin
7 Move durationMove durationsZhang, LibinCumulative
8 Move duration, standard deviationMove duration std dev±Zhang, LibinCumulative
9 ProportionProp%Zhang, Libinmovement time
10 Proportion, standard deviationProp std dev±Zhang, Libinmovement time
11 Resting durationRest durationsZhang, LibinCumulative
12 Resting duration, standard deviationRest duration std dev±Zhang, LibinCumulative
13 ProportionProp%Zhang, Libinrest time
14 Proportion, standard deviationProp std dev±Zhang, Libinrest time
15 Cumulative movement distanceCum move distcmZhang, Libin
16 Cumulative movement distance, standard deviationCum move dist std dev±Zhang, Libin
17 VelocityVcm/sZhang, Libinmean
18 Velocity, standard deviationVel std dev±Zhang, Libinmean
19 VelocityVcm/sZhang, Libinmax
20 Velocity, standard deviationVel std dev±Zhang, Libinmax
21 SalinitySalZhang, Libin
22 Salinity, standard deviationSal std dev±Zhang, Libin
23 Temperature, waterTemp°CZhang, Libin
24 Temperature, water, standard deviationTemp std dev±Zhang, Libin
25 pH, total scalepHTZhang, Libin
26 pH, standard deviationpH std dev±Zhang, Libintotal scale
27 Alkalinity, totalATµmol/kgZhang, Libin
28 Alkalinity, total, standard deviationAT std dev±Zhang, Libin
29 Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)pCO2water_SST_wetµatmZhang, LibinCalculated using CO2SYS
30 Partial pressure of carbon dioxide, standard deviationpCO2 std dev±Zhang, LibinCalculated using CO2SYS
31 Calcite saturation stateOmega CalZhang, LibinCalculated using CO2SYS
32 Calcite saturation state, standard deviationOmega Cal std dev±Zhang, LibinCalculated using CO2SYS
33 Aragonite saturation stateOmega ArgZhang, LibinCalculated using CO2SYS
34 Aragonite saturation state, standard deviationOmega Arg std dev±Zhang, LibinCalculated using CO2SYS
35 Carbonate system computation flagCSC flagYang, YanCalculated using seacarb after Nisumaa et al. (2010)
36 Carbon dioxideCO2µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
37 Carbon dioxide, standard deviationCO2 std dev±Yang, YanCalculated using seacarb after Orr et al. (2018)
38 Fugacity of carbon dioxide (water) at sea surface temperature (wet air)fCO2water_SST_wetµatmYang, YanCalculated using seacarb after Nisumaa et al. (2010)
39 Fugacity of carbon dioxide in seawater, standard deviationfCO2 std dev±Yang, YanCalculated using seacarb after Orr et al. (2018)
40 Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)pCO2water_SST_wetµatmYang, YanCalculated using seacarb after Nisumaa et al. (2010)
41 Partial pressure of carbon dioxide, standard deviationpCO2 std dev±Yang, YanCalculated using seacarb after Orr et al. (2018)
42 Bicarbonate ion[HCO3]-µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
43 Bicarbonate ion, standard deviation[HCO3]- std dev±Yang, YanCalculated using seacarb after Orr et al. (2018)
44 Carbonate ion[CO3]2-µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
45 Carbonate ion, standard deviation[CO3]2- std dev±Yang, YanCalculated using seacarb after Orr et al. (2018)
46 Carbon, inorganic, dissolvedDICµmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
47 Carbon, inorganic, dissolved, standard deviationDIC std dev±Yang, YanCalculated using seacarb after Orr et al. (2018)
48 Aragonite saturation stateOmega ArgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
49 Aragonite saturation state, standard deviationOmega Arg std dev±Yang, YanCalculated using seacarb after Orr et al. (2018)
50 Calcite saturation stateOmega CalYang, YanCalculated using seacarb after Nisumaa et al. (2010)
51 Calcite saturation state, standard deviationOmega Cal std dev±Yang, YanCalculated using seacarb after Orr et al. (2018)
License:
Creative Commons Attribution 4.0 International (CC-BY-4.0)
Status:
Curation Level: Enhanced curation (CurationLevelC)
Size:
98 data points

Data

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

1 
Study type		2 
Species UID		3 
Species UID (Semantic URI)		4 
Species UID (URI)		5 
Treat		6 
Repl [#]		7 
Move duration [s]
(Cumulative)		8 
Move duration std dev [±]
(Cumulative)		9 
Prop [%]
(movement time)		10 
Prop std dev [±]
(movement time)		11 
Rest duration [s]
(Cumulative)		12 
Rest duration std dev [±]
(Cumulative)		13 
Prop [%]
(rest time)		14 
Prop std dev [±]
(rest time)		15 
Cum move dist [cm]		16 
Cum move dist std dev [±]		17 
V [cm/s]
(mean)		18 
Vel std dev [±]
(mean)		19 
V [cm/s]
(max)		20 
Vel std dev [±]
(max)		21 
Sal		22 
Sal std dev [±]		23 
Temp [°C]		24 
Temp std dev [±]		25 
pHT		26 
pH std dev [±]
(total scale)		27 
AT [µmol/kg]		28 
AT std dev [±]		29 
pCO2water_SST_wet [µatm]
(Calculated using CO2SYS)		30 
pCO2 std dev [±]
(Calculated using CO2SYS)		31 
Omega Cal
(Calculated using CO2SYS)		32 
Omega Cal std dev [±]
(Calculated using CO2SYS)		33 
Omega Arg
(Calculated using CO2SYS)		34 
Omega Arg std dev [±]
(Calculated using CO2SYS)		35 
CSC flag
(Calculated using seacarb afte...)		36 
CO2 [µmol/kg]
(Calculated using seacarb afte...)		37 
CO2 std dev [±]
(Calculated using seacarb afte...)		38 
fCO2water_SST_wet [µatm]
(Calculated using seacarb afte...)		39 
fCO2 std dev [±]
(Calculated using seacarb afte...)		40 
pCO2water_SST_wet [µatm]
(Calculated using seacarb afte...)		41 
pCO2 std dev [±]
(Calculated using seacarb afte...)		42 
[HCO3]- [µmol/kg]
(Calculated using seacarb afte...)		43 
[HCO3]- std dev [±]
(Calculated using seacarb afte...)		44 
[CO3]2- [µmol/kg]
(Calculated using seacarb afte...)		45 
[CO3]2- std dev [±]
(Calculated using seacarb afte...)		46 
DIC [µmol/kg]
(Calculated using seacarb afte...)		47 
DIC std dev [±]
(Calculated using seacarb afte...)		48 
Omega Arg
(Calculated using seacarb afte...)		49 
Omega Arg std dev [±]
(Calculated using seacarb afte...)		50 
Omega Cal
(Calculated using seacarb afte...)		51 
Omega Cal std dev [±]
(Calculated using seacarb afte...)
laboratoryApostichopus japonicusurn:lsid:marinespecies.org:taxname:241776marinespecies.orgControl6474.7581.2779.063.53124.3380.9420.7013.482722.11253.014.630.429.911.7130.710.1316.2300.227.980.0302509.8548.36534.8555.883.840.152.530.09819.931.66539.0544.81540.9744.972161.9248.30145.0510.172326.9048.132.270.193.560.30
laboratoryApostichopus japonicusurn:lsid:marinespecies.org:taxname:241776marinespecies.orgCombined stress group6560.8338.5993.406.4339.1738.596.526.435700.091815.539.503.0322.9412.1533.990.7625.4440.117.790.0252680.4960.23904.0341.783.600.172.300.11826.411.91935.7167.29938.6967.502315.7257.36153.339.902495.4658.992.450.193.730.29