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Wei, Lei; Wang, Qing; Wu, Huifeng; Ji, Chenglong; Zhao, Jianmin (2015): Proteomic and metabolomic responses of Pacific oyster Crassostrea gigas to elevated pCO2 exposure [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.836666, Supplement to: Wei, L et al. (2014): Proteomic and metabolomic responses of Pacific oyster Crassostrea gigas to elevated pCO2 exposure. Journal of Proteomics, 112, 83-94, https://doi.org/10.1016/j.jprot.2014.08.010

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Abstract:
The gradually increased atmospheric CO2 partial pressure (pCO2) has thrown the carbonate chemistry off balance and resulted in decreased seawater pH in marine ecosystem, termed ocean acidification (OA). Anthropogenic OA is postulated to affect the physiology of many marine calcifying organisms. However, the susceptibility and metabolic pathways of change in most calcifying animals are still far from being well understood. In this work, the effects of exposure to elevated pCO2 were characterized in gills and hepatopancreas of Crassostrea gigas using integrated proteomic and metabolomic approaches. Metabolic responses indicated that high CO2 exposure mainly caused disturbances in energy metabolism and osmotic regulation marked by differentially altered ATP, glucose, glycogen, amino acids and organic osmolytes in oysters, and the depletions of ATP in gills and the accumulations of ATP, glucose and glycogen in hepatopancreas accounted for the difference in energy distribution between these two tissues. Proteomic responses suggested that OA could not only affect energy and primary metabolisms, stress responses and calcium homeostasis in both tissues, but also influence the nucleotide metabolism in gills and cytoskeleton structure in hepatopancreas. This study demonstrated that the combination of proteomics and metabolomics could provide an insightful view into the effects of OA on oyster C. gigas.
BIOLOGICAL SIGNIFICANCE:
The gradually increased atmospheric CO2 partial pressure (pCO2) has thrown the carbonate chemistry off balance and resulted in decreased seawater pH in marine ecosystem, termed ocean acidification (OA). Anthropogenic OA is postulated to affect the physiology of many marine calcifying organisms. However, the susceptibility and metabolic pathways of change in most calcifying animals are still far from being understood. To our knowledge, few studies have focused on the responses induced by pCO2 at both protein and metabolite levels. The pacific oyster C. gigas, widely distributed throughout most of the world's oceans, is a model organism for marine environmental science. In the present study, an integrated metabolomic and proteomic approach was used to elucidate the effects of ocean acidification on Pacific oyster C. gigas, hopefully shedding light on the physiological responses of marine mollusk to the OA stress.
Keyword(s):
Animalia; Benthic animals; Benthos; Coast and continental shelf; Containers and aquaria (20-1000 L or < 1 m**2); Crassostrea gigas; Gene expression (incl. proteomics); Laboratory experiment; Mollusca; North Pacific; Single species; Temperate
Further details:
Lavigne, Héloïse; Epitalon, Jean-Marie; Gattuso, Jean-Pierre (2014): seacarb: seawater carbonate chemistry with R. R package version 3.0 [webpage]. https://cran.r-project.org/package=seacarb
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 (Lavigne et al, 2014) 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 is 2014-10-13.
Parameter(s):
#NameShort NameUnitPrincipal InvestigatorMethod/DeviceComment
1 SpeciesSpeciesWu, Huifeng
2 TreatmentTreatWu, Huifeng
3 TissuesTissuesWu, Huifeng
4 Protein nameProteinWu, Huifeng
5 mRNA gene expression, relativemRNA expressWu, Huifeng
6 mRNA gene expression, relative, standard deviationmRNA express std dev±Wu, Huifeng
7 Temperature, waterTemp°CWu, Huifeng
8 SalinitySalWu, Huifeng
9 pHpHWu, HuifengPotentiometricNBS scale
10 Carbon, inorganic, dissolvedDICµmol/kgWu, HuifengCoulometric titration
11 Alkalinity, totalATµmol/kgWu, HuifengCalculated using CO2SYS
12 Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)pCO2water_SST_wetµatmWu, HuifengCalculated using CO2SYS
13 Carbonate system computation flagCSC flagYang, YanCalculated using seacarb after Nisumaa et al. (2010)
14 pHpHYang, YanCalculated using seacarb after Nisumaa et al. (2010)total scale
15 Carbon dioxideCO2µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
16 Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)pCO2water_SST_wetµatmYang, YanCalculated using seacarb after Nisumaa et al. (2010)
17 Fugacity of carbon dioxide (water) at sea surface temperature (wet air)fCO2water_SST_wetµatmYang, YanCalculated using seacarb after Nisumaa et al. (2010)
18 Bicarbonate ion[HCO3]-µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
19 Carbonate ion[CO3]2-µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
20 Alkalinity, totalATµmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
21 Aragonite saturation stateOmega ArgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
22 Calcite saturation stateOmega CalYang, YanCalculated using seacarb after Nisumaa et al. (2010)
License:
Creative Commons Attribution 3.0 Unported (CC-BY-3.0)
Status:
Curation Level: Enhanced curation (CurationLevelC)
Size:
352 data points

Data

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

1 
Species		2 
Treat		3 
Tissues		4 
Protein		5 
mRNA express		6 
mRNA express std dev [±]		7 
Temp [°C]		8 
Sal		9 
pH
(NBS scale, Potentiometric)		10 
DIC [µmol/kg]
(Coulometric titration)		11 
AT [µmol/kg]
(Calculated using CO2SYS)		12 
pCO2water_SST_wet [µatm]
(Calculated using CO2SYS)		13 
CSC flag
(Calculated using seacarb afte...)		14 
pH
(total scale, Calculated using...)		15 
CO2 [µmol/kg]
(Calculated using seacarb afte...)		16 
pCO2water_SST_wet [µatm]
(Calculated using seacarb afte...)		17 
fCO2water_SST_wet [µatm]
(Calculated using seacarb afte...)		18 
[HCO3]- [µmol/kg]
(Calculated using seacarb afte...)		19 
[CO3]2- [µmol/kg]
(Calculated using seacarb afte...)		20 
AT [µmol/kg]
(Calculated using seacarb afte...)		21 
Omega Arg
(Calculated using seacarb afte...)		22 
Omega Cal
(Calculated using seacarb afte...)
Crassostrea gigas (mollusk)controlgillsStress response protein nhaX1.030.291829.258.192143.132358.46418.75278.0614.62414.71413.281964.36164.152359.232.604.07
Crassostrea gigas (mollusk)OA stressgillsStress response protein nhaX0.990.261829.417.572377.292370.442007.67277.4470.111989.821982.992261.6845.502371.170.721.13
Crassostrea gigas (mollusk)controlgillsCavortin1.160.711829.258.192143.132358.46418.75278.0614.62414.71413.281964.36164.152359.232.604.07
Crassostrea gigas (mollusk)OA stressgillsCavortin0.320.141829.417.572377.292370.442007.67277.4470.111989.821982.992261.6845.502371.170.721.13
Crassostrea gigas (mollusk)controlgillsArginine kinase1.020.211829.258.192143.132358.46418.75278.0614.62414.71413.281964.36164.152359.232.604.07
Crassostrea gigas (mollusk)OA stressgillsArginine kinase0.710.131829.417.572377.292370.442007.67277.4470.111989.821982.992261.6845.502371.170.721.13
Crassostrea gigas (mollusk)controlgillsTroponin T1.020.191829.258.192143.132358.46418.75278.0614.62414.71413.281964.36164.152359.232.604.07
Crassostrea gigas (mollusk)OA stressgillsTroponin T0.840.211829.417.572377.292370.442007.67277.4470.111989.821982.992261.6845.502371.170.721.13
Crassostrea gigas (mollusk)controlhepatopancreas14-3-3 protein zeta1.020.201829.258.192143.132358.46418.75278.0614.62414.71413.281964.36164.152359.232.604.07
Crassostrea gigas (mollusk)OA stresshepatopancreas14-3-3 protein zeta0.870.391829.417.572377.292370.442007.67277.4470.111989.821982.992261.6845.502371.170.721.13
Crassostrea gigas (mollusk)controlhepatopancreas15-hydroxyprostaglandin dehydrogenase [NAD+]1.150.671829.258.192143.132358.46418.75278.0614.62414.71413.281964.36164.152359.232.604.07
Crassostrea gigas (mollusk)OA stresshepatopancreas15-hydroxyprostaglandin dehydrogenase [NAD+]1.090.621829.417.572377.292370.442007.67277.4470.111989.821982.992261.6845.502371.170.721.13
Crassostrea gigas (mollusk)controlhepatopancreasPeroxiredoxin-51.030.251829.258.192143.132358.46418.75278.0614.62414.71413.281964.36164.152359.232.604.07
Crassostrea gigas (mollusk)OA stresshepatopancreasPeroxiredoxin-50.790.491829.417.572377.292370.442007.67277.4470.111989.821982.992261.6845.502371.170.721.13
Crassostrea gigas (mollusk)controlhepatopancreasRegucalcin1.150.701829.258.192143.132358.46418.75278.0614.62414.71413.281964.36164.152359.232.604.07
Crassostrea gigas (mollusk)OA stresshepatopancreasRegucalcin0.390.151829.417.572377.292370.442007.67277.4470.111989.821982.992261.6845.502371.170.721.13