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Dineshram, R; Wong, Kevin K W; Shu, Xiao; Yu, Ziniu; Qian, Pei Yuan; Thiyagarajan, Vengatesen (2012): Analysis of Pacific oyster larval proteome and its response to high-CO2 [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.823757, Supplement to: Dineshram, R et al. (2012): Analysis of Pacific oyster larval proteome and its response to high-CO2. Marine Pollution Bulletin, 64(10), 2160-2167, https://doi.org/10.1016/j.marpolbul.2012.07.043

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Abstract:
Most calcifying organisms show depressed metabolic, growth and calcification rates as symptoms to high-CO(2) due to ocean acidification (OA) process. Analysis of the global expression pattern of proteins (proteome analysis) represents a powerful tool to examine these physiological symptoms at molecular level, but its applications are inadequate. To address this knowledge gap, 2-DE coupled with mass spectrophotometer was used to compare the global protein expression pattern of oyster larvae exposed to ambient and to high-CO(2). Exposure to OA resulted in marked reduction of global protein expression with a decrease or loss of 71 proteins (18% of the expressed proteins in control), indicating a wide-spread depression of metabolic genes expression in larvae reared under OA. This is, to our knowledge, the first proteome analysis that provides insights into the link between physiological suppression and protein down-regulation under OA in oyster larvae.
Keyword(s):
Animalia; Coast and continental shelf; Containers and aquaria (20-1000 L or < 1 m**2); Crassostrea gigas; Gene expression (incl. proteomics); Growth/Morphology; Laboratory experiment; Mollusca; North Pacific; Pelagos; Single species; Tropical; Zooplankton
Further details:
Lavigne, Héloïse; Gattuso, Jean-Pierre (2011): seacarb: seawater carbonate chemistry with R. R package version 2.4 [webpage]. https://cran.r-project.org/package=seacarb
Comment:
In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Lavigne and Gattuso, 2011) 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 2014-02-20.
Parameter(s):
#NameShort NameUnitPrincipal InvestigatorMethod/DeviceComment
1SpeciesSpeciesThiyagarajan, Vengatesen
2IdentificationIDThiyagarajan, Vengatesen
3Duration, number of daysDurationdaysThiyagarajan, Vengatesendays after fertilization
4ReplicateReplThiyagarajan, Vengatesen
5TreatmentTreatThiyagarajan, Vengatesen
6Shell lengthShell lmmThiyagarajan, Vengatesen
7Protein nameProteinThiyagarajan, Vengatesen
8Spot intensity, relativeSpot intenThiyagarajan, Vengatesen
9SalinitySalThiyagarajan, Vengatesen
10Temperature, waterTemp°CThiyagarajan, Vengatesen
11Alkalinity, totalATµmol/kgThiyagarajan, Vengatesen
12pHpHThiyagarajan, VengatesenNBS scale
13Carbon, inorganic, dissolvedDICµmol/kgThiyagarajan, VengatesenCalculated using CO2SYS
14Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)pCO2water_SST_wetµatmThiyagarajan, VengatesenCalculated using CO2SYS
15Carbon dioxideCO2µmol/kgThiyagarajan, VengatesenCalculated using CO2SYS
16Bicarbonate ion[HCO3]-µmol/kgThiyagarajan, VengatesenCalculated using CO2SYS
17Carbonate ion[CO3]2-µmol/kgThiyagarajan, VengatesenCalculated using CO2SYS
18Calcite saturation stateOmega CalThiyagarajan, VengatesenCalculated using CO2SYS
19Aragonite saturation stateOmega ArgThiyagarajan, VengatesenCalculated using CO2SYS
20Carbonate system computation flagCSC flagYang, YanCalculated using seacarb after Nisumaa et al. (2010)
21pHpHYang, YanCalculated using seacarb after Nisumaa et al. (2010)total scale
22Carbon dioxideCO2µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
23Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)pCO2water_SST_wetµatmYang, YanCalculated using seacarb after Nisumaa et al. (2010)
24Fugacity of carbon dioxide (water) at sea surface temperature (wet air)fCO2water_SST_wetµatmYang, YanCalculated using seacarb after Nisumaa et al. (2010)
25Bicarbonate ion[HCO3]-µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
26Carbonate ion[CO3]2-µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
27Carbon, inorganic, dissolvedDICµmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
28Aragonite saturation stateOmega ArgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
29Calcite saturation stateOmega CalYang, YanCalculated using seacarb after Nisumaa et al. (2010)
Status:
Curation Level: Enhanced curation (CurationLevelC)
Size:
1861 data points

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