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Lee, Young Hwan; Kim, Min Sub; Wang, Minghua; Bhandari, Ramji K; Park, Heum Gi; Wu, Rudolf Shiu Sun; Lee, Jae-Seong (2022): Seawater carbonate chemistry and reproduction of Paracyclopina nana [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.953834

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Abstract:
Plasticity enhances species fitness and survival under climate change. Ocean acidification poses a potential threat to copepods, a major zooplankton group that serves as a key link between the lower and higher trophic levels in the marine environment, yet the mechanisms underlying different adaptive responses remain poorly understood. Here we show that although elevated CO2 can exert negative effects on reproduction of Paracyclopina nana, multigenerational plasticity can enable recovery after three generations. By integrating the methylome and transcriptome with the draft genome and undertaking DNA methylation treatments, we demonstrate the vital role of epigenetic modifications in ocean acidification responses and identify regions associated with reproductive resilience. Our results demonstrate that DNA methylation might play an important role in enhancing species fitness of copepods and that failing to consider phenotypic plasticity could lead to overestimation of species' vulnerabilities.
Keyword(s):
Animalia; Bottles or small containers/Aquaria (<20 L); Coast and continental shelf; Copepoda; Gene expression (incl. proteomics); Growth/Morphology; Laboratory experiment; North Pacific; Other; Paracyclopina nana; Pelagos; Reproduction; Single species; Temperate; Zooplankton
Supplement to:
Lee, Young Hwan; Kim, Min Sub; Wang, Minghua; Bhandari, Ramji K; Park, Heum Gi; Wu, Rudolf Shiu Sun; Lee, Jae-Seong (2022): Epigenetic plasticity enables copepods to cope with ocean acidification. Nature Climate Change, 12(10), 918-927, https://doi.org/10.1038/s41558-022-01477-4
Further details:
Data of figure 3 and ED 8
Gattuso, Jean-Pierre; Epitalon, Jean-Marie; Lavigne, Héloïse; Orr, James (2021): seacarb: seawater carbonate chemistry with R. R package version 3.2.16. 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, 2021) 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 2023-01-11.
Parameter(s):
#NameShort NameUnitPrincipal InvestigatorMethod/DeviceComment
1TypeTypeLee, Young HwanStudy
2Species, unique identificationSpecies UIDLee, Young Hwan
3Species, unique identification (URI)Species UID (URI)Lee, Young Hwan
4Species, unique identification (Semantic URI)Species UID (Semantic URI)Lee, Young Hwan
5FigureFigLee, Young Hwan
6GenerationGenerationLee, Young Hwan
7TreatmentTreatLee, Young HwanpH
8StageStageLee, Young Hwan
9Time in daysTimedaysLee, Young Hwandevelopmental time
10IdentificationIDLee, Young HwanCopepod
11Body lengthBLµmLee, Young Hwan
12FecundityFecundity#Lee, Young Hwan
13Sex, ratio of female to totalSex ratio f/totLee, Young Hwan
145-azacytidine5-Azamg/lLee, Young Hwan
15Temperature, waterTemp°CLee, Young Hwan
16SalinitySalLee, Young Hwan
17pHpHLee, Young Hwantotal scale
18pH, standard deviationpH std dev±Lee, Young Hwantotal scale
19Alkalinity, totalATµmol/kgLee, Young Hwan
20Alkalinity, total, standard deviationAT std dev±Lee, Young Hwan
21Carbon, inorganic, dissolvedDICµmol/kgLee, Young Hwan
22Carbon, inorganic, dissolved, standard deviationDIC std dev±Lee, Young Hwan
23Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)pCO2water_SST_wetµatmLee, Young Hwan
24Partial pressure of carbon dioxide, standard deviationpCO2 std dev±Lee, Young Hwan
25Bicarbonate ion[HCO3]-µmol/kgLee, Young Hwan
26Bicarbonate, standard deviation[HCO3]- std dev±Lee, Young Hwan
27Carbonate ion[CO3]2-µmol/kgLee, Young Hwan
28Carbonate ion, standard deviation[CO3]2- std dev±Lee, Young Hwan
29Aragonite saturation stateOmega ArgLee, Young Hwan
30Aragonite saturation state, standard deviationOmega Arg std dev±Lee, Young Hwan
31Calcite saturation stateOmega CalLee, Young Hwan
32Calcite saturation state, standard deviationOmega Cal std dev±Lee, Young Hwan
33Carbonate system computation flagCSC flagYang, YanCalculated using seacarb after Nisumaa et al. (2010)
34Carbon dioxideCO2µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
35Fugacity of carbon dioxide (water) at sea surface temperature (wet air)fCO2water_SST_wetµatmYang, YanCalculated using seacarb after Nisumaa et al. (2010)
36Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)pCO2water_SST_wetµatmYang, YanCalculated using seacarb after Nisumaa et al. (2010)
37Bicarbonate ion[HCO3]-µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
38Carbonate ion[CO3]2-µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
39Carbon, inorganic, dissolvedDICµmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
40Aragonite saturation stateOmega ArgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
41Calcite 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:
8590 data points

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