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Slomka, Shai; Verspagen, Jolanda M H; Huisman, Jef; Wilken, Susanne (2025): Seawater carbonate chemistry and photosynthetic carbon fixation rates and grazing rates of mixotrophic protists [dataset]. PANGAEA, https://doi.pangaea.de/10.1594/PANGAEA.983617 (DOI registration in progress)

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Published: 2025-07-04

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Abstract:
We studied responses to simulated ocean acidification in three strains of the mixotrophic chrysophyte Ochromonas (CCMP1391, CCMP2951, and CCMP1393). After acclimatization of the strains to treatment with high-CO2 (1000 ppm, pH 7.9) and low-CO2 concentrations (350 ppm, pH 8.3), strains CCMP1393 and CCMP2951 both exhibited higher growth rates in response to the high-CO2 treatment. In terms of the balance between phototrophic and heterotrophic metabolism, diverse responses were observed.
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 downloaded from Figshare (see Source) 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 2025-07-03.
Keyword(s):
Behaviour; Bottles or small containers/Aquaria (<20 L); Chromista; Growth/Morphology; Laboratory experiment; Laboratory strains; Not applicable; Ochromonas sp.; Ochrophyta; Pelagos; Phytoplankton; Primary production/Photosynthesis; Single species
Related to:
Slomka, Shai; Verspagen, Jolanda M H; Huisman, Jef; Wilken, Susanne (2025): Variable responses to ocean acidification among mixotrophic protists with different lifestyles. ISME Communications, 5(1), ycaf064, https://doi.org/10.1093/ismeco/ycaf064
Source:
Slomka, Shai; Verspagen, Jolanda M H; Huisman, Jef; Wilken, Susanne (2025): Data for manuscript- <b>Variable responses to ocean acidification among mixotrophic protists with different lifestyles</b> [dataset]. figshare, https://doi.org/10.6084/M9.FIGSHARE.28741820
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
1Type of studyStudy typeSlomka, Shai
2SpeciesSpeciesSlomka, Shai
3StrainStrainSlomka, Shai
4TreatmentTreatSlomka, Shai
5ReplicateReplSlomka, Shai
6Cell densityCells#/mlSlomka, Shai
7Growth rateµ1/daySlomka, Shai
8FluorescenceFluorescenceSlomka, ShaiNormalized Cellular Red
9Forward scatter, relativeFSC relSlomka, Shai
10Grazing rate per individualGraz rate/ind#/#/hSlomka, Shaitotal bacteria abundance per cell
11Grazing rate as carbon per individualGraz rate C/indpg/#/hSlomka, Shaicarbon per cell
12Growth rateµ1/daySlomka, Shaicorrected for clumping
13Photosynthetic carbon fixation rate, per cellC fix/cellpg/#/hSlomka, Shaiat 100umol photons/ m2/sec
14Photosynthetic carbon fixation rate, per cellC fix/cellpg/#/hSlomka, Shaiat 50 photons/ m2/sec
15Slope in carbon fixationSlope C fix(pg/#/h)/(µmol photons/m2/s)Slomka, Shai
16Chlorophyll a per cellChl a/cellpg/#Slomka, Shai
17Beta-Carotene/Chlorophyll a ratiob-Car/Chl aSlomka, Shai
18(Violaxanthin + Zeaxanthin)/Chlorophyll a ratioVZ/Chl aSlomka, Shai
19Fucoxanthin/Chlorophyll a ratioFuco/Chl aSlomka, Shai
20Chlorophyll c2/Chlorophyll a ratioChl c2/Chl aSlomka, Shai
21Carbon, inorganic, dissolvedDICµmol/lSlomka, Shai
22pH, NBS scalepH NBSSlomka, Shai
23Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)pCO2water_SST_wetppmvSlomka, Shai
24Alkalinity, totalATµmol/lSlomka, Shai
25SalinitySalSlomka, Shai
26Temperature, waterTemp°CSlomka, Shai
27Phosphate[PO4]3-µmol/kgSlomka, Shai
28Carbonate system computation flagCSC flagYang, YanCalculated using seacarb after Nisumaa et al. (2010)
29pH, total scalepHTYang, YanCalculated using seacarb after Nisumaa et al. (2010)
30Carbon dioxideCO2µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
31Fugacity of carbon dioxide (water) at sea surface temperature (wet air)fCO2water_SST_wetµatmYang, YanCalculated using seacarb after Nisumaa et al. (2010)
32Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)pCO2water_SST_wetµatmYang, YanCalculated using seacarb after Nisumaa et al. (2010)
33Bicarbonate ion[HCO3]-µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
34Carbonate ion[CO3]2-µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
35Carbon, inorganic, dissolvedDICµmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
36Alkalinity, totalATµmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
37Aragonite saturation stateOmega ArgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
38Calcite 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:
1350 data points

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