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Scucchia, Federica; Sauer, Katrein; Fara, Shah; Mass, Tali; Zaslansky, P (2025): Seawater carbonate chemistry and 4D insights into coral growth under ocean acidification [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.987094

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Published: 2025-10-29 • DOI registered: 2025-11-27

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Abstract:
We focus on primary polyps, the initial coral calcifying stage, of Stylophora pistillata, an ubiquitous Indo-Pacific stony coral species, grown under ambient and under acidic conditions (pH 8.2 and 7.6, respectively; NBS scale) predicted to occur by the end of the 21st century under the high greenhouse gas emission scenario RCP8.5. Here, we bring together results from scanning electron microscopy (SEM), synchrotron X-ray μCT, X-ray diffraction (XRD), and X-ray fluorescence (XRF) enhanced with Monte-Carlo simulations, to understand the behavior of backscattered electrons within coral skeleton material. This made it possible to determine the mineral phase composition, while revealing new sub-micrometer insights into the 3D mineral growth dynamics. Our results provide insights into newly formed coral skeletons including mineral characteristics, growth patterns and geometric relations of rapid accretion deposits (RADs) and thickening deposits (TDs) under normal and acidified oceans.
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 Zenodo (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 2025-10-28.
Keyword(s):
Animalia; Benthic animals; Benthos; Bottles or small containers/Aquaria (<20 L); Cnidaria; Coast and continental shelf; Growth/Morphology; Laboratory experiment; Red Sea; Single species; Stylophora pistillata; Temperate
Related to:
Scucchia, Federica; Sauer, Katrein; Fara, Shah; Mass, Tali; Zaslansky, P (2025): 4D Insights into Coral Biomineralization: Effects of Ocean Acidification on the Early Skeleton Development of a Stony Coral. Advanced Science, e08585, https://doi.org/10.1002/advs.202508585
Source:
Scucchia, Federica; Sauer, Katrein; Mass, Tali; Zaslansky, P (2025): How do stony corals build their skeleton? 4D insights into coral growth under ocean acidification - Raw Data 1 [dataset]. Zenodo, https://doi.org/10.5281/ZENODO.10926898
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
Further details:
Scucchia, Federica; Sauer, Katrein; Mass, Tali; Zaslansky, P (2025): How do stony corals build their skeleton? 4D insights into coral growth under ocean acidification - Raw Data 2 [dataset]. Zenodo, https://doi.org/10.5281/ZENODO.14957066
Scucchia, Federica; Sauer, Katrein; Mass, Tali; Zaslansky, P (2025): How do stony corals build their skeleton? 4D insights into coral growth under ocean acidification - Raw Data 3 [dataset]. Zenodo, https://doi.org/10.5281/ZENODO.14958455
Project(s):
Ocean Acidification International Coordination Centre (OA-ICC)
Coverage:
Latitude: 29.501700 * Longitude: 34.916200
Date/Time Start: 2020-04-01T00:00:00 * Date/Time End: 2020-04-30T00:00:00
Event(s):
Gulf_of_Eilat_OA * Latitude: 29.501700 * Longitude: 34.916200 * Date/Time Start: 2020-04-01T00:00:00 * Date/Time End: 2020-04-30T00:00:00 * Method/Device: Experiment (EXP)
Parameter(s):
#NameShort NameUnitPrincipal InvestigatorMethod/DeviceComment
1Type of studyStudy typeScucchia, Federica
2Species, unique identificationSpecies UIDScucchia, Federica
3Treatment: pHT:pHScucchia, Federica
4Domain, biologyDomainScucchia, Federica
5IdentificationIDScucchia, Federicaregion
6SectionSection#Scucchia, Federica
7AreaAreaµm2Scucchia, FedericaSEM-based
8AreaAreaµm2Scucchia, Federicatomography-based
9Gray levelGLScucchia, Federicaabsorption
10DensityDensityg/cm3Scucchia, FedericaSEM
11LengthlmmScucchia, Federicaslice
12IdentificationIDScucchia, Federicapolyp
13Maximum moment of inertiaMax moment of inertiacm4Scucchia, Federica
14SalinitySalScucchia, Federica
15Temperature, waterTemp°CScucchia, Federica
16pH, NBS scalepH NBSScucchia, Federica
17Alkalinity, totalATµmol/kgScucchia, Federica
18Carbonate system computation flagCSC flagYang, YanCalculated using seacarb after Nisumaa et al. (2010)
19pH, total scalepHTYang, YanCalculated using seacarb after Nisumaa et al. (2010)
20Carbon dioxideCO2µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
21Fugacity of carbon dioxide (water) at sea surface temperature (wet air)fCO2water_SST_wetµatmYang, YanCalculated using seacarb after Nisumaa et al. (2010)
22Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)pCO2water_SST_wetµatmYang, YanCalculated using seacarb after Nisumaa et al. (2010)
23Bicarbonate ion[HCO3]-µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
24Carbonate ion[CO3]2-µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
25Carbon, inorganic, dissolvedDICµmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
26Aragonite saturation stateOmega ArgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
27Calcite 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:
28632 data points

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