Citation:

PANGAEA.984692

Name: Seawater carbonate chemistry and Acartia tonsa experimental evolution epigenetics
Published: 2025-09-02
License: https://creativecommons.org/licenses/by/4.0/
Keywords: Acartia tonsa; Animalia; Arthropoda; Bottles or small containers/Aquaria (<20 L); Coast and continental shelf; Gene expression (incl. proteomics); Laboratory experiment; North Atlantic; Other studied parameter or process; Pelagos; Single species; Temperate; Temperature; Zooplankton

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Published: 2025-09-02 • DOI registered: 2025-10-01

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Abstract:

We experimentally evolved the foundational marine copepod Acartia tonsa for 25 generations under ocean acidification, warming, and their combination and then measured epigenomic, genomic, and transcriptomic responses.

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 the PANGAEA dataset (see Source). 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 2025-09-02.

Keyword(s):

Acartia tonsa; Animalia; Arthropoda; Bottles or small containers/Aquaria (<20 L); Coast and continental shelf; Gene expression (incl. proteomics); Laboratory experiment; North Atlantic; Other studied parameter or process; Pelagos; Single species; Temperate; Temperature; Zooplankton

Related to:

Brennan, Reid S; deMayo, James A; Finiguerra, Michael B; Baumann, Hannes; Dam, Hans G; Pespeni, Melissa H (2025): Complementary genetic and epigenetic changes facilitate rapid adaptation to multiple global change stressors. Proceedings of the National Academy of Sciences of the United States of America, 122(29), e2422782122, https://doi.org/10.1073/pnas.2422782122

Source:

Dam, Hans G; deMayo, James A; Park, Gihong; Norton, Lydia; He, Xuejia; Finiguerra, Michael B; Baumann, Hannes; Brennan, Reid S; Pespeni, Melissa H (2021): Seawater carbonate chemistry and egg production and hatching success of copepod Acartia tonsa [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.943059

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:

Brennan, Reid S (2025): rsbrennan/tonsa_epigenetics: v2.0.0 [software]. Zenodo, https://doi.org/10.5281/ZENODO.15708666

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:

Acartia tonsa Raw sequence reads: experimental evolution epigenetics (2019). National Center for Biotechnology Information, https://www.ncbi.nlm.nih.gov/bioproject?term=PRJNA590963

Brennan, Reid S (2024): Acartia tonsa experimental evolution epigenetics [dataset]. Zenodo, https://doi.org/10.5281/ZENODO.13994365

Project(s):

Ocean Acidification International Coordination Centre (OA-ICC)

Coverage:

Latitude: 41.320725 * Longitude: -72.001643

Date/Time Start: 2016-06-01T00:00:00 * Date/Time End: 2016-06-30T00:00:00

Event(s):

Esker_Point_Beach * Latitude: 41.320725 * Longitude: -72.001643 * Date/Time Start: 2016-06-01T00:00:00 * Date/Time End: 2016-06-30T00:00:00

Parameter(s):

#	Name	Short Name	Unit	Principal Investigator	Method/Device
1	Type of study	Study type		Brennan, Reid S
2	Species, unique identification	Species UID		Brennan, Reid S
3	Species, unique identification (URI)	Species UID (URI)		Brennan, Reid S
4	Species, unique identification (Semantic URI)	Species UID (Semantic URI)		Brennan, Reid S
5	Treatment	Treat		Brennan, Reid S
6	Salinity	Sal		Brennan, Reid S
7	Alkalinity, total	AT	µmol/kg	Brennan, Reid S
8	Temperature, water	Temp	°C	Brennan, Reid S
9	pH, NBS scale	pH NBS		Brennan, Reid S
10	Carbonate system computation flag	CSC flag		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
11	pH, total scale	pHT		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
12	Carbon dioxide	CO2	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
13	Fugacity of carbon dioxide (water) at sea surface temperature (wet air)	fCO2water_SST_wet	µatm	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
14	Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)	pCO2water_SST_wet	µatm	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
15	Bicarbonate ion	[HCO3]-	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
16	Carbonate ion	[CO3]2-	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
17	Carbon, inorganic, dissolved	DIC	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
18	Aragonite saturation state	Omega Arg		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
19	Calcite saturation state	Omega Cal		Yang, Yan	Calculated 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:

68 data points

Data

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

1 Study type	2 Species UID	3 Species UID (URI)	4 Species UID (Semantic URI)	5 Treat	6 Sal	7 AT [µmol/kg]	8 Temp [°C]	9 pH NBS	10 CSC flag	11 pHT	12 CO2 [µmol/kg]	13 fCO2water_SST_wet [µatm]	14 pCO2water_SST_wet [µatm]	15 [HCO3]- [µmol/kg]	16 [CO3]2- [µmol/kg]	17 DIC [µmol/kg]	18 Omega Arg	19 Omega Cal
laboratory	Acartia tonsa	marinespecies.org	urn:lsid:marinespecies.org:taxname:104262	Ambient	32.67	2337.00	18.08	8.28	26	8.16	10.52	304.20	305.26	1826.42	209.26	2046.20	3.26	5.06
laboratory	Acartia tonsa	marinespecies.org	urn:lsid:marinespecies.org:taxname:104262	Ocean Acidification	32.33	2319.00	17.95	7.53	26	7.41	72.21	2074.66	2081.92	2210.94	44.29	2327.43	0.69	1.07
laboratory	Acartia tonsa	marinespecies.org	urn:lsid:marinespecies.org:taxname:104262	Ocean Warming	32.33	2249.00	21.90	8.25	26	8.12	10.17	325.73	326.81	1741.70	207.13	1959.00	3.29	5.06
laboratory	Acartia tonsa	marinespecies.org	urn:lsid:marinespecies.org:taxname:104262	Ocean Warming and Acidification	33.33	2359.67	21.94	7.57	26	7.44	61.31	1977.39	1983.98	2221.47	56.85	2339.63	0.90	1.38