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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.org/10.1594/PANGAEA.983617

Always quote citation above when using data! You can download the citation in several formats below.

Published: 2025-07-04DOI registered: 2025-08-07

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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
Parameter(s):
#NameShort NameUnitPrincipal InvestigatorMethod/DeviceComment
Type of studyStudy typeSlomka, Shai
SpeciesSpeciesSlomka, Shai
StrainStrainSlomka, Shai
TreatmentTreatSlomka, Shai
ReplicateReplSlomka, Shai
Cell densityCells#/mlSlomka, Shai
Growth rateµ1/daySlomka, Shai
FluorescenceFluorescenceSlomka, ShaiNormalized Cellular Red
Forward scatter, relativeFSC relSlomka, Shai
10 Grazing rate per individualGraz rate/ind#/#/hSlomka, Shaitotal bacteria abundance per cell
11 Grazing rate as carbon per individualGraz rate C/indpg/#/hSlomka, Shaicarbon per cell
12 Growth rateµ1/daySlomka, Shaicorrected for clumping
13 Photosynthetic carbon fixation rate, per cellC fix/cellpg/#/hSlomka, Shaiat 100umol photons/ m2/sec
14 Photosynthetic carbon fixation rate, per cellC fix/cellpg/#/hSlomka, Shaiat 50 photons/ m2/sec
15 Slope in carbon fixationSlope C fix(pg/#/h)/(µmol photons/m2/s)Slomka, Shai
16 Chlorophyll a per cellChl a/cellpg/#Slomka, Shai
17 Beta-Carotene/Chlorophyll a ratiob-Car/Chl aSlomka, Shai
18 (Violaxanthin + Zeaxanthin)/Chlorophyll a ratioVZ/Chl aSlomka, Shai
19 Fucoxanthin/Chlorophyll a ratioFuco/Chl aSlomka, Shai
20 Chlorophyll c2/Chlorophyll a ratioChl c2/Chl aSlomka, Shai
21 Carbon, inorganic, dissolvedDICµmol/lSlomka, Shai
22 pH, NBS scalepH NBSSlomka, Shai
23 Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)pCO2water_SST_wetppmvSlomka, Shai
24 Alkalinity, totalATµmol/lSlomka, Shai
25 SalinitySalSlomka, Shai
26 Temperature, waterTemp°CSlomka, Shai
27 Phosphate[PO4]3-µmol/kgSlomka, Shai
28 Carbonate system computation flagCSC flagYang, YanCalculated using seacarb after Nisumaa et al. (2010)
29 pH, total scalepHTYang, YanCalculated using seacarb after Nisumaa et al. (2010)
30 Carbon dioxideCO2µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
31 Fugacity of carbon dioxide (water) at sea surface temperature (wet air)fCO2water_SST_wetµatmYang, YanCalculated using seacarb after Nisumaa et al. (2010)
32 Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)pCO2water_SST_wetµatmYang, YanCalculated using seacarb after Nisumaa et al. (2010)
33 Bicarbonate ion[HCO3]-µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
34 Carbonate ion[CO3]2-µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
35 Carbon, inorganic, dissolvedDICµmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
36 Alkalinity, totalATµmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
37 Aragonite saturation stateOmega ArgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
38 Calcite saturation stateOmega CalYang, YanCalculated using seacarb after Nisumaa et al. (2010)
Status:
Curation Level: Enhanced curation (CurationLevelC)
Size:
1350 data points

Data

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


Study type

Species

Strain

Treat

Repl

Cells [#/ml]

µ [1/day]

Fluorescence
(Normalized Cellular Red)

FSC rel
10 
Graz rate/ind [#/#/h]
(total bacteria abundance per ...)
11 
Graz rate C/ind [pg/#/h]
(carbon per cell)
12 
µ [1/day]
(corrected for clumping)
13 
C fix/cell [pg/#/h]
(at 100umol photons/ m2/sec)
14 
C fix/cell [pg/#/h]
(at 50 photons/ m2/sec)
15 
Slope C fix [(pg/#/h)/(µmol photons/m2/s)]
16 
Chl a/cell [pg/#]
17 
b-Car/Chl a
18 
VZ/Chl a
19 
Fuco/Chl a
20 
Chl c2/Chl a
21 
DIC [µmol/l]
22 
pH NBS
23 
pCO2water_SST_wet [ppmv]
24 
AT [µmol/l]
25 
Sal
26 
Temp [°C]
27 
[PO4]3- [µmol/kg]
28 
CSC flag
29 
pHT
30 
CO2 [µmol/kg]
31 
fCO2water_SST_wet [µatm]
32 
pCO2water_SST_wet [µatm]
33 
[HCO3]- [µmol/kg]
34 
[CO3]2- [µmol/kg]
35 
DIC [µmol/kg]
36 
AT [µmol/kg]
37 
Omega Arg
38 
Omega Cal
laboratoryOchromonas sp.1391high CO2A16284.9534000.1548324680.5133508862.7906099526.6847860000.8690221800.1543389750.0253979620.0001634510.0004687310.8930925360.0845090080.1579684510.3862274720.0132960752357.487.91893.922525.16322136.2277.8722.81711.85714.242146.17137.322306.302476.302.183.36
laboratoryOchromonas sp.1391high CO2B17208.5276500.5910837590.4803543452.7527231982.3753010000.3087891300.6115870480.0481774880.004723485-0.0001700871.0176239820.0830058870.1656854850.3843628840.0126599652328.177.93842.532503.67322136.2277.8921.48670.30672.562114.55141.572277.602455.402.243.47
laboratoryOchromonas sp.1391high CO2C6653.3599471.0485515510.5084188422.7871842493.4559450000.4492728501.1006607280.1448928220.0022079280.0023679541.5910089660.1297800000.1526300150.3854750240.0131216592356.607.91891.022524.79322136.2277.8722.71708.83711.222144.94137.752305.402476.102.183.37
laboratoryOchromonas sp.1391high CO2D8301.1325780.5433652420.564956282.8270581784.5868730000.5962934900.5326420290.0524086780.005402715-0.0002484781.4873364880.0505616730.1573367470.4005713820.0127403562251.847.93815.052424.13322136.2277.8920.64644.14646.312044.54137.722202.902378.002.183.37
laboratoryOchromonas sp.1391high CO2E11990.6790900.3972473890.5169756242.9517680422.4271230000.3155259900.4240817900.1316975390.0025557110.0020205800.4209436280.0814979030.1566003070.3995018500.0107217382341.737.94828.342521.64322136.2277.9021.18661.03663.262124.69144.932290.802473.202.303.55
laboratoryOchromonas sp.1391high CO2F0.6446574630.5197948632.8903135032.4133300000.3137329000.6885226650.1373674780.3373402110.0541539860.1519630420.3802358870.0061082572371.157.90932.462532.33322136.2277.8523.74740.81743.312161.96133.902319.602483.702.123.28
laboratoryOchromonas sp.1391low CO2A55206.6666700.3092276090.5930452982.9477170180.8147000000.1059110000.2712363120.0740211930.0020959410.0009773980.3737779520.1279424850.1306936540.3688140980.0118627752279.818.24393.562614.28322136.2278.1710.54328.83329.931969.43250.332230.302567.803.976.13
laboratoryOchromonas sp.1391low CO2B52491.6722200.3496012170.5874116182.6780450501.9751510000.2567696300.3114840780.0576493990.0012396740.0008554660.3882263580.0753861130.1343945440.3589307850.0126582092258.248.27353.832615.30322136.2278.209.54297.85298.851933.33266.332209.202569.904.226.52
laboratoryOchromonas sp.1391low CO2C51379.0806100.7444882380.6030549262.8998814442.1271630000.2765311900.7485221250.0516411750.0018515840.0005884430.3867791450.0698590040.1528605860.3972496990.0121274292265.268.35288.852682.21322136.2278.277.90246.44247.271897.90310.202216.002636.304.927.60
laboratoryOchromonas sp.1391low CO2D41199.2005300.7175674030.6087896773.0816535261.8974630000.2466701900.7163782200.0748637570.0025653740.0008815850.1996400110.0736363620.1446164130.3874810640.0082244442259.788.35286.532677.76322136.2278.287.83244.45245.271892.06310.802210.702632.104.937.61
laboratoryOchromonas sp.1391low CO2E36673.3333300.3163122290.5822460523.0715797382.4207810000.3147015300.2474223150.0529867090.0018429400.0006174290.4743655810.0707229630.1587661970.3863684930.0106285002265.948.35294.252677.36322136.2278.278.04250.82251.661902.42306.242216.702631.604.867.50
laboratoryOchromonas sp.1391low CO2F0.2519910880.6062480073.0914184881.7380100000.2259413000.2264650350.0808070920.3765822500.0820343910.1205887460.3716327360.0110359112271.398.31323.252656.49322136.2278.238.78274.13275.051926.02287.192222.002610.704.557.03
laboratoryOchromonas sp.2951high CO2A24736.8421100.4347526730.4850586072.8157681154.0609050000.5279176500.4306406180.1923361140.0067338990.0022305870.8757238650.1434997910.1838373990.3776886800.0117980102358.997.92867.382531.94322136.2277.8822.18692.33694.662144.54140.982307.702483.302.243.45
laboratoryOchromonas sp.2951high CO2B25956.0293100.3811886490.4751826032.7911481932.6617720000.3460303600.4138337520.1752080140.0094561060.0012346950.6651736720.0896506840.1839374650.3788355370.0104732002361.577.95807.982547.75322136.2277.9120.80649.24651.432139.82149.682310.302499.102.373.66
laboratoryOchromonas sp.2951high CO2C27468.3544300.5881084460.4951842672.8161877664.7147160000.6129130800.6090218470.4016059390.0187756750.0035259570.6279855230.0904792020.1838804800.3795103230.0128836852372.207.90928.342534.20322136.2277.8523.66738.27740.752162.60134.442320.702485.602.133.29
laboratoryOchromonas sp.2951high CO2D29506.6666700.5626842130.5497358222.8921694692.6711870000.3472543100.5696427610.3301381810.0164791960.0026477570.3860032450.0721309320.1838064680.3832453520.0104910972371.947.90914.422536.51322136.2277.8623.33728.17730.622160.96136.102320.402487.902.163.33
laboratoryOchromonas sp.2951high CO2E13997.3351100.3039537070.539801492.8192063142.7529530000.3578838900.2646927120.4711778790.0188401240.0049019280.6553285330.0748520970.1753743840.3760407700.0124443922379.887.89954.542538.42322136.2277.8524.26757.01759.562171.72132.222328.202489.302.103.24
laboratoryOchromonas sp.2951high CO2F0.5357807110.4932616592.8300661652.4649000000.3204370000.5321607000.1727519830.5182498750.0929339610.1866040410.3791670900.0114983382377.837.93870.162552.48322136.2277.8822.28695.24697.582161.33142.602326.202503.502.263.49
laboratoryOchromonas sp.2951low CO2A14803.4643600.1995247860.5581028132.9740681102.5809120000.3355185600.1502940220.2776224450.0156825670.0017886330.8466462450.0566298520.1667673140.3930500030.0092574712215.648.32308.412602.77322136.2278.248.35260.63261.501873.37285.782167.502557.104.537.00
laboratoryOchromonas sp.2951low CO2B10073.2844800.1306039070.5829634852.8879147883.4342450000.4464518500.1229545530.2621521410.0170065630.0011614680.9959657370.0364933040.1552255370.4174824310.0115505242233.768.29334.302601.63322136.2278.229.03281.88282.831903.40272.772185.202556.004.336.68
laboratoryOchromonas sp.2951low CO2C14300.0000000.2080266730.57959383.0446429601.1583370000.1505838100.2182019160.2647071620.0169253230.0012320660.8576923510.0595674760.1599462170.3903898480.0112601982255.678.28347.792617.02322136.2278.219.41293.57294.561928.44268.852206.702571.004.266.58
laboratoryOchromonas sp.2951low CO2D27889.4806900.1030397650.5590904262.5293618951.6260760000.2113898800.0972983820.2851179920.0120531800.0028095970.5920201860.0447093450.1610366430.4254086520.0116682572212.208.42242.612686.30322136.2278.346.44200.84201.511811.07346.602164.102636.305.508.49
laboratoryOchromonas sp.2951low CO2E33777.4816800.1769585050.5140801582.3653669650.7036000000.0914680000.1867259950.2383475880.0097226930.0024335050.3807459820.0455960480.1638792540.3922682220.0090218402268.748.31352.432667.55322136.2278.238.78273.96274.881923.89286.732219.402607.604.557.02
laboratoryOchromonas sp.2951low CO2F0.1483649770.5329685422.8318362182.6026530000.3383448900.1480092030.4950796780.4777251620.0375076450.1277280160.4247680180.0000000002297.148.19469.282619.46322136.2278.1311.70365.24366.472002.49233.012247.202559.703.695.71
laboratoryOchromonas sp.1393high CO2A50229.7702300.3603009450.5397314542.5874671583.1601176280.4108152920.3624972920.1187903750.0058200140.0009790040.3300990510.0590428490.1392287970.3663079120.0138495162639.558.01814.742866.50322136.2277.9521.01655.61657.812378.12183.072582.202809.302.904.48
laboratoryOchromonas sp.1393high CO2B47152.8471500.4629906200.5617684452.5842852392.6496517890.3444547330.4564580750.0966939900.0042735530.0009082270.7918134200.0648870320.1571148800.3716974840.0131416472581.228.03746.972815.91322136.2277.9719.48608.02610.062318.06187.562525.102761.002.974.59
laboratoryOchromonas sp.1393high CO2C36983.0169800.3625228800.5472763632.6222889614.4642701510.5803551200.3673896040.1398600260.0053125800.0015221810.7377491120.0674582700.1504226110.3644777400.0134147532667.068.03786.342907.44322136.2277.9620.34634.73636.872396.70192.062609.102848.103.054.70
laboratoryOchromonas sp.1393high CO2D39770.0000000.4324194270.552228862.5611680041.8626190260.2421404730.4358360500.1313637460.0061107640.0011606920.7626281160.0635333530.1534250800.3705966890.0124245802669.698.05740.742920.16322136.2277.9819.45607.16609.202392.21200.032611.702862.003.174.90
laboratoryOchromonas sp.1393high CO2E52670.0000000.4730781630.5453135412.6520492993.0674642880.3987703570.4549222850.1090775340.0050102410.0009790930.4620669400.0489742170.1607600170.3995902970.0137643392684.678.01823.052914.51322136.2277.9521.37667.00669.242418.77186.152626.302856.102.954.56
laboratoryOchromonas sp.1393high CO2F0.4321761280.5374993292.6435046942.0760203830.2698826500.4353300630.1729004040.5810634120.0570084720.1533719330.3970228500.0145938572679.658.02787.762918.38322136.2277.9620.54641.18643.342408.80192.062621.402859.903.054.70
laboratoryOchromonas sp.1393low CO2A44430.0000000.3813698890.5423914052.6841363043.0825699910.4007340990.3873669990.0918192130.0047738690.0006906560.5410297310.0703939560.1565208460.3780965090.0127048982601.928.31370.263025.06322136.2278.2310.19317.97319.042209.40325.812545.402970.405.177.98
laboratoryOchromonas sp.1393low CO2B42007.9920100.4255478280.5343897142.6735744123.6854872590.4791133440.4266520250.0790885410.0050415070.0003718090.5932454880.0705537480.1528942430.3815247290.0122764032573.998.31364.452996.35322136.2278.2310.01312.51313.562184.13323.962518.102941.905.147.93
laboratoryOchromonas sp.1393low CO2C38051.9480500.3060099260.5239924382.6409933392.2747491610.2957173910.3143692320.0589055210.0042112990.0001673990.4427511180.0484151850.1607248910.4060520080.0122704282572.998.32357.953001.64322136.2278.249.83306.66307.692178.75328.522517.102947.005.218.04
laboratoryOchromonas sp.1393low CO2D53670.0000000.3620549400.540517412.7769983822.6084460420.3390979850.3573923630.0915012640.0054738970.0005162900.5432563580.0657919320.1410039750.3758694640.0141123892579.638.31363.963004.15322136.2278.239.99311.69312.742187.73325.882523.602949.705.177.98
laboratoryOchromonas sp.1393low CO2E56160.0000000.3505453460.5204205042.7536480063.1161491520.4050993900.3520855620.1004014750.0037093310.0011177900.2365626340.0582848400.1548042070.3942104330.0127090842593.588.32362.833022.95322136.2278.249.96310.70311.752197.42329.832537.202967.905.238.08
laboratoryOchromonas sp.1393low CO2F0.2925483040.5219170112.7254059021.6649242490.2164401520.2960132410.0885770500.4932465640.0633101290.1465596660.3881348220.0132021772589.838.33353.223029.67322136.2278.259.67301.78302.792187.43336.502533.602973.305.348.24