Citation:

PANGAEA.968756

Name: Seawater carbonate chemistry and changes in isotope fractionation during nitrate assimilation by marine eukaryotic and prokaryotic algae
Published: 2024-06-03
License: https://creativecommons.org/licenses/by/4.0/
Keywords: Bacteria; Biomass/Abundance/Elemental composition; Bottles or small containers/Aquaria (<20 L); Chromista; Cyanobacteria; Growth/Morphology; Laboratory experiment; Laboratory strains; Not applicable; Ochrophyta; Other metabolic rates; Other studied parameter or process; Pelagos; Phytoplankton; Single species; Synechococcus sp.; Thalassiosira weissflogii

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Published: 2024-06-03 • DOI registered: 2024-07-02

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Abstract:

We measured N and O isotope effects during nitrate assimilation and physiological states of the marine diatom Thalassiosira weissflogii and Synechococcus under different pH (8.1 or 7.8) and pCO2 (400 or 800 μatm) conditions.

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 2024-05-29.

Keyword(s):

Bacteria; Biomass/Abundance/Elemental composition; Bottles or small containers/Aquaria (<20 L); Chromista; Cyanobacteria; Growth/Morphology; Laboratory experiment; Laboratory strains; Not applicable; Ochrophyta; Other metabolic rates; Other studied parameter or process; Pelagos; Phytoplankton; Single species; Synechococcus sp.; Thalassiosira weissflogii

Related to:

Chen, Yawen; Yang, Jin-Yu Terence; Tang, Jin-Ming; Hong, Haizheng; Kao, Shuh-Ji; Dai, Minhan; Shi, Dalin (2024): Changes in isotope fractionation during nitrate assimilation by marine eukaryotic and prokaryotic algae under different pH and CO 2 conditions. Limnology and Oceanography, 69(5), 1045-1055, https://doi.org/10.1002/lno.12546

Source:

Yang, Jin-Yu Terence (2024): Dataset for the manuscript: Changes in isotope fractionation during nitrate assimilation by eukaryotic and prokaryotic algae under different pH and CO2 conditions [dataset]. Zenodo, https://doi.org/10.5281/ZENODO.10208321

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

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):

#	Name	Short Name	Unit	Principal Investigator	Method/Device	Comment
1	Type of study	Study type		Yang, Jin-Yu Terence
2	Species	Species		Yang, Jin-Yu Terence
3	Treatment: pH	T:pH		Yang, Jin-Yu Terence
4	Treatment: partial pressure of carbon dioxide	T:pCO2	µatm	Yang, Jin-Yu Terence
5	Replicate	Repl		Yang, Jin-Yu Terence
6	Time in days	Time d	days	Yang, Jin-Yu Terence
7	Natural log of fractional remaining nitrate	ln f		Yang, Jin-Yu Terence
8	Natural log of fractional remaining nitrate, standard deviation	ln f std dev	±	Yang, Jin-Yu Terence
9	δ15N, nitrate	δ15N NO3	‰ air	Yang, Jin-Yu Terence		medium
10	δ15N, nitrate, standard deviation	δ15N NO3 std dev	±	Yang, Jin-Yu Terence		medium
11	δ18O, nitrate	δ18O NO3	‰	Yang, Jin-Yu Terence		medium
12	δ18O, nitrate, standard deviation	δ18O NO3 std dev	±	Yang, Jin-Yu Terence		medium
13	δ15N, nitrate	δ15N NO3	‰ air	Yang, Jin-Yu Terence		intracellular
14	δ15N, nitrate, standard deviation	δ15N NO3 std dev	±	Yang, Jin-Yu Terence		intracellular
15	δ18O, nitrate	δ18O NO3	‰	Yang, Jin-Yu Terence		intracellular
16	δ18O, nitrate, standard deviation	δ18O NO3 std dev	±	Yang, Jin-Yu Terence		intracellular
17	δ15N, total particulate nitrogen	δ15N TPN	‰ air	Yang, Jin-Yu Terence
18	δ15N, total particulate nitrogen, standard deviation	δ15N TPN std dev	±	Yang, Jin-Yu Terence
19	Difference δ15N, intracellular and medium nitrate	δ15N NO3 in - δ15N NO3 ex	‰ air	Yang, Jin-Yu Terence
20	Difference δ15N, intracellular and medium nitrate, standard deviation	δ15N NO3 in - δ15N NO3 ex std dev	±	Yang, Jin-Yu Terence
21	Organism-level nitrogen isotope effects	15ε org	‰ air	Yang, Jin-Yu Terence
22	Organism-level nitrogen isotope effects, standard deviation	15ε org std dev	±	Yang, Jin-Yu Terence
23	Nitrate	[NO3]-	µmol/l	Yang, Jin-Yu Terence		Intracellular
24	Nitrate, standard deviation	NO3 std dev	±	Yang, Jin-Yu Terence		Intracellular
25	Nitrate uptake rate per cell	NO3 upt rate/cell	fmol/#/day	Yang, Jin-Yu Terence
26	Nitrate uptake rate, standard deviation	NO3 upt rate std dev	±	Yang, Jin-Yu Terence
27	Nitrate reductase activity	NO3 reduct act	pmol/#/day	Yang, Jin-Yu Terence
28	Nitrate reductase activity, standard deviation	NO3 reduct act std dev	±	Yang, Jin-Yu Terence
29	Growth rate	µ	1/day	Yang, Jin-Yu Terence
30	Growth rate, standard deviation	µ std dev	±	Yang, Jin-Yu Terence
31	Cell biovolume	Cell biovol	µm³	Yang, Jin-Yu Terence
32	Cell biovolume, standard deviation	Cell biovol std dev	±	Yang, Jin-Yu Terence
33	Carbon per cell	C/cell	pmol/#	Yang, Jin-Yu Terence
34	Carbon per cell, standard deviation	C/cell std dev	±	Yang, Jin-Yu Terence
35	Nitrogen per cell	N/cell	pmol/#	Yang, Jin-Yu Terence
36	Nitrogen per cell, standard deviation	N/cell std dev	±	Yang, Jin-Yu Terence
37	Carbon/Nitrogen ratio	C/N		Yang, Jin-Yu Terence
38	Carbon/Nitrogen ratio, standard deviation	C/N std dev	±	Yang, Jin-Yu Terence
39	Nitrogen demand	N dem	pmol/#/day	Yang, Jin-Yu Terence
40	Nitrogen demand, standard deviation	N dem std dev	±	Yang, Jin-Yu Terence
41	Organism-level oxygen isotope effects	18ε org	‰ air	Yang, Jin-Yu Terence
42	Organism-level oxygen isotope effects, standard deviation	18ε org std dev	±	Yang, Jin-Yu Terence
43	Ratio	Ratio		Yang, Jin-Yu Terence		relative changes in O and N isotope composition in medium nitrate
44	Ratio, standard deviation	Ratio std dev	±	Yang, Jin-Yu Terence		relative changes in O and N isotope composition in medium nitrate
45	Ratio	Ratio		Yang, Jin-Yu Terence		relative changes in O and N isotope composition in intracellular nitrate
46	Ratio, standard deviation	Ratio std dev	±	Yang, Jin-Yu Terence		relative changes in O and N isotope composition in intracellular nitrate
47	Nitrate	[NO3]-	µmol/l	Yang, Jin-Yu Terence		initial
48	Nitrate, standard deviation	NO3 std dev	±	Yang, Jin-Yu Terence		initial
49	Nitrate	[NO3]-	µmol/l	Yang, Jin-Yu Terence		final
50	Nitrate, standard deviation	NO3 std dev	±	Yang, Jin-Yu Terence		final
51	Nitrate consumption	NO3 cons	µmol/L	Yang, Jin-Yu Terence
52	Nitrate consumption, standard deviation	NO3 cons std dev	±	Yang, Jin-Yu Terence
53	Nitrogen, organic, dissolved	DON	µmol/l	Yang, Jin-Yu Terence		final
54	Nitrogen, organic, dissolved, standard deviation	DON std dev	±	Yang, Jin-Yu Terence		final
55	Nitrogen, particulate	PN	µmol/l	Yang, Jin-Yu Terence		final
56	Nitrogen, particulate, standard deviation	PN std dev	±	Yang, Jin-Yu Terence		final
57	Salinity	Sal		Yang, Jin-Yu Terence
58	Temperature, water	Temp	°C	Yang, Jin-Yu Terence
59	pH, total scale	pHT		Yang, Jin-Yu Terence		total scale, beginning of culture
60	pH, standard deviation	pH std dev	±	Yang, Jin-Yu Terence		total scale, beginning of culture
61	Carbon, inorganic, dissolved	DIC	µmol/kg	Yang, Jin-Yu Terence		beginning of culture
62	Carbon, inorganic, dissolved, standard deviation	DIC std dev	±	Yang, Jin-Yu Terence		beginning of culture
63	Alkalinity, total	AT	µmol/kg	Yang, Jin-Yu Terence	Calculated using CO2SYS	beginning of culture
64	Alkalinity, total, standard deviation	AT std dev	±	Yang, Jin-Yu Terence	Calculated using CO2SYS	beginning of culture
65	Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)	pCO2water_SST_wet	µatm	Yang, Jin-Yu Terence	Calculated using CO2SYS	beginning of culture
66	Partial pressure of carbon dioxide, standard deviation	pCO2 std dev	±	Yang, Jin-Yu Terence	Calculated using CO2SYS	beginning of culture
67	pH, total scale	pHT		Yang, Jin-Yu Terence		total scale, harvest time
68	pH, standard deviation	pH std dev	±	Yang, Jin-Yu Terence		total scale, harvest time
69	Carbon, inorganic, dissolved	DIC	µmol/kg	Yang, Jin-Yu Terence		harvest time
70	Carbon, inorganic, dissolved, standard deviation	DIC std dev	±	Yang, Jin-Yu Terence		harvest time
71	Alkalinity, total	AT	µmol/kg	Yang, Jin-Yu Terence	Calculated using CO2SYS	harvest time
72	Alkalinity, total, standard deviation	AT std dev	±	Yang, Jin-Yu Terence	Calculated using CO2SYS	harvest time
73	Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)	pCO2water_SST_wet	µatm	Yang, Jin-Yu Terence	Calculated using CO2SYS	harvest time
74	Partial pressure of carbon dioxide, standard deviation	pCO2 std dev	±	Yang, Jin-Yu Terence	Calculated using CO2SYS	harvest time
75	Carbonate system computation flag	CSC flag		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
76	Carbon dioxide	CO2	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)	beginning of culture
77	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)	beginning of culture
78	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)	beginning of culture
79	Bicarbonate ion	[HCO3]-	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)	beginning of culture
80	Carbonate ion	[CO3]2-	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)	beginning of culture
81	Alkalinity, total	AT	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)	beginning of culture
82	Aragonite saturation state	Omega Arg		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)	beginning of culture
83	Calcite saturation state	Omega Cal		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)	beginning of culture
84	Carbon dioxide	CO2	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)	harvest time
85	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)	harvest time
86	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)	harvest time
87	Bicarbonate ion	[HCO3]-	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)	harvest time
88	Carbonate ion	[CO3]2-	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)	harvest time
89	Alkalinity, total	AT	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)	harvest time
90	Aragonite saturation state	Omega Arg		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)	harvest time
91	Calcite saturation state	Omega Cal		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)	harvest time

License:

Creative Commons Attribution 4.0 International (CC-BY-4.0)

Status:

Curation Level: Enhanced curation (CurationLevelC)

Size:

2680 data points

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