Citation:

PANGAEA.956021

Name: Seawater carbonate chemistry and cellular inorganic carbon fluxes in Trichodesmium
Published: 2015
License: https://creativecommons.org/licenses/by/4.0/
Keywords: Bacteria; Bottles or small containers/Aquaria (<20 L); Cyanobacteria; Laboratory experiment; Laboratory strains; Not applicable; Other metabolic rates; Pelagos; Phytoplankton; Primary production/Photosynthesis; Single species; Trichodesmium erythraeum

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Abstract:

To predict effects of climate change on phytoplankton, it is crucial to understand how their mechanisms for carbon acquisition respond to environmental conditions. Aiming to shed light on the responses of extra- and intracellular inorganic C (Ci) fluxes, the cyanobacterium Trichodesmium erythraeum IMS101 was grown with different nitrogen sources (N2 vs NO3 –) and pCO2 levels (380 vs 1400 µatm). Cellular Ci fluxes were assessed by combining membrane inlet mass spectrometry (MIMS), 13C fractionation measurements, and modelling. Aside from a significant decrease in Ci affinity at elevated pCO2 and changes in CO2 efflux with different N sources, extracellular Ci fluxes estimated by MIMS were largely unaffected by the treatments. 13C fractionation during biomass production, however, increased with pCO2, irrespective of the N source. Strong discrepancies were observed in CO2 leakage estimates obtained by MIMS and a 13C-based approach, which further increased under elevated pCO2. These offsets could be explained by applying a model that comprises extracellular CO2 and HCO3– fluxes as well as internal Ci cycling around the carboxysome via the CO2 uptake facilitator NDH-14. Assuming unidirectional, kinetic fractionation between CO2 and HCO3– in the cytosol or enzymatic fractionation by NDH-14, both significantly improved the comparability of leakage estimates. Our results highlight the importance of internal Ci cycling for 13C composition as well as cellular energy budgets of Trichodesmium, which ought to be considered in process studies on climate change effects.

Keyword(s):

Bacteria; Bottles or small containers/Aquaria (<20 L); Cyanobacteria; Laboratory experiment; Laboratory strains; Not applicable; Other metabolic rates; Pelagos; Phytoplankton; Primary production/Photosynthesis; Single species; Trichodesmium erythraeum

Supplement to:

Eichner, Meri; Thoms, Silke; Kranz, Sven A; Rost, Björn (2015): Cellular inorganic carbon fluxes in Trichodesmium: a combined approach using measurements and modelling. Journal of Experimental Botany, 66(3), 749-759, https://doi.org/10.1093/jxb/eru427

Documentation:

Gattuso, Jean-Pierre; Epitalon, Jean-Marie; Lavigne, Héloïse; Orr, James (2021): seacarb: seawater carbonate chemistry with R. R package version 3.2.16. https://cran.r-project.org/web/packages/seacarb/index.html

Project(s):

Ocean Acidification International Coordination Centre (OA-ICC)

Comment:

In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Gattuso et al, 2021) 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 2023-02-20.

Parameter(s):

#	Name	Short Name	Unit	Principal Investigator	Method/Device	Comment
1	Type	Type		Eichner, Meri		Study
2	Species	Species		Eichner, Meri
3	Treatment	Treat		Eichner, Meri
4	Time point, descriptive	Time point		Eichner, Meri
5	Carbon fixation rate, per chlorophyll a	C fix/Chl a	µmol/mg/h	Eichner, Meri		Net
6	Carbon fixation rate, standard deviation	C fix std dev	±	Eichner, Meri		Net
7	Gross carbon uptake rate, per chlorophyll a	G C upt rate/Chl a	µmol/mg/h	Eichner, Meri
8	Carbon uptake rate, standard deviation	C upt rate std dev	±	Eichner, Meri		Gross
9	Bicarbonate uptake rate, per chlorophyll a	HCO3 upt rate/Chl	µmol/mg/h	Eichner, Meri
10	Bicarbonate uptake in chlorophyll, standard deviation	HCO3 upt/Chl std dev	±	Eichner, Meri
11	Carbon dioxide uptake rate, per chlorophyll a	CO2 upt rate/Chl	µmol/mg/h	Eichner, Meri		Gross
12	Carbon dioxide uptake, per chlorophyll, standard deviation	CO2 upt/Chl std dev	±	Eichner, Meri		Gross
13	Carbon dioxide uptake rate, per chlorophyll a	CO2 upt rate/Chl	µmol/mg/h	Eichner, Meri		Net
14	Carbon dioxide uptake, per chlorophyll, standard deviation	CO2 upt/Chl std dev	±	Eichner, Meri		Net
15	Ratio	Ratio		Eichner, Meri		[HCO3]-:Ci uptake
16	Ratio, standard deviation	Ratio std dev	±	Eichner, Meri		[HCO3]-:Ci uptake
17	Carbon dioxide efflux, per chlorophyll a	CO2 efflux/Chl a	µmol/mg/h	Eichner, Meri
18	Carbon dioxide efflux, per chlorophyll a, standard deviation	CO2 efflux/Chl a std dev	±	Eichner, Meri
19	Ratio	Ratio		Eichner, Meri		leakage (CO2 efflux/gross Ci uptake)
20	Ratio, standard deviation	Ratio std dev	±	Eichner, Meri		leakage (CO2 efflux/gross Ci uptake)
21	Ratio	Ratio		Eichner, Meri		leakage (CO2 efflux/gross Ci uptake) based on MIMS measurements
22	Ratio, standard deviation	Ratio std dev	±	Eichner, Meri		leakage (CO2 efflux/gross Ci uptake) based on MIMS measurements
23	Ratio	Ratio		Eichner, Meri		leakage (CO2 efflux/gross Ci uptake) based on 13C fractionation
24	Ratio, standard deviation	Ratio std dev	±	Eichner, Meri		leakage (CO2 efflux/gross Ci uptake) based on 13C fractionation
25	Salinity	Sal		Eichner, Meri
26	Temperature, water	Temp	°C	Eichner, Meri
27	pH	pH		Eichner, Meri	Potentiometric	NBS scale
28	pH, standard deviation	pH std dev	±	Eichner, Meri	Potentiometric	NBS scale
29	Alkalinity, total	AT	µmol/kg	Eichner, Meri	Potentiometric titration
30	Alkalinity, total, standard deviation	AT std dev	±	Eichner, Meri	Potentiometric titration
31	Carbon, inorganic, dissolved	DIC	µmol/kg	Eichner, Meri	Calculated using CO2SYS
32	Carbon, inorganic, dissolved, standard deviation	DIC std dev	±	Eichner, Meri	Calculated using CO2SYS
33	Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)	pCO2water_SST_wet	µatm	Eichner, Meri	Calculated using CO2SYS
34	Partial pressure of carbon dioxide, standard deviation	pCO2 std dev	±	Eichner, Meri	Calculated using CO2SYS
35	Carbonate system computation flag	CSC flag		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
36	pH	pH		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)	total scale
37	Carbon dioxide	CO2	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
38	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)
39	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)
40	Bicarbonate ion	[HCO3]-	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
41	Carbonate ion	[CO3]2-	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
42	Carbon, inorganic, dissolved	DIC	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
43	Aragonite saturation state	Omega Arg		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
44	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:

580 data points

Data

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

1 Type (Study)	2 Species	3 Treat	4 Time point	5 C fix/Chl a [µmol/mg/h] (Net)	6 C fix std dev [±] (Net)	7 G C upt rate/Chl a [µmol/mg/h]	8 C upt rate std dev [±] (Gross)	9 HCO3 upt rate/Chl [µmol/mg/h]	10 HCO3 upt/Chl std dev [±]	11 CO2 upt rate/Chl [µmol/mg/h] (Gross)	12 CO2 upt/Chl std dev [±] (Gross)	13 CO2 upt rate/Chl [µmol/mg/h] (Net)	14 CO2 upt/Chl std dev [±] (Net)	15 Ratio ([HCO3]-:Ci uptake)	16 Ratio std dev [±] ([HCO3]-:Ci uptake)	17 CO2 efflux/Chl a [µmol/mg/h]	18 CO2 efflux/Chl a std dev [±]	19 Ratio (leakage (CO2 efflux/gross Ci ...)	20 Ratio std dev [±] (leakage (CO2 efflux/gross Ci ...)	21 Ratio (leakage (CO2 efflux/gross Ci ...)	22 Ratio std dev [±] (leakage (CO2 efflux/gross Ci ...)	23 Ratio (leakage (CO2 efflux/gross Ci ...)	24 Ratio std dev [±] (leakage (CO2 efflux/gross Ci ...)	25 Sal	26 Temp [°C]	27 pH (NBS scale, Potentiometric)	28 pH std dev [±] (NBS scale, Potentiometric)	29 AT [µmol/kg] (Potentiometric titration)	30 AT std dev [±] (Potentiometric titration)	31 DIC [µmol/kg] (Calculated using CO2SYS)	32 DIC std dev [±] (Calculated using CO2SYS)	33 pCO2water_SST_wet [µatm] (Calculated using CO2SYS)	34 pCO2 std dev [±] (Calculated using CO2SYS)	35 CSC flag (Calculated using seacarb afte...)	36 pH (total scale, Calculated using...)	37 CO2 [µmol/kg] (Calculated using seacarb afte...)	38 pCO2water_SST_wet [µatm] (Calculated using seacarb afte...)	39 fCO2water_SST_wet [µatm] (Calculated using seacarb afte...)	40 [HCO3]- [µmol/kg] (Calculated using seacarb afte...)	41 [CO3]2- [µmol/kg] (Calculated using seacarb afte...)	42 DIC [µmol/kg] (Calculated using seacarb afte...)	43 Omega Arg (Calculated using seacarb afte...)	44 Omega Cal (Calculated using seacarb afte...)
laboratory	Trichodesmium erythraeum	380 µatm-[NO3]-	Morning	91	15	157	18	134	18	23	4	-45	10	0.85	0.03	69	12	0.44	0.05					33.8	25	8.26	0.03	2408	15	2014	6	329	22	26	8.12	9.64	338.51	337.45	1799.00	250.84	2059.48	4.01	6.10
laboratory	Trichodesmium erythraeum	380 µatm+[NO3]-	Morning	95	20	135	23	118	21	17	3	-23	2	0.87	0.01	40	3	0.30	0.03					33.8	25	8.26	0.04	2389	7	2003	12	325	10	26	8.12	9.56	335.72	334.66	1784.14	248.77	2042.47	3.98	6.04
laboratory	Trichodesmium erythraeum	1400 µatm-[NO3]-	Morning	80	13	144	7	126	11	18	4	-46	5	0.88	0.03	64	7	0.45	0.07					33.8	25	7.74	0.02	2399	44	2231	78	1354	30	26	7.60	38.64	1356.64	1352.37	2177.02	91.66	2307.32	1.46	2.23
laboratory	Trichodesmium erythraeum	1400 µatm+[NO3]-	Morning	91		144		120		24		-28		0.83		53		0.37						33.8	25	7.76	0.05	2413	37	2237	20	1298	74	26	7.62	36.95	1297.56	1293.48	2180.41	96.13	2313.50	1.54	2.34
laboratory	Trichodesmium erythraeum	380 µatm-[NO3]-	Midday	57	14	144	24	117	22	27	4	-60	12	0.81	0.03	87	13	0.61	0.05					33.8	25	8.26	0.03	2408	15	2014	6	329	22	26	8.12	9.64	338.51	337.45	1799.00	250.84	2059.48	4.01	6.10
laboratory	Trichodesmium erythraeum	380 µatm+[NO3]-	Midday	56	22	128	16	108	14	20	2	-52	8	0.84	0.01	72	6	0.57	0.11					33.8	25	8.26	0.04	2389	7	2003	12	325	10	26	8.12	9.56	335.72	334.66	1784.14	248.77	2042.47	3.98	6.04
laboratory	Trichodesmium erythraeum	1400 µatm-[NO3]-	Midday	39	14	124	9	95	9	28	5	-56	8	0.77	0.04	85	14	0.69	0.10					33.8	25	7.74	0.02	2399	44	2231	78	1354	30	26	7.60	38.64	1356.64	1352.37	2177.02	91.66	2307.32	1.46	2.23
laboratory	Trichodesmium erythraeum	1400 µatm+[NO3]-	Midday	61	19	127	22	97	17	30	9	-36	8	0.76	0.05	66	4	0.53	0.07					33.8	25	7.76	0.05	2413	37	2237	20	1298	74	26	7.62	36.95	1297.56	1293.48	2180.41	96.13	2313.50	1.54	2.34
laboratory	Trichodesmium erythraeum	380 µatm-[NO3]-	Evening	87	3	167	17	133	12	34	6	-46	9	0.80	0.02	79	13	0.47	0.03					33.8	25	8.26	0.03	2408	15	2014	6	329	22	26	8.12	9.64	338.51	337.45	1799.00	250.84	2059.48	4.01	6.10
laboratory	Trichodesmium erythraeum	380 µatm+[NO3]-	Evening	70	18	143	25	113	14	30	13	-42	11	0.80	0.06	72	8	0.51	0.04					33.8	25	8.26	0.04	2389	7	2003	12	325	10	26	8.12	9.56	335.72	334.66	1784.14	248.77	2042.47	3.98	6.04
laboratory	Trichodesmium erythraeum	1400 µatm-[NO3]-	Evening	61	4	142	6	112	2	30	6	-51	4	0.79	0.03	81	3	0.57	0.01					33.8	25	7.74	0.02	2399	44	2231	78	1354	30	26	7.60	38.64	1356.64	1352.37	2177.02	91.66	2307.32	1.46	2.23
laboratory	Trichodesmium erythraeum	1400 µatm+[NO3]-	Evening	63	16	131	17	102	12	29	6	-39	9	0.78	0.01	67	10	0.52	0.07					33.8	25	7.76	0.05	2413	37	2237	20	1298	74	26	7.62	36.95	1297.56	1293.48	2180.41	96.13	2313.50	1.54	2.34
laboratory	Trichodesmium erythraeum	380 µatm-[NO3]-																		0.49	0.12	0.85	0.03	33.8	25	8.26	0.03	2408	15	2014	6	329	22	26	8.12	9.64	338.51	337.45	1799.00	250.84	2059.48	4.01	6.10
laboratory	Trichodesmium erythraeum	380 µatm+[NO3]-																		0.47	0.15	0.89	0.05	33.8	25	8.26	0.04	2389	7	2003	12	325	10	26	8.12	9.56	335.72	334.66	1784.14	248.77	2042.47	3.98	6.04
laboratory	Trichodesmium erythraeum	1400 µatm-[NO3]-																		0.56	0.18	1.07	0.01	33.8	25	7.74	0.02	2399	44	2231	78	1354	30	26	7.60	38.64	1356.64	1352.37	2177.02	91.66	2307.32	1.46	2.23
laboratory	Trichodesmium erythraeum	1400 µatm+[NO3]-																		0.47	0.12	1.12	0.04	33.8	25	7.76	0.05	2413	37	2237	20	1298	74	26	7.62	36.95	1297.56	1293.48	2180.41	96.13	2313.50	1.54	2.34