Citation:

PANGAEA.919895

Name: Seawater carbonate chemistry and physiology and functional gene expression of the coccolithophore Emiliania huxleyi
Published: 2020-07-07
License: https://creativecommons.org/licenses/by/4.0/
Keywords: Biomass/Abundance/Elemental composition; Bottles or small containers/Aquaria (<20 L); Calcification/Dissolution; Chromista; Emiliania huxleyi; Gene expression (incl. proteomics); Growth/Morphology; Haptophyta; Laboratory experiment; Laboratory strains; Light; Macro-nutrients; Not applicable; Pelagos; Phytoplankton; Primary production/Photosynthesis; Single species; Temperature

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Abstract:

Here, we examined two-way and multiple driver effects of ocean acidification and other key environmental drivers - nitrate, phosphate, irradiance, and temperature - on the growth, photosynthetic and calcification rates, and the elemental composition of E. huxleyi. In addition, changes in functional gene expression were examined to understand the molecular mechanisms underpinning the physiological responses. The single driver manipulation experiments sugguest decreased nitrate supply being the most important driver regulating E. huxleyi physiology, by significantly reducing the growth, photosynthetic and calcification rates. In addition, the interaction of ocean acidification and decreased nitrate supply (projected for year 2100) had more negative synergistic effects on E. huxleyi physiology than all other two-way factorial manipulations, suggesting a linkage between the single dominant driver (nitrate) effects and interactive effects with other drivers. Simultaneous manipulation of all five environmental drivers to the projected year 2100 conditions had the largest negative effects on most of the physiological metrics. Furthermore, functional genes associated with inorganic carbon acquisition (RubisCO, AEL1 and delta CA) and calcification (CAX3, AEL1, PATP and NhaA2) were most down-regulated by the multiple driver manipulation, revealing linkages between responses of functional gene expression and associated physiological metrics.

Keyword(s):

Biomass/Abundance/Elemental composition; Bottles or small containers/Aquaria (<20 L); Calcification/Dissolution; Chromista; Emiliania huxleyi; Gene expression (incl. proteomics); Growth/Morphology; Haptophyta; Laboratory experiment; Laboratory strains; Light; Macro-nutrients; Not applicable; Pelagos; Phytoplankton; Primary production/Photosynthesis; Single species; Temperature

Supplement to:

Feng, Yuanyuan; Roleda, Michael Y; Armstrong, Evelyn; Summerfield, Tina C; Law, Cliff S; Hurd, Catriona L; Boyd, Philip W (2020): Effects of multiple drivers of ocean global change on the physiology and functional gene expression of the coccolithophore Emiliania huxleyi. Global Change Biology, 26, 5630–5645, https://doi.org/10.1111/gcb.15259

Further details:

Gattuso, Jean-Pierre; Epitalon, Jean-Marie; Lavigne, Héloïse; Orr, James C; Gentili, Bernard; Hagens, Mathilde; Hofmann, Andreas; Mueller, Jens-Daniel; Proye, Aurélien; Rae, James; Soetaert, Karline (2019): seacarb: seawater carbonate chemistry with R. R package version 3.2.12. https://CRAN.R-project.org/package=seacarb

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, 2019) 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 2020-07-07.

Parameter(s):

#	Name	Short Name	Unit	Principal Investigator	Method/Device	Comment
1	Type	Type		Feng, Yuanyuan		study
2	Species	Species		Feng, Yuanyuan
3	Registration number of species	Reg spec no		Feng, Yuanyuan
4	Uniform resource locator/link to reference	URL ref		Feng, Yuanyuan		WoRMS Aphia ID
5	Bottle number	Bottle	#	Feng, Yuanyuan
6	Treatment	Treat		Feng, Yuanyuan
7	Growth rate	µ	1/day	Feng, Yuanyuan		average last 5 days
8	Net photosynthesis rate, per cell	PN/cell	pg/#/h	Feng, Yuanyuan
9	Calcification rate of carbon per cell	Calc rate C/cell	pg/#/h	Feng, Yuanyuan
10	Ratio	Ratio		Feng, Yuanyuan		Photosynthetic/Calcification
11	Carbon, organic, particulate, per cell	POC/cell	pg/#	Feng, Yuanyuan
12	Carbon, inorganic, particulate, per cell	PIC/cell	pg/#	Feng, Yuanyuan
13	Nitrogen, organic, particulate, per cell	PON/cell	pg/#	Feng, Yuanyuan
14	Phosphorus, organic, particulate, per cell	POP/cell	pg/#	Feng, Yuanyuan
15	Chlorophyll a per cell	Chl a/cell	pg/#	Feng, Yuanyuan
16	Gene expression, fold change, relative	Gene expression		Feng, Yuanyuan		alpha CA
17	Gene expression, fold change, relative, standard deviation	Gene expression std dev	±	Feng, Yuanyuan		alpha CA
18	Gene expression, fold change, relative	Gene expression		Feng, Yuanyuan		gamma CA
19	Gene expression, fold change, relative, standard deviation	Gene expression std dev	±	Feng, Yuanyuan		gamma CA
20	Gene expression, fold change, relative	Gene expression		Feng, Yuanyuan		delta CA
21	Gene expression, fold change, relative, standard deviation	Gene expression std dev	±	Feng, Yuanyuan		delta CA
22	Gene expression, fold change, relative	Gene expression		Feng, Yuanyuan		CAM
23	Gene expression, fold change, relative, standard deviation	Gene expression std dev	±	Feng, Yuanyuan		CAM
24	Gene expression, fold change, relative	Gene expression		Feng, Yuanyuan		CAX3
25	Gene expression, fold change, relative, standard deviation	Gene expression std dev	±	Feng, Yuanyuan		CAX3
26	Gene expression, fold change, relative	Gene expression		Feng, Yuanyuan		AEL_1
27	Gene expression, fold change, relative, standard deviation	Gene expression std dev	±	Feng, Yuanyuan		AEL_1
28	Gene expression, fold change, relative	Gene expression		Feng, Yuanyuan		GPA
29	Gene expression, fold change, relative, standard deviation	Gene expression std dev	±	Feng, Yuanyuan		GPA
30	Gene expression, fold change, relative	Gene expression		Feng, Yuanyuan		NhaA
31	Gene expression, fold change, relative, standard deviation	Gene expression std dev	±	Feng, Yuanyuan		NhaA
32	Gene expression, fold change, relative	Gene expression		Feng, Yuanyuan		PAPT
33	Gene expression, fold change, relative, standard deviation	Gene expression std dev	±	Feng, Yuanyuan		PAPT
34	Gene expression, fold change, relative	Gene expression		Feng, Yuanyuan		RibisCO
35	Gene expression, fold change, relative, standard deviation	Gene expression std dev	±	Feng, Yuanyuan		RibisCO
36	Salinity	Sal		Feng, Yuanyuan
37	Temperature, water	Temp	°C	Feng, Yuanyuan
38	Alkalinity, total	AT	µmol/kg	Feng, Yuanyuan
39	Carbon, inorganic, dissolved	DIC	µmol/kg	Feng, Yuanyuan
40	pH	pH		Feng, Yuanyuan		total scale
41	Fugacity of carbon dioxide (water) at sea surface temperature (wet air)	fCO2water_SST_wet	µatm	Feng, Yuanyuan
42	Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)	pCO2water_SST_wet	µatm	Feng, Yuanyuan
43	Bicarbonate ion	[HCO3]-	µmol/kg	Feng, Yuanyuan
44	Carbonate ion	[CO3]2-	µmol/kg	Feng, Yuanyuan
45	Carbon dioxide	CO2	µmol/kg	Feng, Yuanyuan
46	Calcite saturation state	Omega Cal		Feng, Yuanyuan
47	Carbonate system computation flag	CSC flag		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
48	pH	pH		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)	total scale
49	Carbon dioxide	CO2	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
50	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)
51	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)
52	Bicarbonate ion	[HCO3]-	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
53	Carbonate ion	[CO3]2-	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
54	Aragonite saturation state	Omega Arg		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
55	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:

776 data points

Data

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

1 Type (study)	2 Species	3 Reg spec no	4 URL ref (WoRMS Aphia ID)	5 Bottle [#]	6 Treat	7 µ [1/day] (average last 5 days)	8 PN/cell [pg/#/h]	9 Calc rate C/cell [pg/#/h]	10 Ratio (Photosynthetic/Calcification)	11 POC/cell [pg/#]	12 PIC/cell [pg/#]	13 PON/cell [pg/#]	14 POP/cell [pg/#]	15 Chl a/cell [pg/#]	16 Gene expression (alpha CA)	17 Gene expression std dev [±] (alpha CA)	18 Gene expression (gamma CA)	19 Gene expression std dev [±] (gamma CA)	20 Gene expression (delta CA)	21 Gene expression std dev [±] (delta CA)	22 Gene expression (CAM)	23 Gene expression std dev [±] (CAM)	24 Gene expression (CAX3)	25 Gene expression std dev [±] (CAX3)	26 Gene expression (AEL_1)	27 Gene expression std dev [±] (AEL_1)	28 Gene expression (GPA)	29 Gene expression std dev [±] (GPA)	30 Gene expression (NhaA)	31 Gene expression std dev [±] (NhaA)	32 Gene expression (PAPT)	33 Gene expression std dev [±] (PAPT)	34 Gene expression (RibisCO)	35 Gene expression std dev [±] (RibisCO)	36 Sal	37 Temp [°C]	38 AT [µmol/kg]	39 DIC [µmol/kg]	40 pH (total scale)	41 fCO2water_SST_wet [µatm]	42 pCO2water_SST_wet [µatm]	43 [HCO3]- [µmol/kg]	44 [CO3]2- [µmol/kg]	45 CO2 [µmol/kg]	46 Omega Cal	47 CSC flag	48 pH (total scale)	49 CO2 [µmol/kg]	50 fCO2water_SST_wet [µatm]	51 pCO2water_SST_wet [µatm]	52 [HCO3]- [µmol/kg]	53 [CO3]2- [µmol/kg]	54 Omega Arg	55 Omega Cal
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org	1	Control	0.727	0.463	0.344	0.743	11.806	11.015	1.885	0.191	0.176																					34.5	14	2129.177	1930.529	8.050	365.705	367.047	1776.294	140.031	14.204	3.358	15	8.05	14.24	367.68	369.03	1776.10	140.19	2.15	3.35
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org	2	Control	0.743	0.491	0.392	0.798	11.008	10.436	1.996	0.171	0.173																					34.5	14	2125.020	1923.500	8.057	358.168	359.482	1767.951	141.638	13.911	3.396	15	8.05	13.95	360.13	361.45	1767.77	141.79	2.17	3.39
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org	3	Control	0.754	0.454	0.409	0.901	11.304	12.226	2.269	0.103	0.217																					34.5	14	2158.505	1951.254	8.065	356.264	357.571	1791.245	146.172	13.837	3.505	15	8.06	13.87	358.24	359.56	1791.07	146.31	2.24	3.50
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org	4	CO2-N	0.501	0.286	0.260	0.907	8.506	8.968	1.332	0.140	0.080																					34.5	14	2110.726	2013.023	7.788	716.284	718.913	1903.134	82.069	27.820	1.968	15	7.79	27.81	717.98	720.62	1902.82	82.40	1.26	1.97
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org	5	CO2-N	0.545	0.336	0.215	0.639	8.539	9.482	1.206	0.110	0.142																					34.5	14	2103.928	2007.714	7.784	721.183	723.830	1898.582	81.122	28.010	1.945	15	7.78	28.00	722.85	725.50	1898.26	81.45	1.25	1.95
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org	6	CO2-N	0.505	0.269	0.255	0.949	8.208	9.227	1.543	0.144	0.096																					34.5	14	2107.919	2009.960	7.789	713.505	716.124	1900.120	82.128	27.712	1.969	15	7.79	27.70	715.20	717.83	1899.80	82.46	1.26	1.97
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org	7	CO2-P	0.720	0.558	0.428	0.767	14.075	13.003	2.572	0.197	0.227																					34.5	14	2121.375	2012.716	7.821	662.311	664.742	1898.653	88.340	25.724	2.118	15	7.82	25.79	666.02	668.47	1898.50	88.42	1.35	2.11
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org	8	CO2-P	0.721	0.481	0.312	0.648	13.350	8.900	2.288	0.155	0.215																					34.5	14	2109.978	2022.109	7.759	770.498	773.326	1914.940	77.244	29.925	1.852	15	7.76	29.99	774.32	777.16	1914.75	77.37	1.18	1.85
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org	9	CO2-P	0.746	0.561	0.444	0.793	13.861	10.307	2.476	0.190	0.205																					34.5	14	2126.624	2025.581	7.798	703.900	706.484	1913.791	84.451	27.339	2.025	15	7.80	27.41	707.68	710.28	1913.62	84.55	1.29	2.02
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org	10	CO2+I	0.639	0.489	0.325	0.664	12.855	10.489	2.105	0.215	0.130																					34.5	14	2109.033	2009.395	7.794	704.917	707.505	1898.987	83.029	27.378	1.991	15	7.79	27.37	706.64	709.23	1898.67	83.36	1.28	1.99
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org	11	CO2+I	0.632	0.539	0.354	0.657	15.515	11.417	1.926	0.206	0.139																					34.5	14	2095.476	2002.724	7.774	736.585	739.289	1894.990	79.126	28.608	1.897	15	7.77	28.59	738.18	740.90	1894.68	79.46	1.22	1.90
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org	12	CO2+I	0.643	0.497	0.386	0.777	12.327	9.648	1.601	0.203	0.126																					34.5	14	2128.919	2026.740	7.800	700.975	703.548	1914.636	84.878	27.225	2.035	15	7.80	27.22	702.75	705.34	1914.32	85.21	1.30	2.04
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org	13	CO2+T	0.749	0.487	0.391	0.803	15.936		1.302	0.223	0.195																					34.5	14	2112.172	2001.903	7.796	706.969	709.499	1886.573	89.488	25.843	2.148	15	7.82	25.32	653.83	656.23	1887.54	89.04	1.36	2.13
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org	14	CO2+T	0.759	0.542	0.372	0.688	12.152	5.897	1.575	0.184	0.161																					34.5	14	2116.343	2011.756	7.779	739.698	742.345	1898.137	86.580	27.039	2.078	15	7.81	26.50	684.15	686.67	1899.12	86.14	1.32	2.06
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org	15	CO2+T	0.736	0.588	0.459	0.779			1.816	0.244	0.176																					34.5	14	2138.999	2012.987	7.838	643.200	645.502	1890.687	98.789	23.512	2.371	15	7.87	23.04	594.77	596.95	1891.65	98.30	1.51	2.35
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org	16	Multiple	0.292	0.217	0.149	0.687	11.501	11.442	0.929	0.121	0.040																					34.5	14	2078.386	1980.600	7.763	756.367	759.074	1870.709	82.242	27.648	1.974	15	7.79	27.18	701.66	704.23	1871.83	81.59	1.25	1.95
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org	17	Multiple	0.229	0.165	0.123	0.744	11.017	7.361	0.592	0.094	0.028																					34.5	14	2083.467	1988.500	7.754	775.719	778.495	1879.222	80.922	28.356	1.943	15	7.78	27.87	719.66	722.30	1880.35	80.28	1.23	1.92
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org	18	Multiple	0.367	0.217	0.113	0.523	12.888		0.816	0.133	0.046																					34.5	14	2112.061	2002.200	7.796	707.073	709.604	1886.852	89.501	25.847	2.149	15	7.82	25.40	655.76	658.17	1887.99	88.82	1.36	2.12
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org		Control										1.000	0.022	1.027	0.275	1.001	0.064	1.003	0.098	1.000	0.038	1.003	0.095	1.002	0.077	1.002	0.073	1.002	0.080	1.000	0.018
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org		CO2-N										1.430	0.134	0.955	0.024	0.577	0.074	0.692	0.013	0.825	0.092	0.812	0.099	0.944	0.204	0.511	0.074	0.443	0.007	0.204	0.024
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org		CO2-P										0.210	0.104	1.169	0.201	0.413	0.027	0.952	0.035	0.666	0.078	0.366	0.014	0.887	0.329	0.427	0.066	0.308	0.034	0.424	0.009
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org		CO2+I										0.228	0.104	1.451	0.000	0.283	0.037	1.176	0.029	0.833	0.067	0.289	0.025	1.543	0.050	0.268	0.014	0.124	0.007	0.338	0.012
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org		CO2+T										0.854	0.023	1.176	0.233	0.076	0.006	1.252	0.149	0.384	0.076	0.273	0.030	1.623	0.181	0.625	0.088	0.615	0.052	0.118	0.013
Laboratory	Emiliania huxleyi (phytoplankton)	115104	marinespecies.org		Multiple										0.257	0.000	0.982	0.183	0.006	0.001	2.015	0.131	0.084	0.007	0.074	0.002	83.556	6.981	0.276	0.014	0.067	0.016	0.011	0.001