Citation:

fmars.2017.00073

Name: Measurements of microbial processes, dissolution, water and porewater chemistry during experiments on two coral reef sediments: Sediment characteristics
Creator: Artur Fink
Published: 2017-03-22
License: https://creativecommons.org/licenses/by/3.0/
Keywords: Benthos; Biomass/Abundance/Elemental composition; Bottles or small containers/Aquaria (<20 L); Coast and continental shelf; Entire community; Laboratory experiment; Soft-bottom community; Tropical

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Keyword(s):

Benthos; Biomass/Abundance/Elemental composition; Bottles or small containers/Aquaria (<20 L); Coast and continental shelf; Entire community; Laboratory experiment; Soft-bottom community; Tropical

Further details:

Gattuso, Jean-Pierre; Epitalon, Jean-Marie; Lavigne, Héloïse; Orr, James C; Gentili, Bernard; Proye, Aurélien; Soetaert, Karline; Rae, James (2016): seacarb: seawater carbonate chemistry with R. R package version 3.1. https://cran.r-project.org/package=seacarb

Project(s):

Biological Impacts of Ocean Acidification (BIOACID)

Coverage:

Date/Time Start: 2014-01-01T00:00:00 * Date/Time End: 2015-01-01T00:00:00

Comment:

In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Gattuso et al, 2016) 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 is 2017-03-22.

Parameter(s):

#	Name	Short Name	Unit	Principal Investigator	Method/Device	Comment
1	DATE/TIME	Date/Time		Fink, Artur		Geocode
2	Origin	Origin		Fink, Artur		sediment
3	Sample code/label	Sample label		Fink, Artur		timepoint
4	Treatment	Treat		Fink, Artur
5	Replicate	Repl		Fink, Artur
6	Depth, nominal	Depth nominal		Fink, Artur		depth in mm
7	Porosity	Poros	% vol	Fink, Artur
8	Permeability	Permeab	H/m	Fink, Artur
9	Grains	Grains	#/g	Fink, Artur		<63
10	Grains	Grains	#/g	Fink, Artur		63
11	Grains	Grains	#/g	Fink, Artur		125
12	Grains	Grains	#/g	Fink, Artur		250
13	Grains	Grains	#/g	Fink, Artur		500
14	Grains	Grains	#/g	Fink, Artur		1000
15	Grains	Grains	#/g	Fink, Artur		2000
16	Grain size, mean radius	Radius mean	mm	Fink, Artur
17	Nitrogen, total	TN	%	Fink, Artur
18	Carbon, total	TC	%	Fink, Artur
19	Carbon, organic, total	TOC	%	Fink, Artur
20	Carbon, inorganic, total	TIC	%	Fink, Artur
21	pH	pH		Fink, Artur		total scale
22	pH, standard error	pH std e	±	Fink, Artur		total scale
23	Alkalinity, total	AT	µmol/kg	Fink, Artur
24	Standard error	Std e	±	Fink, Artur
25	Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)	pCO2water_SST_wet	µatm	Fink, Artur
26	Partial pressure of carbon dioxide, standard deviation	pCO2 std dev	±	Fink, Artur
27	Carbon, inorganic, dissolved	DIC	µmol/l	Fink, Artur
28	Carbon, inorganic, dissolved, standard deviation	DIC std dev	±	Fink, Artur
29	Calcite saturation state	Omega Cal		Fink, Artur
30	Standard error	Std e	±	Fink, Artur
31	Aragonite saturation state	Omega Arg		Fink, Artur
32	Standard error	Std e	±	Fink, Artur
33	High magnesium calcite saturation state	Omega HMC		Fink, Artur
34	Standard error	Std e	±	Fink, Artur
35	Temperature, water	Temp	°C	Fink, Artur
36	Standard error	Std e	±	Fink, Artur
37	Salinity	Sal		Fink, Artur
38	Standard error	Std e	±	Fink, Artur
39	Carbonate system computation flag	CSC flag		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
40	Carbon dioxide	CO2	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
41	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)
42	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)
43	Bicarbonate ion	[HCO3]-	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
44	Carbonate ion	[CO3]2-	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
45	Carbon, inorganic, dissolved	DIC	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
46	Aragonite saturation state	Omega Arg		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
47	Calcite saturation state	Omega Cal		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)

License:

Creative Commons Attribution 3.0 Unported (CC-BY-3.0)

Size:

1060 data points

Data

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

1 Date/Time	2 Origin (sediment)	3 Sample label (timepoint)	4 Treat	5 Repl	6 Depth nominal (depth in mm)	7 Poros [% vol]	8 Permeab [H/m]	9 Grains [#/g] (<63)	10 Grains [#/g] (63)	11 Grains [#/g] (125)	12 Grains [#/g] (250)	13 Grains [#/g] (500)	14 Grains [#/g] (1000)	15 Grains [#/g] (2000)	16 Radius mean [mm]	17 TN [%]	18 TC [%]	19 TOC [%]	20 TIC [%]	21 pH (total scale)	22 pH std e [±] (total scale)	23 AT [µmol/kg]	24 Std e [±]	25 pCO2water_SST_wet [µatm]	26 pCO2 std dev [±]	27 DIC [µmol/l]	28 DIC std dev [±]	29 Omega Cal	30 Std e [±]	31 Omega Arg	32 Std e [±]	33 Omega HMC	34 Std e [±]	35 Temp [°C]	36 Std e [±]	37 Sal	38 Std e [±]	39 CSC flag	40 CO2 [µmol/kg]	41 fCO2water_SST_wet [µatm]	42 pCO2water_SST_wet [µatm]	43 [HCO3]- [µmol/kg]	44 [CO3]2- [µmol/kg]	45 DIC [µmol/kg]	46 Omega Arg	47 Omega Cal
2015	Davies Reef	End	high	1	0_1	0.43														7.76	0	2317	0	835	0	2144	0	3.28	0	2.17	0	0.74	0	27.1	0	34	0	8	23.65	873.12	876	1997.45	131.15	2152.25	2.12	3.20
2015	Davies Reef	End	control	1	0_1	0.42														8.00	0	2317	1	457	4	2031	2	5.01	0	3.32	0	1.12	0	27.3	0	34	0	8	12.28	455.62	457	1809.28	207.95	2029.51	3.36	5.07
2015	Davies Reef	End	high	2	0_1	0.41														7.76	0	2317	0	835	0	2144	0	3.28	0	2.17	0	0.74	0	27.1	0	34	0	8	23.65	873.12	876	1997.45	131.15	2152.25	2.12	3.20
2015	Davies Reef	End	high	3	0_1	0.42														7.76	0	2317	0	835	0	2144	0	3.28	0	2.17	0	0.74	0	27.1	0	34	0	8	23.65	873.12	876	1997.45	131.15	2152.25	2.12	3.20
2015	Davies Reef	End	control	2	0_1	0.41														8.00	0	2317	1	457	4	2031	2	5.01	0	3.32	0	1.12	0	27.3	0	34	0	8	12.28	455.62	457	1809.28	207.95	2029.51	3.36	5.07
2015	Davies Reef	End	control	3	0_1	0.41														8.00	0	2317	1	457	4	2031	2	5.01	0	3.32	0	1.12	0	27.3	0	34	0	8	12.28	455.62	457	1809.28	207.95	2029.51	3.36	5.07
2015	Davies Reef	End	high	1	0_4		0.000000000													7.76	0	2317	0	835	0	2144	0	3.28	0	2.17	0	0.74	0	27.1	0	34	0	8	23.65	873.12	876	1997.45	131.15	2152.25	2.12	3.20
2015	Davies Reef	End	control	1	0_4		0.000000000													8.00	0	2317	1	457	4	2031	2	5.01	0	3.32	0	1.12	0	27.3	0	34	0	8	12.28	455.62	457	1809.28	207.95	2029.51	3.36	5.07
2015	Davies Reef	End	high	2	0_4		0.000000000													7.76	0	2317	0	835	0	2144	0	3.28	0	2.17	0	0.74	0	27.1	0	34	0	8	23.65	873.12	876	1997.45	131.15	2152.25	2.12	3.20
2015	Davies Reef	End	high	3	0_4		0.000000000													7.76	0	2317	0	835	0	2144	0	3.28	0	2.17	0	0.74	0	27.1	0	34	0	8	23.65	873.12	876	1997.45	131.15	2152.25	2.12	3.20
2015	Davies Reef	End	control	2	0_4		0.000000000													8.00	0	2317	1	457	4	2031	2	5.01	0	3.32	0	1.12	0	27.3	0	34	0	8	12.28	455.62	457	1809.28	207.95	2029.51	3.36	5.07
2015	Davies Reef	End	control	3	0_4		0.000000000													8.00	0	2317	1	457	4	2031	2	5.01	0	3.32	0	1.12	0	27.3	0	34	0	8	12.28	455.62	457	1809.28	207.95	2029.51	3.36	5.07
2015	Davies Reef	End	high	1	0_1			0.000000000	0.700000000	16.300000000	35.80000000	36.50000000	10.700000000		0.47					7.76	0	2317	0	835	0	2144	0	3.28	0	2.17	0	0.74	0	27.1	0	34	0	8	23.65	873.12	876	1997.45	131.15	2152.25	2.12	3.20
2015	Davies Reef	End	control	1	0_1			0.300000000	2.400000000	19.800000000	32.70000000	34.00000000	10.800000000		0.45					8.00	0	2317	1	457	4	2031	2	5.01	0	3.32	0	1.12	0	27.3	0	34	0	8	12.28	455.62	457	1809.28	207.95	2029.51	3.36	5.07
2015	Davies Reef	End	high	2	0_1			0.500000000	2.600000000	19.100000000	29.10000000	36.00000000	12.700000000		0.49					7.76	0	2317	0	835	0	2144	0	3.28	0	2.17	0	0.74	0	27.1	0	34	0	8	23.65	873.12	876	1997.45	131.15	2152.25	2.12	3.20
2015	Davies Reef	End	high	3	0_1			0.300000000	1.400000000	15.700000000	30.40000000	40.00000000	12.200000000		0.52					7.76	0	2317	0	835	0	2144	0	3.28	0	2.17	0	0.74	0	27.1	0	34	0	8	23.65	873.12	876	1997.45	131.15	2152.25	2.12	3.20
2015	Davies Reef	End	control	2	0_1			0.300000000	1.100000000	14.800000000	29.30000000	39.30000000	15.200000000		0.54					8.00	0	2317	1	457	4	2031	2	5.01	0	3.32	0	1.12	0	27.3	0	34	0	8	12.28	455.62	457	1809.28	207.95	2029.51	3.36	5.07
2015	Davies Reef	End	control	3	0_1			0.400000000	1.600000000	16.600000000	29.80000000	38.00000000	13.600000000		0.52					8.00	0	2317	1	457	4	2031	2	5.01	0	3.32	0	1.12	0	27.3	0	34	0	8	12.28	455.62	457	1809.28	207.95	2029.51	3.36	5.07
2015	Davies Reef	Start	NA	NA	NA			0.300000000	1.100000000	16.600000000	35.70000000	36.00000000	10.300000000		0.47	0.05	11.77	0.17	11.61
2014	Magnetic Island	End	control	1	0_1	0.51		0.239712345	0.559328805	8.030363564	48.02237315	37.51498202	5.633240112	0	0.45	0.02	11.14	0.17	10.98	8.00	0	2317	1	457	4	2031	2	5.01	0	3.32	0	1.12	0	27.3	0	34	0	8	12.28	455.62	457	1809.28	207.95	2029.51	3.36	5.07
2014	Magnetic Island	End	control	2	0_1	0.54		0.237755587	0.332857822	5.278174037	40.65620542	46.60009510	6.894912030	0	0.53	0.03	11.23	0.18	11.05	8.00	0	2317	1	457	4	2031	2	5.01	0	3.32	0	1.12	0	27.3	0	34	0	8	12.28	455.62	457	1809.28	207.95	2029.51	3.36	5.07
2014	Magnetic Island	End	control	3	0_1	0.52		0.199600798	0.499001996	6.786427146	42.46506986	42.26546906	7.784431138	0	0.50	0.03	11.28	0.15	11.12	8.00	0	2317	1	457	4	2031	2	5.01	0	3.32	0	1.12	0	27.3	0	34	0	8	12.28	455.62	457	1809.28	207.95	2029.51	3.36	5.07
2014	Magnetic Island	End	medium	1	0_1	0.50		0.398936170	0.709219858	6.117021277	47.03014184	40.33687943	5.407801418	0	0.47	0.02	11.26	0.18	11.08	7.88	0	2318	1	628	0	2095	1	4.04	0	2.68	0	0.91	0	27.2	0	34	0	8	17.15	634.63	637	1912.80	166.17	2096.12	2.68	4.05
2014	Magnetic Island	End	medium	2	0_1	0.51		0.142382534	0.427147603	6.976744186	47.22354058	39.39250119	5.837683911	0	0.47	0.02	11.29	0.14	11.16	7.88	0	2318	1	628	0	2095	1	4.04	0	2.68	0	0.91	0	27.2	0	34	0	8	17.15	634.63	637	1912.80	166.17	2096.12	2.68	4.05
2014	Magnetic Island	End	medium	3	0_1	0.53		0.178332590	0.401248328	7.846633972	48.06063308	37.98484173	5.528310299	0	0.45	0.03	11.25	0.17	11.08	7.88	0	2318	1	628	0	2095	1	4.04	0	2.68	0	0.91	0	27.2	0	34	0	8	17.15	634.63	637	1912.80	166.17	2096.12	2.68	4.05
2014	Magnetic Island	End	high	1	0_1	0.54		0.104712042	1.518324607	7.801047120	47.69633508	37.64397906	5.235602094	0	0.45	0.03	11.27	0.13	11.14	7.76	0	2317	0	835	0	2144	0	3.28	0	2.17	0	0.74	0	27.1	0	34	0	8	23.65	873.12	876	1997.45	131.15	2152.25	2.12	3.20
2014	Magnetic Island	End	high	2	0_1	0.56		0.336053769	0.576092175	6.144983197	39.03024484	46.32741239	7.585213634	0	0.53	0.03	11.34	0.15	11.18	7.76	0	2317	0	835	0	2144	0	3.28	0	2.17	0	0.74	0	27.1	0	34	0	8	23.65	873.12	876	1997.45	131.15	2152.25	2.12	3.20
2014	Magnetic Island	End	high	3	0_1	0.55		0.122324159	0.489296636	5.993883792	42.69113150	43.24159021	7.461773700	0	0.51	0.03	11.30	0.15	11.15	7.76	0	2317	0	835	0	2144	0	3.28	0	2.17	0	0.74	0	27.1	0	34	0	8	23.65	873.12	876	1997.45	131.15	2152.25	2.12	3.20
2014	Magnetic Island	Start	NA	NA	NA											0.02	11.23	0.16	11.08