Citation:

PANGAEA.956023

Name: Seawater carbonate chemistry and abundance of cyanobacterial, micro-algal 16S rRNAA
Published: 2016
License: https://creativecommons.org/licenses/by/4.0/
Keywords: Benthos; Coast and continental shelf; Community composition and diversity; Entire community; Laboratory experiment; North Atlantic; Soft-bottom community; Temperate

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Abstract:

The geological storage of carbon dioxide (CO2) is expected to be an important component of future global carbon emission mitigation, but there is a need to understand the impacts of a CO2 leak on the marine environment and to develop monitoring protocols for leakage detection. In the present study, sediment cores were exposed to CO2-acidified seawater at one of five pH levels (8.0, 7.5, 7.0, 6.5 and 6.0) for 10 weeks. A bloom of Spirulina sp. and diatoms appeared on sediment surface exposed to pH 7.0 and 7.5 seawater. Quantitative PCR measurements of the abundance of 16S rRNA also indicated an increase to the abundance of microbial 16S rRNA within the pH 7.0 and 7.5 treatments after 10 weeks incubation. More detailed analysis of the microbial communities from the pH 7.0, 7.5 and 8.0 treatments confirmed an increase in the relative abundance of Spirulina sp. and Navicula sp. sequences, with changes to the relative abundance of major archaeal and bacterial groups also detected within the pH 7.0 treatment. A decreased flux of silicate from the sediment at this pH was also detected. Monitoring for blooms of microphytobenthos may prove useful as an indicator of CO2 leakage within coastal areas.

Keyword(s):

Benthos; Coast and continental shelf; Community composition and diversity; Entire community; Laboratory experiment; North Atlantic; Soft-bottom community; Temperate

Related to:

Tait, Karen; Beesley, A; Findlay, Helen S; McNeill, C L; Widdicombe, Stephen (2015): Elevated CO 2 induces a bloom of microphytobenthos within a shell gravel mesocosm. FEMS Microbiology Ecology, 91(8), fiv092, https://doi.org/10.1093/femsec/fiv092

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

Further details:

Tait, Karen (2013): Elevated CO2 induces a bloom of microphytobenthos. European Nucleotide Archive, https://www.ebi.ac.uk/ena/browser/view/PRJEB1669

Project(s):

Ocean Acidification International Coordination Centre (OA-ICC)

Coverage:

Latitude: 50.192500 * Longitude: -4.283300

Date/Time Start: 2010-09-15T00:00:00 * Date/Time End: 2010-09-15T00:00:00

Event(s):

Western_English_Channel * Latitude: 50.192500 * Longitude: -4.283300 * Date/Time: 2010-09-15T00:00:00 * Method/Device: Experiment (EXP)

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		Tait, Karen		Study
2	Identification	ID		Tait, Karen		Tank
3	Core	Core		Tait, Karen
4	Treatment: pH	T:pH		Tait, Karen
5	Time in weeks	Time week	weeks	Tait, Karen
6	pH	pH		Tait, Karen		NBS scale
7	Temperature, water	Temp	°C	Tait, Karen
8	Salinity	Sal		Tait, Karen
9	Alkalinity, total	AT	µmol/kg	Tait, Karen
10	Ammonia	NH3	µmol/l	Tait, Karen
11	Nitrate	[NO3]-	µmol/l	Tait, Karen
12	Nitrite	[NO2]-	µmol/l	Tait, Karen
13	Phosphate	[PO4]3-	µmol/l	Tait, Karen
14	Silicate	Si(OH)4	µmol/l	Tait, Karen
15	Silicate, flux	Si(OH)4 flux	µmol/m²/day	Tait, Karen
16	16S gene copy number per unit sediment mass	16S gene/sed m	#/g	Tait, Karen		Archaea
17	16S gene copy number per unit sediment mass	16S gene/sed m	#/g	Tait, Karen		Bacteria
18	16S gene copy number per unit sediment mass	16S gene/sed m	#/g	Tait, Karen		Cyanobacteria
19	Carbonate system computation flag	CSC flag		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
20	pH	pH		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)	total scale
21	Carbon dioxide	CO2	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
22	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)
23	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)
24	Bicarbonate ion	[HCO3]-	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
25	Carbonate ion	[CO3]2-	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
26	Carbon, inorganic, dissolved	DIC	µmol/kg	Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
27	Aragonite saturation state	Omega Arg		Yang, Yan	Calculated using seacarb after Nisumaa et al. (2010)
28	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:

1400 data points

Data

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

1 Type (Study)	2 ID (Tank)	3 Core	4 T:pH	5 Time week [weeks]	6 pH (NBS scale)	7 Temp [°C]	8 Sal	9 AT [µmol/kg]	10 NH3 [µmol/l]	11 [NO3]- [µmol/l]	12 [NO2]- [µmol/l]	13 [PO4]3- [µmol/l]	14 Si(OH)4 [µmol/l]	15 Si(OH)4 flux [µmol/m²/day]	16 16S gene/sed m [#/g] (Archaea)	17 16S gene/sed m [#/g] (Bacteria)	18 16S gene/sed m [#/g] (Cyanobacteria)	19 CSC flag	20 pH (total scale)	21 CO2 [µmol/kg]	22 fCO2water_SST_wet [µatm]	23 pCO2water_SST_wet [µatm]	24 [HCO3]- [µmol/kg]	25 [CO3]2- [µmol/kg]	26 DIC [µmol/kg]	27 Omega Arg	28 Omega Cal
laboratory	2	4	8.0	2	8.06	11.48	34.21	2322.57	0.56	2.28	0.14	0.27	3.74	34.52	768933.0	9042158	2754323.240	26	7.95	21.55	513.13	515.08	2033.46	116.59	2171.60	1.78	2.79
laboratory	2	7	8.0	2	8.09	11.61	33.98	2590.90	0.54	7.73	0.11	1.00	5.60	33.22	290748.0	2076672	640962.540	26	7.98	22.38	534.29	536.32	2256.03	138.00	2416.40	2.11	3.31
laboratory	3	1	8.0	2	8.05	11.28	34.50	2262.00	0.57	2.91	0.13	0.29	4.54	34.81	278777.0	8074944	1422871.360	26	7.94	21.61	511.95	513.90	1984.92	110.98	2117.50	1.69	2.65
laboratory	4	4	8.0	2	8.07	11.04	34.08	2650.90	0.82	7.73	0.11	0.74	5.53	-5.03	504725.0	1842828	210256.720	26	7.96	24.46	573.69	575.88	2327.80	133.54	2485.80	2.04	3.20
laboratory	5	6	8.0	2	8.08	11.21	34.06	2343.77	0.64	7.37	0.13	1.07	5.81	-94.40	405056.5	6665280	577683.860	26	7.98	20.81	490.77	492.64	2043.76	121.23	2185.80	1.85	2.91
laboratory	1	4	7.5	2	7.54	11.16	34.40	2546.57	0.50	2.58	0.15	0.30	3.66	-7.04	846671.0	6006186	1440014.400	26	7.44	85.59	2018.95	2026.65	2443.30	42.31	2571.20	0.64	1.01
laboratory	1	8	7.5	2	7.53	11.58	33.95	2552.83	0.45	6.82	0.14	0.51	5.06	-13.68	884559.5	4533984	1680016.800	26	7.43	87.83	2094.86	2102.81	2451.78	41.49	2581.10	0.63	0.99
laboratory	2	5	7.5	2	7.64	11.65	34.49	2396.60	0.53	4.55	0.15	0.34	4.99	32.56	467950.0	21112400	10467226.000	26	7.53	63.85	1530.96	1536.76	2274.30	49.55	2387.70	0.75	1.18
laboratory	4	5	7.5	2	7.65	11.40	34.13	2355.70	3.66	7.83	0.12	0.75	3.88	1.51	2619000.0	20192600	18998300.000	26	7.54	61.17	1452.06	1457.58	2233.39	49.43	2344.00	0.75	1.18
laboratory	4	9	7.5	2	7.54	12.77	34.18	2514.10	1.65	7.99	0.12	0.85	5.31	35.57	930250.0	30142400	17930488.000	26	7.43	83.32	2066.73	2074.45	2408.99	43.09	2535.40	0.66	1.03
laboratory	1	1	7.0	2	7.43	11.52	33.55	2585.20	32.21	4.99	0.23	0.38	4.37	24.08	2131284.5	16451908	7182888.960	26	7.32	114.47	2718.71	2729.04	2505.12	33.01	2652.60	0.50	0.79
laboratory	2	8	7.0	2	7.33	11.46	34.08	2393.10	1.36	8.24	0.17	1.03	6.77	-10.79	1512700.0	25814800	4933772.000	26	7.22	133.56	3175.49	3187.57	2332.25	24.69	2490.50	0.38	0.59
laboratory	3	8	7.0	2	7.27	11.17	34.05	2398.70	0.54	7.30	0.14	0.54	4.94	26.63	953700.0	25556600	9638162.000	26	7.16	156.30	3680.98	3695.05	2346.34	21.26	2523.90	0.32	0.51
laboratory	3	9	7.0	2	7.33	11.13	34.08	2486.35	0.35	7.87	0.12	0.76	5.66	-11.16	1710073.0	13001276	4097183.820	26	7.22	139.83	3289.34	3301.92	2424.30	25.37	2589.50	0.39	0.61
laboratory	4	2	7.0	2	7.30	11.56	34.14	2649.63	24.03	2.46	0.12	0.48	7.69	14.38	655571.0	8564270	2148592.900	26	7.19	158.19	3774.59	3788.95	2587.39	25.72	2771.30	0.39	0.62
laboratory	2	1	6.5	2	6.46	11.59	34.10	2242.23	0.60	2.40	0.14	0.28	3.99	-9.70	1952592.0	18257146	6685781.140	26	6.35	941.13	22472.57	22559.72	2234.75	3.22	3179.10	0.05	0.08
laboratory	2	10	6.5	2	6.79	11.31	34.15	2577.40	0.58	5.75	0.16	0.53	4.78	297.31	1936186.0	43866038	10743164.560	26	6.69	504.50	11941.84	11987.80	2558.54	7.86	3070.90	0.12	0.19
laboratory	3	7	6.5	2	6.85	11.05	34.16	2597.80	0.51	6.81	0.11	0.76	5.59	-8.15	544364.0	17160060	1108582.500	26	6.74	447.39	10501.73	10542.23	2576.26	8.95	3032.60	0.14	0.21
laboratory	4	6	6.5	2	6.77	11.36	34.21	2563.77	0.53	6.21	0.10	0.69	5.35	3.41	515550.0	29499104	3165745.800	26	6.66	531.54	12606.56	12655.09	2546.06	7.40	3085.00	0.11	0.18
laboratory	5	1	6.5	2	6.67	12.64	34.20	2392.20	12.33	3.85	0.32	0.56	4.48	-124.02	492950.0	14046602	10162563.040	26	6.56	607.74	15014.17	15071.17	2378.41	5.75	2991.90	0.09	0.14
laboratory	1	6	6.0	2	6.13	12.00	34.08	2429.53	1.28	8.09	0.14	0.53	5.37	45.23	22559.4	200866	170040.220	26	6.02	2161.72	52295.20	52503.14	2426.72	1.66	4590.10	0.03	0.04
laboratory	1	9	6.0	2	6.13	12.00	34.13	2422.55	0.53	7.02	0.15	0.60	5.62	15.74	1000685.0	11042022	1760017.600	26	6.02	2199.14	53215.66	53427.45	2419.93	1.63	4620.70	0.02	0.04
laboratory	3	4	6.0	2	6.25	11.57	34.04	2673.30	0.36	2.39	0.18	0.30	3.87	7.88	847381.5	12311278	2554311.240	26	6.14	1829.96	43653.45	43826.49	2668.58	2.36	4500.90	0.04	0.06
laboratory	4	1	6.0	2	6.27	11.42	34.14	2873.50	0.58	2.72	0.10	0.28	3.81	-2.64	393776.0	6967442	2371452.280	26	6.17	1871.57	44456.18	44632.88	2868.07	2.67	4742.30	0.04	0.06
laboratory	5	8	6.0	2	6.28	11.60	34.52	2602.70	2.63	8.05	0.14	0.57	5.44	33.51	54060.0	309724	287537.120	26	6.18	1644.78	39381.49	39536.87	2597.52	2.51	4244.80	0.04	0.06
laboratory	1	7	8.0	20	7.95	10.98	33.68	2599.03	0.76	7.16	0.16	0.59	5.60	63.28	1532344.0	13875686	9314378.840	26	7.85	32.54	759.98	762.89	2352.07	101.79	2486.40	1.55	2.44
laboratory	2	6	8.0	20	7.93	10.98	33.83	2423.28	5.61	8.68	0.27	0.66	5.63	118.17	559283.5	13533484	8971538.280	26	7.82	32.02	748.60	751.46	2200.27	90.71	2323.00	1.38	2.18
laboratory	3	5	8.0	20	8.00	10.78	33.74	2819.20	0.53	4.68	0.17	0.43	4.65	56.31	1270050.5	16174210	2560021.600	26	7.89	31.63	734.12	736.93	2529.85	120.93	2682.40	1.85	2.90
laboratory	3	6	8.0	20	8.02	10.64	33.73	2424.40	1.06	7.36	0.13	0.81	5.74	119.78	1581387.5	10596312	2028579.700	26	7.91	25.85	597.18	599.47	2159.83	107.63	2293.30	1.64	2.58
laboratory	5	3	8.0	20	7.93	10.82	33.79	2462.58	0.55	1.91	0.17	0.60	3.93	68.32	400667.4	2194540	1250435.200	26	7.83	32.41	753.52	756.40	2236.27	92.32	2361.00	1.41	2.22
laboratory	1	2	7.5	20	7.43	11.52	33.55	2509.10	2.50	3.34	0.23	0.69	5.63	68.48	1459103.5	45098244	16628737.700	26	7.32	110.88	2633.31	2643.32	2430.84	32.09	2573.80	0.49	0.77
laboratory	3	2	7.5	20	7.50	10.81	33.70	2480.13	0.38	5.03	0.27	0.32	4.38	61.86	2016052.0	23310098	17485889.140	26	7.39	94.68	2199.45	2207.88	2391.72	36.10	2522.50	0.55	0.87
laboratory	4	3	7.5	20	7.47	10.72	33.80	2478.55	0.95	3.54	0.17	0.39	4.07	54.15	2082910.0	22200152	17085885.140	26	7.37	100.33	2325.12	2334.04	2394.91	34.16	2529.40	0.52	0.82
laboratory	5	2	7.5	20	6.88	11.03	33.60	2439.48	0.66	4.51	0.11	0.53	4.33	37.45	3731272.5	18682098	10857891.420	26	6.77	397.40	9292.37	9328.16	2418.10	8.80	2824.30	0.13	0.21
laboratory	5	7	7.5	20	7.51	10.84	33.68	2517.70	2.54	6.71	0.17	0.87	6.70	-34.67	2171943.0	32590976	9200720.000	26	7.40	93.83	2181.58	2189.94	2426.18	37.48	2557.50	0.57	0.90
laboratory	1	3	7.0	20	7.10	11.39	33.62	2540.60	4.07	3.61	0.15	0.34	4.54	66.09	1339609.0	23259638	34817171.020	26	6.99	244.89	5794.02	5816.15	2503.22	15.39	2763.50	0.24	0.37
laboratory	1	10	7.0	20	7.10	10.90	33.72	2494.60	6.79	6.08	0.19	0.66	6.69	55.42	1503608.0	33349814	25325757.540	26	6.99	242.92	5660.09	5681.85	2458.30	14.89	2716.10	0.23	0.36
laboratory	3	3	7.0	20	7.15	10.66	33.64	2457.20	0.81	7.75	0.24	0.45	6.66	82.35	3466818.0	43651990	28143508.560	26	7.05	213.05	4923.15	4942.12	2417.21	16.34	2646.60	0.25	0.39
laboratory	4	10	7.0	20	7.08	11.40	33.86	2297.40	7.92	7.50	0.11	0.70	8.45	35.68	1071217.0	22527114	34400324.000	26	6.97	233.37	5530.87	5551.99	2264.56	13.27	2511.20	0.20	0.32
laboratory	5	4	7.0	20	7.15	10.90	33.73	2302.90	1.71	2.17	0.15	0.42	3.78	43.54	1793831.0	42914614	26965723.940	26	7.05	197.28	4597.05	4614.70	2264.36	15.55	2477.20	0.24	0.37
laboratory	1	5	6.5	20	6.68	10.96	33.66	2523.37	0.65	3.37	0.13	0.32	4.32	74.88	1000974.0	16350060	2742944.560	26	6.57	652.27	15222.66	15281.72	2509.65	5.78	3167.70	0.09	0.14
laboratory	2	3	6.5	20	6.64	10.80	33.70	2528.73	0.85	3.98	0.19	0.35	4.73	182.47	444752.5	4919978	1285727.140	26	6.53	725.32	16843.40	16909.00	2516.37	5.22	3246.90	0.08	0.13
laboratory	4	7	6.5	20	6.68	10.76	33.74	2399.13	0.40	6.40	0.11	1.00	6.19	116.98	300115.0	12041476	287799.960	26	6.58	615.05	14267.36	14322.80	2385.82	5.53	3006.40	0.08	0.13
laboratory	5	5	6.5	20	6.69	10.92	33.80	2373.60	3.54	3.23	0.18	0.49	5.23	69.74	927940.0	10558868	2057203.420	26	6.59	595.20	13883.83	13937.65	2360.09	5.61	2960.90	0.09	0.13
laboratory	5	9	6.5	20	6.78	10.49	33.72	2561.90	2.52	7.46	0.16	0.75	9.37	97.96	474300.0	3147140	2013326.099	26	6.68	528.20	12143.56	12190.81	2544.41	7.29	3079.90	0.11	0.18
laboratory	2	2	6.0	20	6.09	10.87	33.76	2547.83	1.34	3.75	0.15	0.34	3.70	110.02	1617154.5	22917500	5474340.440	26	5.98	2574.75	59948.07	60191.68	2545.55	1.51	5121.80	0.02	0.04
laboratory	2	9	6.0	20	6.14	10.74	33.70	2687.03	2.15	8.94	0.15	0.79	7.15	75.59	1508481.0	14586988	12800228.000	26	6.03	2440.53	56563.15	56792.63	2684.01	1.76	5126.30	0.03	0.04
laboratory	3	10	6.0	20	6.14	10.55	33.68	2429.00	0.67	7.74	0.11	0.78	5.49	42.31	708548.0	19396072	2102866.160	26	6.03	2212.05	50944.48	51150.54	2426.36	1.58	4640.00	0.02	0.04
laboratory	4	8	6.0	20	6.15	10.67	33.70	2454.15	0.60	8.13	0.10	0.93	5.82	85.54	779443.5	14459396	2514310.560	26	6.04	2197.93	50824.14	51029.37	2451.34	1.63	4650.90	0.02	0.04
laboratory	5	10	6.0	20	6.14	10.39	33.70	2497.87	10.61	6.80	0.12	0.75	5.44	95.68	935666.0	24079878	5142909.700	26	6.03	2293.77	52556.05	52769.40	2495.22	1.61	4790.60	0.02	0.04