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Flores-Higuera, Francisco A; Wördenweber, Robin; Luis-Villaseñor, Irasema E; Rochin-Arenas, Jesús A; Gómez-Gil, Bruno; Mazón-Suástegui, José Manuel; Voltolina, D (2019): Seawater carbonate chemistry and the bacterial community present in larvae and spat of Crassostrea gigas [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.913332

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Abstract:
Changes in marine environments, including pH changes, have been correlated to alterations in the physiology and disease susceptibility of cultured organisms at the early stages of development. In this study, high-throughput sequencing of the V3-V4 region of the 16S rRNA gene was performed to evaluate the bacterial
biodiversity of Crassostrea gigas pediveliger larvae and spat under acidic stress compared to that of larvae at normal pH value. The evaluation was performed in an experimental system with continuous water flow and pH
manipulation by CO2 bubbling to simulate acidification (pH 7.38 ± 0.039), using the current ocean pH conditions (pH 8.116 ± 0.023) as a reference. The results indicated that the bacterial communities associated with both pediveliger larvae and spat were modified in response to acidic conditions. The families Rhodobacteraceae and Campylobacteraceae were the most affected by the change in pH, with increases in Vibrionaceae in pediveliger larvae and Planctomycetaceae and Phyllobacteriaceae in spat detected. The results of this study demonstrate that the bacterial communities associated with C. gigas pediveliger larvae and spat are responsive to changes in ocean acidification
Keyword(s):
Animalia; Bottles or small containers/Aquaria (<20 L); Community composition and diversity; Crassostrea gigas; Entire community; Laboratory experiment; Mollusca; Not applicable; Pelagos; Single species; Zooplankton
Supplement to:
Flores-Higuera, Francisco A; Luis-Villaseñor, Irasema E; Rochin-Arenas, Jesús A; Gómez-Gil, Bruno; Mazón-Suástegui, José Manuel; Voltolina, Domenico; Medina-Hernández, Diana (2019): Effect of pH on the bacterial community present in larvae and spat of Crassostrea gigas. Latin American Journal of Aquatic Research, 47(3), 513-523, https://doi.org/10.3856/vol47-issue3-fulltext-13
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
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 2020-03-06.
Parameter(s):
#NameShort NameUnitPrincipal InvestigatorMethod/DeviceComment
TypeTypeLuis-Villaseñor, Irasema Estudy
SpeciesSpeciesLuis-Villaseñor, Irasema E
Registration number of speciesReg spec noLuis-Villaseñor, Irasema E
Uniform resource locator/link to referenceURL refLuis-Villaseñor, Irasema EWoRMS Aphia ID
Life stageLife stageLuis-Villaseñor, Irasema E
TreatmentTreatLuis-Villaseñor, Irasema E
Experiment durationExp durationhLuis-Villaseñor, Irasema E
Shannon Diversity IndexH'Luis-Villaseñor, Irasema E
Shannon Diversity Index, standard deviationH' std dev±Luis-Villaseñor, Irasema E
10 Evenness of speciesELuis-Villaseñor, Irasema E
11 Evenness of species, standard deviationE std dev±Luis-Villaseñor, Irasema E
12 Simpson index of diversitySimpson ILuis-Villaseñor, Irasema E
13 Simpson index of diversity, standard deviationSimpsons I std dev±Luis-Villaseñor, Irasema E
14 Temperature, waterTemp°CLuis-Villaseñor, Irasema E
15 Temperature, water, standard deviationTemp std dev±Luis-Villaseñor, Irasema E
16 SalinitySalLuis-Villaseñor, Irasema E
17 Salinity, standard deviationSal std dev±Luis-Villaseñor, Irasema E
18 pHpHLuis-Villaseñor, Irasema Etotal scale
19 pH, standard deviationpH std dev±Luis-Villaseñor, Irasema Etotal scale
20 Alkalinity, totalATµmol/kgLuis-Villaseñor, Irasema E
21 Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)pCO2water_SST_wetµatmLuis-Villaseñor, Irasema E
22 Partial pressure of carbon dioxide, standard deviationpCO2 std dev±Luis-Villaseñor, Irasema E
23 Bicarbonate ion[HCO3]-µmol/kgLuis-Villaseñor, Irasema E
24 Bicarbonate ion, standard deviation[HCO3]- std dev±Luis-Villaseñor, Irasema E
25 Carbonate ion[CO3]2-µmol/kgLuis-Villaseñor, Irasema E
26 Carbonate ion, standard deviation[CO3]2- std dev±Luis-Villaseñor, Irasema E
27 Calcite saturation stateOmega CalLuis-Villaseñor, Irasema E
28 Calcite saturation state, standard deviationOmega Cal std dev±Luis-Villaseñor, Irasema E
29 Aragonite saturation stateOmega ArgLuis-Villaseñor, Irasema E
30 Aragonite saturation state, standard deviationOmega Arg std dev±Luis-Villaseñor, Irasema E
31 Carbonate system computation flagCSC flagYang, YanCalculated using seacarb after Nisumaa et al. (2010)
32 Carbon dioxideCO2µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
33 Fugacity of carbon dioxide (water) at sea surface temperature (wet air)fCO2water_SST_wetµatmYang, YanCalculated using seacarb after Nisumaa et al. (2010)
34 Partial pressure of carbon dioxide (water) at sea surface temperature (wet air)pCO2water_SST_wetµatmYang, YanCalculated using seacarb after Nisumaa et al. (2010)
35 Bicarbonate ion[HCO3]-µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
36 Carbonate ion[CO3]2-µmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
37 Carbon, inorganic, dissolvedDICµmol/kgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
38 Aragonite saturation stateOmega ArgYang, YanCalculated using seacarb after Nisumaa et al. (2010)
39 Calcite saturation stateOmega CalYang, YanCalculated using seacarb after Nisumaa et al. (2010)
Status:
Curation Level: Enhanced curation (CurationLevelC)
Size:
384 data points

Data

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


Type
(study)

Species

Reg spec no

URL ref
(WoRMS Aphia ID)

Life stage

Treat

Exp duration [h]

H'

H' std dev [±]
10 
E
11 
E std dev [±]
12 
Simpson I
13 
Simpsons I std dev [±]
14 
Temp [°C]
15 
Temp std dev [±]
16 
Sal
17 
Sal std dev [±]
18 
pH
(total scale)
19 
pH std dev [±]
(total scale)
20 
AT [µmol/kg]
21 
pCO2water_SST_wet [µatm]
22 
pCO2 std dev [±]
23 
[HCO3]- [µmol/kg]
24 
[HCO3]- std dev [±]
25 
[CO3]2- [µmol/kg]
26 
[CO3]2- std dev [±]
27 
Omega Cal
28 
Omega Cal std dev [±]
29 
Omega Arg
30 
Omega Arg std dev [±]
31 
CSC flag
32 
CO2 [µmol/kg]
33 
fCO2water_SST_wet [µatm]
34 
pCO2water_SST_wet [µatm]
35 
[HCO3]- [µmol/kg]
36 
[CO3]2- [µmol/kg]
37 
DIC [µmol/kg]
38 
Omega Arg
39 
Omega Cal
laboratoryCrassostrea gigas (mollusk)140656marinespecies.orgPediveliger larvaeLow pH04.050.120.96251400.87.3840.42008.491864.46234.01865.2912.8755.965.421.2900.130.8530.09852.501897.921904.001868.9554.531975.980.831.26
laboratoryCrassostrea gigas (mollusk)140656marinespecies.orgPediveliger larvaeLow pH183.850.220.070.020.930.02251400.87.3840.42008.491864.46234.01865.2912.8755.965.421.2900.130.8530.09852.501897.921904.001868.9554.531975.980.831.26
laboratoryCrassostrea gigas (mollusk)140656marinespecies.orgPediveliger larvaeControl183.480.150.050.010.910.01251400.88.1100.22030.42263.9024.11432.4511.56231.8622.155.3430.523.5360.3487.65276.70277.581449.85225.081682.593.435.19
laboratoryCrassostrea gigas (mollusk)140656marinespecies.orgPediveliger larvaeLow pH484.710.390.110.020.970.02251400.87.3840.42008.491864.46234.01865.2912.8755.965.421.2900.130.8530.09852.501897.921904.001868.9554.531975.980.831.26
laboratoryCrassostrea gigas (mollusk)140656marinespecies.orgPediveliger larvaeControl484.610.140.110.010.970.01251400.88.1100.22030.42263.9024.11432.4511.56231.8622.155.3430.523.5360.3487.65276.70277.581449.85225.081682.593.435.19
laboratoryCrassostrea gigas (mollusk)140656marinespecies.orgSpatLow pH04.490.080.97251400.87.3840.42008.491864.46234.01865.2912.8755.965.421.2900.130.8530.09852.501897.921904.001868.9554.531975.980.831.26
laboratoryCrassostrea gigas (mollusk)140656marinespecies.orgSpatLow pH183.790.410.060.010.900.03251400.87.3840.42008.491864.46234.01865.2912.8755.965.421.2900.130.8530.09852.501897.921904.001868.9554.531975.980.831.26
laboratoryCrassostrea gigas (mollusk)140656marinespecies.orgSpatControl184.380.330.070.010.950.02251400.88.1100.22030.42263.9024.11432.4511.56231.8622.155.3430.523.5360.3487.65276.70277.581449.85225.081682.593.435.19
laboratoryCrassostrea gigas (mollusk)140656marinespecies.orgSpatLow pH483.980.650.140.140.930.05251400.87.3840.42008.491864.46234.01865.2912.8755.965.421.2900.130.8530.09852.501897.921904.001868.9554.531975.980.831.26
laboratoryCrassostrea gigas (mollusk)140656marinespecies.orgSpatControl484.930.100.130.010.980.00251400.88.1100.22030.42263.9024.11432.4511.56231.8622.155.3430.523.5360.3487.65276.70277.581449.85225.081682.593.435.19