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Santoro, Mariano; Hassenrück, Christiane; Labrenz, Matthias; Hagemann, Martin (2022): Experimental phosphate limitation in Nodularia spumigena CCY9414 [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.951078

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Published: 2022-11-18DOI registered: 2023-01-17

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Abstract:
Nodularia spumigena is a toxic, filamentous cyanobacterium capable to fix atmospheric nitrogen, which is often dominating cyanobacterial bloom events in the Baltic Sea and other aquatic systems worldwide. Phosphate (P) limitation has been considered as one environmental parameter that is somehow promoting the establishment of cyanobacterial mass developments. In the present study, we analyzed the response of Nodularia spumigena strain CCY9914 towards strong phosphorus limitation in an experimental approach. Pre-experimental and experimental incubations were performed at the Department of Plant Physiology (University of Rostock, Germany). Specifically, cultures were incubated under P-replete and P-deplete conditions for 21 days. The P-replete medium was composed as follows: 33% ASNIII and 67% BG11 medium mixture (as described by Hagemann et al., 2019), with 0.02 g L-1 K2HPO4 in the modified ASNIII (Rippka et al., 1979) and 0.00078 mg L-1 K2HPO4 in BG11 medium modified with 20 mM TES buffer to pH 8 (Rippka et al., 1979). Conversely, the P-deplete medium did not contain any additional P. Samples were collected after 3 hours (day 0), 7, 14 and 21 days from the start of the experiment to assess the variation of the following physiological parameters: biomass increase estimated by dry weight measurements and polyphosphate accumulation measured according to Martin et al. (2014). Additionally, ortho-phosphate and ammonium concentrations were measured in the medium to assess nutrient conditions during the course of the experiment. The experiment was repeated two times. During the second iteration of the experiment, samples from d7 and d14 were used for differential gene expression analysis (RNA-seq data available on Gene Expression Omnibus (GEO) accession GSE213384).
Keyword(s):
bloom; cyanobacteria; Experiment; gene expression; Nodularia spumigena; phosphate limitation; polyphosphate
Supplement to:
Santoro, Mariano; Hassenrück, Christiane; Labrenz, Matthias; Hagemann, Martin (2023): Acclimation of Nodularia spumigena CCY9414 to inorganic phosphate limitation – Identification of the P-limitation stimulon via RNA-seq. Frontiers in Microbiology, 13, 1082763, https://doi.org/10.3389/fmicb.2022.1082763
Further details:
Hagemann, Martin; Möke, F; Springer, A; Westermann, L; Frank, Markus; Wasmund, Norbert; Bauwe, Hermann (2019): Cyanobacterium Nodularia spumigena strain CCY9414 accumulates polyphosphate under long-term P-limiting conditions. Aquatic Microbial Ecology, 82(3), 265-274, https://doi.org/10.3354/ame01896
Martin, Patrick; Dyhrman, Sonya T; Lomas, Michael W; Van Mooy, Benjamin A S (2014): Accumulation and enhanced cycling of polyphosphate by Sargasso Sea plankton in response to low phosphorus. Proceedings of the National Academy of Sciences of the United States of America, 111(22), 8089-8094, https://doi.org/10.1073/pnas.1321719111
Stanier, Roger Y; Deruelles, Josette; Rippka, Rosmarie; Herdman, Michael; Waterbury, John B (1979): Generic Assignments, Strain Histories and Properties of Pure Cultures of Cyanobacteria. Microbiology, 111(1), 1-61, https://doi.org/10.1099/00221287-111-1-1
Funding:
Leibniz-Wissenschafts Campus Phosphorforschung Rostock, grant/award no. W19/2018: P.IV.3 - Cyanobloom
Comment:
The study has been funded by the Leibniz Science Campus Phosphorus Research Rostock with additional financial support from the University of Rostock and the Leibniz-Institut für Ostseeforschung Warnemünde (IOW).
Parameter(s):
#NameShort NameUnitPrincipal InvestigatorMethod/DeviceComment
ExperimentExpSantoro, Mariano
Sampling date/time, experimentDate/time sampling expSantoro, Mariano
Sample IDSample IDSantoro, Mariano
Type of studyStudy typeSantoro, Mariano
LaboratoryLabSantoro, Mariano
SpeciesSpeciesSantoro, Mariano
Species, unique identificationSpecies UIDSantoro, Mariano
Species, unique identification (URI)Species UID (URI)Santoro, Mariano
Species, unique identification (Semantic URI)Species UID (Semantic URI)Santoro, Mariano
10 StrainStrainSantoro, Mariano
11 Treatment: temperatureT:temp°CSantoro, Mariano
12 Treatment: light:dark cycleT:L:Dhh:hhSantoro, Mariano
13 Treatment: light intensityT:Ioµmol/m2/sSantoro, Mariano
14 Treatment: nutrientsT:nutrientsSantoro, MarianoPhosphate conditions
15 Time in daysTime ddaysSantoro, MarianoSampling time relative to the start of the experiment
16 SalinitySalSantoro, Mariano
17 Phosphate[PO4]3-µmol/lSantoro, MarianoContinuous Segmented Flow Analyzer, SEAL Analytical, QuAAtro39In medium
18 Ammonium[NH4]+µmol/lSantoro, MarianoContinuous Segmented Flow Analyzer, SEAL Analytical, QuAAtro39In medium
19 Nodularia spumigena, biomass as dry weightN. spumigena biomg/mLSantoro, Mariano
20 Polyphosphate/biomass as dry weight ratioPolyP/biomµmol/gSantoro, MarianoPlate reader,TECAN, Infinite F200 PRO
21 Accession number, geneticsAccess no genSantoro, Mariano
Change history:
2025-11-18T09:51:22 – Link to culture collection with accession number=ULC 200421 no longer available, was deleted.
Status:
Curation Level: Enhanced curation (CurationLevelC)
Size:
826 data points

Data

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


Exp

Date/time sampling exp

Sample ID

Study type

Lab

Species

Species UID

Species UID (URI)

Species UID (Semantic URI)
10 
Strain
11 
T:temp [°C]
12 
T:L:D [hh:hh]
13 
T:Io [µmol/m2/s]
14 
T:nutrients
15 
Time d [days]
16 
Sal
17 
[PO4]3- [µmol/l]
18 
[NH4]+ [µmol/l]
19 
N. spumigena biom [g/mL]
20 
PolyP/biom [µmol/g]
21 
Access no gen
Exp12019-11-27T0_minus_P1laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete010.30.2212.058
Exp12019-11-27T0_minus_P2laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete010.30.3221.805
Exp12019-11-27T0_minus_P3laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete010.30.3042.642
Exp12019-11-27T0_plus_P1laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete010.30.2561.982
Exp12019-11-27T0_plus_P2laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete010.30.253
Exp12019-11-27T0_plus_P3laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete010.30.270
Exp12019-12-04T7_minus_P1laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete710.30.3911.166
Exp12019-12-04T7_minus_P2laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete710.30.4760.296
Exp12019-12-04T7_minus_P3laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete710.30.4391.462
Exp12019-12-04T7_plus_P1laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete710.30.5301.414
Exp12019-12-04T7_plus_P2laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete710.30.5672.626
Exp12019-12-04T7_plus_P3laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete710.30.5661.487
Exp12019-12-11T14_minus_P1laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete1410.30.5431.928
Exp12019-12-11T14_minus_P2laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete1410.30.4171.716
Exp12019-12-11T14_minus_P3laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete1410.30.4221.987
Exp12019-12-11T14_plus_P1laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete1410.30.7291.068
Exp12019-12-11T14_plus_P2laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete1410.30.6541.321
Exp12019-12-11T14_plus_P3laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete1410.30.6471.328
Exp12019-12-18T21_minus_P1laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete2110.30.7811.898
Exp12019-12-18T21_minus_P2laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete2110.30.7531.910
Exp12019-12-18T21_minus_P3laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete2110.30.7681.837
Exp12019-12-18T21_plus_P1laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete2110.31.0201.120
Exp12019-12-18T21_plus_P2laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete2110.31.0391.095
Exp12019-12-18T21_plus_P3laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete2110.30.9910.717
Exp22020-03-23T0_minus_P1laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete010.30.92102.830.3533.054
Exp22020-03-23T0_minus_P2laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete010.30.5789.400.3303.054
Exp22020-03-23T0_minus_P3laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete010.30.2491.930.2602.659
Exp22020-03-23T0_plus_P1laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete010.3158.2084.800.3631.904
Exp22020-03-23T0_plus_P2laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete010.3177.6078.130.4272.208
Exp22020-03-23T0_plus_P3laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete010.3178.1096.100.3082.314
Exp22020-03-30T7_minus_P1laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete710.30.6887.680.3944.309insdc:GSM6585389
Exp22020-03-30T7_minus_P2laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete710.30.33102.700.3913.513insdc:GSM6585390
Exp22020-03-30T7_minus_P3laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete710.30.24101.900.3803.976insdc:GSM6585391
Exp22020-03-30T7_plus_P1laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete710.392.5388.650.5501.042insdc:GSM6585392
Exp22020-03-30T7_plus_P2laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete710.384.4375.680.4180.673insdc:GSM6585393
Exp22020-03-30T7_plus_P3laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete710.371.5567.550.4400.428insdc:GSM6585394
Exp22020-04-06T14_minus_P1laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete1410.31.10102.300.4803.052insdc:GSM6585395
Exp22020-04-06T14_minus_P2laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete1410.30.50103.700.5513.759insdc:GSM6585396
Exp22020-04-06T14_minus_P3laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete1410.30.2879.780.5172.690insdc:GSM6585397
Exp22020-04-06T14_plus_P1laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete1410.30.3774.280.6160.496insdc:GSM6585398
Exp22020-04-06T14_plus_P2laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete1410.30.12103.600.6050.286insdc:GSM6585399
Exp22020-04-06T14_plus_P3laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete1410.30.12111.800.6870.780insdc:GSM6585400
Exp22020-04-13T21_minus_P1laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete2110.30.43123.900.6783.800
Exp22020-04-13T21_minus_P2laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete2110.30.2998.730.7412.228
Exp22020-04-13T21_minus_P3laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-deplete2110.30.35123.600.7202.786
Exp22020-04-13T21_plus_P1laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete2110.30.91131.200.8760.392
Exp22020-04-13T21_plus_P2laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete2110.30.41113.200.7640.421
Exp22020-04-13T21_plus_P3laboratory experimentUniversity of Rostock, Faculty of Biosciences, Rostock, GermanyNodularia spumigena CCY9414Nodularia spumigenamarinespecies.orgurn:lsid:marinespecies.org:taxname:160566CCY94142016:840P-replete2110.30.1969.980.8380.722