Husmann, Eva; Klaas, Christine (2023): Diatom specific growth rates based on cell concentrations and PDMPO staining [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.954982, In: Husmann, E; Klaas, C (2023): Using the silica deposition fluorescent probe PDMPO to determine growth rates of diatoms in the laboratory [dataset bundled publication]. PANGAEA, https://doi.org/10.1594/PANGAEA.954985
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Abstract:
While in culture, specific growth rate (μ) can be easily determined through cell counts (N0 and Nt). This is not the case for incubations with natural assemblages, where grazers and other processes lead to cell loss and consequently an underestimation of Nt. Incubations with [2-(4-pyridyl)-5{[4-dimethylaminoethyl-aminocarbamoyl)-methoxy]phenyl}oxazole] (PDMPO) overcomes this issue by allowing the determination of N0 (Nt=N0×e^(μt) (Eq. 1)) based on the relative proportion of PDMPO stained cells (newly divided) and unstained cell at the end of an incubation as follows: Given Nt, the total cell number of a species from a subsample at a time t after PDMPO addition. Nt=nt+nt', with nt the total number of non-(PDMPO) stained cells of the species in the same subsample (cells that did not divide yet), and nt' the total number of cells with one PDMPO stained valve (cells issued from the first division after PDMPO addition to the culture media). All things being equal, the population (N0) at the time when PDMPO was added that gave rise to Nt should be N0=nt+((nt')/2)=Nt-((nt')/2) (Eq. 2). Growth rates from cells counts were estimated using (Eq. 1), while growth rates using PDMPO were calculated from the number of non-stained (nt), half-stained (nt') and fully stained (nt'') cells using μ[d-1]=ln((nt+nt')/(nt+(nt')/2))×(1/t) (Eq. 3) or μ[d-1]=ln((nt'+nt'')/((nt')/2))×(1/t) (Eq. 4). Cells attached to each other (potentially in the final phase of division) were also considered as non-stained, half-stained and fully-stained individuals, respectively, based on the presence/absence of a PDMPO signal on the valves.
Keyword(s):
Supplement to:
Husmann, Eva; Klaas, Christine (2022): Testing the use of the silica deposition fluorescent probe PDMPO to estimate in situ growth rates of diatoms. Limnology and Oceanography-Methods, 20(9), 568-580, https://doi.org/10.1002/lom3.10505
References:
Coverage:
Median Latitude: -27.053402 * Median Longitude: 21.788440 * South-bound Latitude: -69.000000 * West-bound Longitude: 0.099790 * North-bound Latitude: 78.953000 * East-bound Longitude: 75.000000
Date/Time Start: 2018-05-10T00:00:00 * Date/Time End: 2018-12-31T12:12:00
Minimum Elevation: -4679.0 m * Maximum Elevation: -4500.0 m
Event(s):
Kongsfjorden_CC_Sed * Latitude: 78.953000 * Longitude: 11.953830 * Date/Time: 2018-05-10T00:00:00 * Location: Kongsfjorden, Spitsbergen, Arctic * Method/Device: Hand net (HN) * Comment: Collection site of Thalassiosira sp. strain CC_Sed, cultured at Alfred Wegener Institute, Helmholtz Centre for Polare and Marine Research, Bremerhaven
Prydz_Bay_CS-624 * Latitude: -69.000000 * Longitude: 75.000000 * Location: Prydz Bay * Method/Device: Hand net (HN) * Comment: Collection site of Chaetoceros simplex strain CS-624, sampled before 2008, formerly cultured by ANACC
PS117_22-6 * Latitude Start: -59.083220 * Longitude Start: 0.099790 * Latitude End: -59.083390 * Longitude End: 0.100140 * Date/Time Start: 2018-12-31T12:10:00 * Date/Time End: 2018-12-31T12:12:00 * Elevation Start: -4500.0 m * Elevation End: -4679.0 m * Location: South Atlantic Ocean * Campaign: PS117 * Basis: Polarstern * Method/Device: Hand net (HN)
Parameter(s):
| # | Name | Short Name | Unit | Principal Investigator | Method/Device | Comment |
|---|---|---|---|---|---|---|
| 1 | Event label | Event | Husmann, Eva | |||
| 2 | Type of study | Study type | Husmann, Eva | |||
| 3 | Date/time start, experiment | Date/time start exp | Husmann, Eva | |||
| 4 | Species | Species | Husmann, Eva | |||
| 5 | Taxon/taxa, unique identification | Taxa UID | Husmann, Eva | |||
| 6 | Taxon/taxa, unique identification (URI) | Taxa UID (URI) | Husmann, Eva | |||
| 7 | Taxon/taxa, unique identification (Semantic URI) | Taxa UID (Semantic URI) | Husmann, Eva | |||
| 8 | Strain | Strain | Husmann, Eva | |||
| 9 | Experimental treatment | Exp treat | Husmann, Eva | |||
| 10 | Treatment: light intensity | T:Io | µmol/m2/s | Husmann, Eva | ||
| 11 | Temperature, water | Temp | °C | Husmann, Eva | ||
| 12 | Incubation duration | Inc dur | h | Husmann, Eva | ||
| 13 | Phytoplankton growth rate, specific | Phytopl µ spec | 1/day | Husmann, Eva | Light microscopy (Utermöhl 1958) | |
| 14 | Specific growth rate, standard deviation | SGR std dev | ± | Husmann, Eva | Calculated | |
| 15 | Phytoplankton growth rate, specific | Phytopl µ spec | 1/day | Husmann, Eva | Epifluorescence microscopy | |
| 16 | Specific growth rate, standard deviation | SGR std dev | ± | Husmann, Eva | Calculated |
License:
Creative Commons Attribution 4.0 International (CC-BY-4.0)
Status:
Curation Level: Enhanced curation (CurationLevelC)
Size:
194 data points