Fadeev, Eduard; Cardozo-Mino, Magda Guadalupe; Rapp, Josephine Z; Bienhold, Christina; Salter, Ian; Salman-Carvalho, Verena; Molari, Massimiliano; Tegetmeyer, Halina E; Buttigieg, Pier Luigi; Boetius, Antje (2021): CARD-FISH cell counts of taxonomic bacterial groups from different microbiomes in Fram Strait used to evalute primer sets [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.928720
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Abstract:
Samples in this dataset were collected at the long-term ecological research (LTER) site HAUSGARTEN in Fram Strait, and the central Arctic Ocean. On board, the samples were fixed with formalin in a final concentration of 2% for 10 – 12 hours, then filtered onto 0.2 µm polycarbonate Nucleopore Track-Etched filters, and stored at -20°C for further analysis. Cell abundances of the groups Alteromonas, Bacteroidia, Polaribacter, Gammaproteobacteria and the SAR11 clade were asses using CAtalyzed reporter deposition Fluorescence In Situ Hybridization (CARD-FISH) following the protocol established by (Pernthaler et al., 2002). The filters were evaluated microscopically under an automated microscope (Zeder et al., 2011). Cell enumeration was performed with the software Automated Cell Measuring and Enumeration Tool (ACMETool3, 2018-11-09; Zeder et al., 2011). Cells were counted as objects according to manually defined parameters separately for the DAPI and FISH channels.
Related to:
Fadeev, Eduard; Cardozo-Mino, Magda Guadalupe; Rapp, Josephine Z; Bienhold, Christina; Salter, Ian; Salman-Carvalho, Verena; Molari, Massimiliano; Tegetmeyer, Halina E; Buttigieg, Pier Luigi; Boetius, Antje (2021): Comparison of Two 16S rRNA Primers (V3–V4 and V4–V5) for Studies of Arctic Microbial Communities. Frontiers in Microbiology, 12, https://doi.org/10.3389/fmicb.2021.637526
Coverage:
Median Latitude: 79.100290 * Median Longitude: -0.049040 * South-bound Latitude: 78.615500 * West-bound Longitude: -5.409330 * North-bound Latitude: 79.972830 * East-bound Longitude: 5.029830
Date/Time Start: 2016-06-27T16:16:00 * Date/Time End: 2016-07-04T04:48:00
Minimum Elevation: -2609.9 m * Maximum Elevation: -1009.7 m
Event(s):
PS99/043-3 * Latitude: 78.615500 * Longitude: 5.029830 * Date/Time: 2016-06-27T16:16:00 * Elevation: -2355.8 m * Location: North Greenland Sea * Campaign: PS99.2 (ARK-XXX/1.2) * Basis: Polarstern * Method/Device: CTD/Rosette with Underwater Vision Profiler (CTD-RO_UVP)
PS99/048-15 (EG_IV) * Latitude: 78.822000 * Longitude: -2.725830 * Date/Time: 2016-06-30T16:45:00 * Elevation: -2606.2 m * Location: North Greenland Sea * Campaign: PS99.2 (ARK-XXX/1.2) * Basis: Polarstern * Method/Device: Ice station (ICE)
PS99/051-2 (EG_I) * Latitude: 78.990830 * Longitude: -5.409330 * Date/Time: 2016-07-02T02:29:00 * Elevation: -1009.7 m * Location: North Greenland Sea * Campaign: PS99.2 (ARK-XXX/1.2) * Basis: Polarstern * Method/Device: CTD/Rosette with Underwater Vision Profiler (CTD-RO_UVP)
Parameter(s):
| # | Name | Short Name | Unit | Principal Investigator | Method/Device | Comment |
|---|---|---|---|---|---|---|
| 1 | Event label | Event | Fadeev, Eduard | |||
| 2 | Type | Type | Fadeev, Eduard | |||
| 3 | DEPTH, ice/snow | Depth ice/snow | m | Fadeev, Eduard | Geocode | |
| 4 | DEPTH, water | Depth water | m | Fadeev, Eduard | Geocode | |
| 5 | 2-(4-Amidinophenyl)-1H-indole-6-carboxamidine | DAPI | #/ml | Fadeev, Eduard | ||
| 6 | Alteromonas, cells | Alteromonas | 103 #/ml | Fadeev, Eduard | ||
| 7 | Alteromonas | Alteromonas | % | Fadeev, Eduard | ||
| 8 | Bacteroidetes, cells | Bacteroidetes | 103 #/ml | Fadeev, Eduard | ||
| 9 | Bacteroidetes | Bacteroidetes | % | Fadeev, Eduard | ||
| 10 | Polaribacter, cells | Polaribacter cells | 105 #/ml | Fadeev, Eduard | ||
| 11 | Polaribacter | Polaribacter | % | Fadeev, Eduard | ||
| 12 | Gammaproteobacteria, cells | Gammaproteob | 103 #/ml | Fadeev, Eduard | ||
| 13 | Gammaproteobacteria | Gammaproteobacteria | % | Fadeev, Eduard | ||
| 14 | SAR11 clade | SAR11 | #/ml | Fadeev, Eduard | ||
| 15 | SAR11 clade | SAR11 | % | Fadeev, Eduard |
License:
Creative Commons Attribution 4.0 International (CC-BY-4.0)
Size:
48 data points