CARD-FISH cell counts of taxonomic bacterial groups from different microbiomes in Fram Strait used to evalute primer sets
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-E...
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2021
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Online Access: | https://doi.pangaea.de/10.1594/PANGAEA.928720 https://doi.org/10.1594/PANGAEA.928720 |
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ftpangaea:oai:pangaea.de:doi:10.1594/PANGAEA.928720 2023-05-15T14:26:50+02:00 CARD-FISH cell counts of taxonomic bacterial groups from different microbiomes in Fram Strait used to evalute primer sets 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 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 2021-03-03 text/tab-separated-values, 48 data points https://doi.pangaea.de/10.1594/PANGAEA.928720 https://doi.org/10.1594/PANGAEA.928720 en eng PANGAEA 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 https://doi.pangaea.de/10.1594/PANGAEA.928720 https://doi.org/10.1594/PANGAEA.928720 CC-BY-4.0: Creative Commons Attribution 4.0 International Access constraints: unrestricted info:eu-repo/semantics/openAccess CC-BY 2-(4-Amidinophenyl)-1H-indole-6-carboxamidine Alteromonas cells ARK-XXX/1.2 Bacteroidetes CARD-FISH cell counts CTD/Rosette with Underwater Vision Profiler CTD-RO_UVP DEPTH ice/snow water EG_I EG_IV Event label Fram Strait Gammaproteobacteria Giant box corer GKG ICE Ice station North Greenland Sea Polaribacter Polarstern PS99/043-3 PS99/048-15 PS99/051-2 PS99/053-8 PS99.2 SAR11 clade Type Dataset 2021 ftpangaea https://doi.org/10.1594/PANGAEA.928720 https://doi.org/10.3389/fmicb.2021.637526 2023-01-20T09:14:34Z 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. Dataset Arctic Arctic Arctic Ocean Fram Strait Greenland Greenland Sea North Greenland PANGAEA - Data Publisher for Earth & Environmental Science Arctic Arctic Ocean Greenland ENVELOPE(-5.409330,5.029830,79.972830,78.615500) |
institution |
Open Polar |
collection |
PANGAEA - Data Publisher for Earth & Environmental Science |
op_collection_id |
ftpangaea |
language |
English |
topic |
2-(4-Amidinophenyl)-1H-indole-6-carboxamidine Alteromonas cells ARK-XXX/1.2 Bacteroidetes CARD-FISH cell counts CTD/Rosette with Underwater Vision Profiler CTD-RO_UVP DEPTH ice/snow water EG_I EG_IV Event label Fram Strait Gammaproteobacteria Giant box corer GKG ICE Ice station North Greenland Sea Polaribacter Polarstern PS99/043-3 PS99/048-15 PS99/051-2 PS99/053-8 PS99.2 SAR11 clade Type |
spellingShingle |
2-(4-Amidinophenyl)-1H-indole-6-carboxamidine Alteromonas cells ARK-XXX/1.2 Bacteroidetes CARD-FISH cell counts CTD/Rosette with Underwater Vision Profiler CTD-RO_UVP DEPTH ice/snow water EG_I EG_IV Event label Fram Strait Gammaproteobacteria Giant box corer GKG ICE Ice station North Greenland Sea Polaribacter Polarstern PS99/043-3 PS99/048-15 PS99/051-2 PS99/053-8 PS99.2 SAR11 clade Type 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 CARD-FISH cell counts of taxonomic bacterial groups from different microbiomes in Fram Strait used to evalute primer sets |
topic_facet |
2-(4-Amidinophenyl)-1H-indole-6-carboxamidine Alteromonas cells ARK-XXX/1.2 Bacteroidetes CARD-FISH cell counts CTD/Rosette with Underwater Vision Profiler CTD-RO_UVP DEPTH ice/snow water EG_I EG_IV Event label Fram Strait Gammaproteobacteria Giant box corer GKG ICE Ice station North Greenland Sea Polaribacter Polarstern PS99/043-3 PS99/048-15 PS99/051-2 PS99/053-8 PS99.2 SAR11 clade Type |
description |
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. |
format |
Dataset |
author |
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 |
author_facet |
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 |
author_sort |
Fadeev, Eduard |
title |
CARD-FISH cell counts of taxonomic bacterial groups from different microbiomes in Fram Strait used to evalute primer sets |
title_short |
CARD-FISH cell counts of taxonomic bacterial groups from different microbiomes in Fram Strait used to evalute primer sets |
title_full |
CARD-FISH cell counts of taxonomic bacterial groups from different microbiomes in Fram Strait used to evalute primer sets |
title_fullStr |
CARD-FISH cell counts of taxonomic bacterial groups from different microbiomes in Fram Strait used to evalute primer sets |
title_full_unstemmed |
CARD-FISH cell counts of taxonomic bacterial groups from different microbiomes in Fram Strait used to evalute primer sets |
title_sort |
card-fish cell counts of taxonomic bacterial groups from different microbiomes in fram strait used to evalute primer sets |
publisher |
PANGAEA |
publishDate |
2021 |
url |
https://doi.pangaea.de/10.1594/PANGAEA.928720 https://doi.org/10.1594/PANGAEA.928720 |
op_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 |
long_lat |
ENVELOPE(-5.409330,5.029830,79.972830,78.615500) |
geographic |
Arctic Arctic Ocean Greenland |
geographic_facet |
Arctic Arctic Ocean Greenland |
genre |
Arctic Arctic Arctic Ocean Fram Strait Greenland Greenland Sea North Greenland |
genre_facet |
Arctic Arctic Arctic Ocean Fram Strait Greenland Greenland Sea North Greenland |
op_relation |
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 https://doi.pangaea.de/10.1594/PANGAEA.928720 https://doi.org/10.1594/PANGAEA.928720 |
op_rights |
CC-BY-4.0: Creative Commons Attribution 4.0 International Access constraints: unrestricted info:eu-repo/semantics/openAccess |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.1594/PANGAEA.928720 https://doi.org/10.3389/fmicb.2021.637526 |
_version_ |
1766300279262674944 |