CARD-FISH cell counts of taxonomic bacterial groups from different microbiomes in Fram Strait used to evalute primer sets

DOI

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.

Identifier
DOI https://doi.org/10.1594/PANGAEA.928720
Related Identifier https://doi.org/10.3389/fmicb.2021.637526
Metadata Access https://ws.pangaea.de/oai/provider?verb=GetRecord&metadataPrefix=datacite4&identifier=oai:pangaea.de:doi:10.1594/PANGAEA.928720
Provenance
Creator Fadeev, Eduard ORCID logo; Cardozo-Mino, Magda Guadalupe (ORCID: 0000-0002-8888-735X); Rapp, Josephine Z ORCID logo; Bienhold, Christina ORCID logo; Salter, Ian ORCID logo; Salman-Carvalho, Verena; Molari, Massimiliano ORCID logo; Tegetmeyer, Halina E ORCID logo; Buttigieg, Pier Luigi ORCID logo; Boetius, Antje ORCID logo
Publisher PANGAEA
Publication Year 2021
Rights Creative Commons Attribution 4.0 International; https://creativecommons.org/licenses/by/4.0/
OpenAccess true
Representation
Language English
Resource Type Dataset
Format text/tab-separated-values
Size 48 data points
Discipline Earth System Research
Spatial Coverage (-5.409W, 78.615S, 5.030E, 79.973N); North Greenland Sea
Temporal Coverage Begin 2016-06-27T16:16:00Z
Temporal Coverage End 2016-07-04T04:48:00Z