Microbial community in the sediment of the arctic Smeerenburgfjorden ...

Fluorescence in situ hybridization (FISH) with 16S rRNA-targeted oligonucleotide probes were used to investigate the phylogenetic composition of a marine Arctic sediment (Svalbard). Hybridization and microscopy counts of hybridized and 4',6'-diamidino-2-phenylindole (DAPI)-stained cells we...

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Bibliographic Details
Main Authors: Ravenschlag, Katrin, Sahm, Kerstin, Amann, Rudolf
Format: Dataset
Language:English
Published: PANGAEA 2016
Subjects:
Event label
Latitude of event
Longitude of event
DEPTH, sediment/rock
Prokaryotes, abundance as single cells
Bacteria, targeted with EUB338 l oligonucleotides FISH-probe
Archaea, targed with ARCH915 oligonucleotide FISH-probe
Cytophaga-Flavobacterium cluster, targeted with CF319a oligonucleotide FISH-probe
Gammaproteobacteria, targeted with Gam42a oligonucleotide FISH-probe
Gammaproteobacteria, targeted with GAM660 oligonucleotide FISH-probe
Planctomycetales, targeted with PLA886 oligonucleotide FISH-probe
Core
Epifluorescence microscopy after DAPI staining
Fluorescence in situ hybridization FISH
Smeerenburgfjord*
Svalbard
Online Access:https://dx.doi.org/10.1594/pangaea.858461
https://doi.pangaea.de/10.1594/PANGAEA.858461
Description
Summary:Fluorescence in situ hybridization (FISH) with 16S rRNA-targeted oligonucleotide probes were used to investigate the phylogenetic composition of a marine Arctic sediment (Svalbard). Hybridization and microscopy counts of hybridized and 4',6'-diamidino-2-phenylindole (DAPI)-stained cells were performed as described previously from Snaidr et al. (1997, http://aem.asm.org/content/63/7/2884.full.pdf). Means were calculated from 10 to 20 randomly chosen fields on each filter section, corresponding to 800 to 1,000 DAPI-stained cells. Counting results were always corrected by subtracting signals observed with the probe NON338. Formamide concentrations are given in further details. FISH resulted in the detection of a large fraction of microbes living in the top 5 cm of the sediment. Up to 65.4% ± 7.5% of total DAPI cell counts hybridized to the bacterial probe EUB338, and up to 4.9% ± 1.5% hybridized to the archaeal probe ARCH915. Besides delta-proteobacterial sulfate-reducing bacteria (up to 16% 52) members of the ... : Supplement to: Ravenschlag, Katrin; Sahm, Kerstin; Amann, Rudolf (2001): Quantitative molecular analysis of the microbial community in marine arctic sediments (Svalbard). Applied and Environmental Microbiology, 67(1), 387-395 ...

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