Data Description

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Citation:
Musat, N et al. (2016): Microbial community composition of sandy intertidal sediments of Sylt-Rømø Basin, Wadden Sea. doi:10.1594/PANGAEA.858490,
Supplement to: Musat, Niculina; Werner, Ursula; Knittel, Katrin; Kolb, Steffen; Dodenhof, Tanja; van Beusekom, Justus; de Beer, Dirk; Dubilier, Nicole; Amann, Rudolf (2006): Microbial community structure of sandy intertidal sediments in the North Sea, Sylt-Rømø Basin, Wadden Sea. Systematic and Applied Microbiology, 29(4), 333-348, doi:10.1016/j.syapm.2005.12.006
Abstract:
Molecular biological methods were used to investigate the microbial diversity and community structure in intertidal sandy sediments near the island of Sylt (Wadden Sea) at a site which was characterized for transport and mineralization rates in de Beer et al., (2005, hdl:10013/epic.21375). The sampling was performed during low tide in the middle of the flat, approximately 40 m in the offshore direction from the high water line on October 6, 1999, March 7, 2000, and July 5, 2000. Two parallel cores were collected from each season for molecular analyses. Within 2 h after sampling the sediment cores were sub-sampled and fixed in formaldehyde for FISH analysis. The cells were hybridized, stained with 4',6'-diamidino-2-phenylindole (DAPI) and microscopically counted as described previously [55]. Details of probes and formamide concentrations which were used are shown in further details. Counts are reported as means calculated from 10-15 randomly chosen microscopic fields corresponding to 700-1000 DAPI-stained cells. Values were corrected for the signals counted with the probe NON338. Fluorescence in situ hybridization (FISH)with group-specific rRNA-targeted oligonucleotide probes were used to characterize the microbial community structure over depth (0-12 cm) and seasons (March, July, October). We found high abundances of bacteria with total cell numbers up to 3×109 cells ml-1 and a clear seasonal variation, with higher values in July and October versus March. The microbial community was dominated by members of the Planctomycetes, the Cytophaga/Flavobacterium group, Gammaproteobacteria, and bacteria of the Desulfosarcina/Desulfococcus group. The high abundance (1.5×10**7 - 1.8×10**8 cells/ml accounting for 3-19% of all cells) of presumably aerobic heterotrophic polymer-degrading planctomycetes is in line with the high permeability, deep oxygen penetration, and the high rates of aerobic mineralization of algal biomass measured in the sandy sediments by de Beer et al., (2005, hdl:10013/epic.21375). The high and stable abundance of members of the Desulfosarcina/Desulfococcus group, both over depth and season, suggests that these bacteria may play a more important role than previously assumed based on low sulfate reduction rates in parallel cores de Beer et al., (2005).
Further details:
Coverage:
Latitude: 55.033330 * Longitude: 8.433330
Date/Time Start: 1999-06-22T00:00:00 * Date/Time End: 2000-07-05T00:00:00
Minimum DEPTH, sediment/rock: 0.5 m * Maximum DEPTH, sediment/rock: 11.5 m
Event(s):
WaddenSea_Sylt-03-2000 * * Latitude: 55.033330 * Longitude: 8.433330 * Date/Time: 2000-03-07T00:00:00 * Location: Wadden Sea, North Sea, Germany * * Device: Core (CORE) *
WaddenSea_Sylt-06-1999 * * Latitude: 55.033330 * Longitude: 8.433330 * Date/Time: 1999-06-22T00:00:00 * Location: Wadden Sea, North Sea, Germany * * Device: Core (CORE) *
WaddenSea_Sylt-07-2000 * * Latitude: 55.033330 * Longitude: 8.433330 * Date/Time: 2000-07-05T00:00:00 * Location: Wadden Sea, North Sea, Germany * * Device: Core (CORE) *
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Parameter(s):
#NameShort NameUnitPrincipal InvestigatorMethodComment
1Event label *EventMusat, Niculina *
2Date/Time of event *Date/TimeMusat, Niculina *
3Latitude of event *LatitudeMusat, Niculina *
4Longitude of event *LongitudeMusat, Niculina *
5DEPTH, sediment/rock *DepthmMusat, Niculina *Geocode
6Prokaryotes, number of cell *Prok cell abund109 #/mlMusat, Niculina *Epifluorescence microscopy after DAPI staining *Core A
7Prokaryotes, number of cell *Prok cell abund109 #/mlMusat, Niculina *Epifluorescence microscopy after DAPI staining *Core B
8Bacteria, targed with EUB338-l oligonucleotides FISH-probe *EUB338%Musat, Niculina *Fluorescence in situ hybridization (FISH) *Core A
9Bacteria, targed with EUB338-l oligonucleotides FISH-probe *EUB338%Musat, Niculina *Fluorescence in situ hybridization (FISH) *Core B
10Gamma-Proteobacteria, targed with Gam42a oligonucleotide FISH-probe *Gam42a%Musat, Niculina *Fluorescence in situ hybridization (FISH) *Core A
11Gamma-Proteobacteria, targed with Gam42a oligonucleotide FISH-probe *Gam42a%Musat, Niculina *Fluorescence in situ hybridization (FISH) *Core B
12Planctomycetales, targed with PLA886 oligonucleotide FISH-probe *PLA886%Musat, Niculina *Fluorescence in situ hybridization (FISH) *Core A
13Planctomycetales, targed with PLA886 oligonucleotide FISH-probe *PLA886%Musat, Niculina *Fluorescence in situ hybridization (FISH) *Core B
14Cytophaga-Flavobacterium cluster, targed with CF319a oligonucleotide FISH-probe *CF319a%Musat, Niculina *Fluorescence in situ hybridization (FISH) *Core A
15Cytophaga-Flavobacterium cluster, targed with CF319a oligonucleotide FISH-probe *CF319a%Musat, Niculina *Fluorescence in situ hybridization (FISH) *Core B
16Desulfusarcina/Desulfococcus, targed with DSS658 oligonucleotide FISH-probe *DSS658%Musat, Niculina *Fluorescence in situ hybridization (FISH) *Core A
17Desulfusarcina/Desulfococcus, targed with DSS658 oligonucleotide FISH-probe *DSS658%Musat, Niculina *Fluorescence in situ hybridization (FISH) *Core B
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Size:
362 data points

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