Moncada, Chyrene; Hassenrück, Christiane; Gärdes, Astrid; Conaco, Cecilia (2019): Nitrogen and sulfur-cycling genes in sediments from a fish farming area in Bolinao, Philippines, 2017-06-10 and 2017-06-11 [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.900755, In supplement to: Moncada, C et al. (2019): Microbial community composition of sediments influenced by intensive mariculture activity. FEMS Microbiology Ecology, 95(2), https://doi.org/10.1093/femsec/fiz006
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Abstract:
Physicochemical parameters and relative abundance of selected nutrient cycling genes were measured in sediment and pore water samples taken from a fish farming area (Site S3 16◦23.097 N, 119◦55.551 E, depth 12.6m) and a control site (Site S1 16◦22.960 N, 119◦54.723 E, depth 15m) not influenced by fish farming. From each site, five pairs of cores representing five biological replicates were collected. One core from each pair was used for physicochemical analysis while the other cores were used for microbial community analysis. Samples from S1 were collected on 2017-06-10 and samples from S3 were collected the following day.
Nitrogen (bacterial ammonia monooxygenase/ amoA and nitrite reductase/ nirK) and sulfur (dissimilatory sulfate reductase/ dsrA and sulfur oxidation/ soxB) cycling genes were quantified and normalized against the abundance of the 16S rRNA gene.
Project(s):
Funding:
Leibniz Association (Leibniz Association), grant/award no. SAW-2015-ZMT-4: Aquaculture practice in tropical coastal ecosystems - understanding ecological and socio-economic consequences
Coverage:
Median Latitude: 16.383810 * Median Longitude: 119.918925 * South-bound Latitude: 16.382670 * West-bound Longitude: 119.912000 * North-bound Latitude: 16.384950 * East-bound Longitude: 119.925850
Date/Time Start: 2017-06-10T00:00:00 * Date/Time End: 2017-06-11T00:00:00
Minimum Elevation: -15.0 m * Maximum Elevation: -12.6 m
Event(s):
Guiguiwanen_channel_S1 (OC; off cage site) * Latitude: 16.382670 * Longitude: 119.912000 * Date/Time Start: 2017-06-10T00:00:00 * Date/Time End: 2017-06-11T00:00:00 * Elevation: -15.0 m * Location: Philippines * Method/Device: Diver-held corer (DHC) * Comment: Five pairs of cores representing five biological replicates were collected in a 5 × 5 m square pattern with four pairs of cores at the corners and one pair in the middle
Guiguiwanen_channel_S3 (FC; fish cage) * Latitude: 16.384950 * Longitude: 119.925850 * Date/Time Start: 2017-06-10T00:00:00 * Date/Time End: 2017-06-11T00:00:00 * Elevation: -12.6 m * Location: Philippines * Method/Device: Diver-held corer (DHC) * Comment: Five pairs of cores representing five biological replicates were collected in a 5 × 5 m square pattern with four pairs of cores at the corners and one pair in the middle
Comment:
Note: in the publication, S1 is referred to as the off cage site or site OC, while S3 is referred to as the fish cage site or site FC
Parameter(s):
| # | Name | Short Name | Unit | Principal Investigator | Method/Device | Comment |
|---|---|---|---|---|---|---|
| 1 | Event label | Event | Moncada, Chyrene | |||
| 2 | Site | Site | Moncada, Chyrene | |||
| 3 | Core | Core | Moncada, Chyrene | |||
| 4 | Nitrite reductase, nirK gene, relative abundance | nirK | Moncada, Chyrene | Extraction: Mobio DNA Isolation Kit (Mo Bio Laboratories, Carlsbad, USA); Analysis: Shimadzu Biospec Nano microvolume spectrophotometer | Interface | |
| 5 | Nitrite reductase, nirK gene, relative abundance | nirK | Moncada, Chyrene | Extraction: Mobio DNA Isolation Kit (Mo Bio Laboratories, Carlsbad, USA); Analysis: Shimadzu Biospec Nano microvolume spectrophotometer | Sediment | |
| 6 | Nitrite reductase, nirK gene, relative abundance | nirK | Moncada, Chyrene | Extraction: Mobio DNA Isolation Kit (Mo Bio Laboratories, Carlsbad, USA); Analysis: Shimadzu Biospec Nano microvolume spectrophotometer | Porewater | |
| 7 | Ammonia monooxygenase, amoA gene, relative abundance | amoA | Moncada, Chyrene | Extraction: Mobio DNA Isolation Kit (Mo Bio Laboratories, Carlsbad, USA); Analysis: Shimadzu Biospec Nano microvolume spectrophotometer | Interface | |
| 8 | Ammonia monooxygenase, amoA gene, relative abundance | amoA | Moncada, Chyrene | Extraction: Mobio DNA Isolation Kit (Mo Bio Laboratories, Carlsbad, USA); Analysis: Shimadzu Biospec Nano microvolume spectrophotometer | Sediment | |
| 9 | Ammonia monooxygenase, amoA gene, relative abundance | amoA | Moncada, Chyrene | Extraction: Mobio DNA Isolation Kit (Mo Bio Laboratories, Carlsbad, USA); Analysis: Shimadzu Biospec Nano microvolume spectrophotometer | Porewater | |
| 10 | Dissimilatory sulfate reductase, dsrA gene, relative abundance | dsrA | Moncada, Chyrene | Extraction: Mobio DNA Isolation Kit (Mo Bio Laboratories, Carlsbad, USA); Analysis: Shimadzu Biospec Nano microvolume spectrophotometer | Interface | |
| 11 | Dissimilatory sulfate reductase, dsrA gene, relative abundance | dsrA | Moncada, Chyrene | Extraction: Mobio DNA Isolation Kit (Mo Bio Laboratories, Carlsbad, USA); Analysis: Shimadzu Biospec Nano microvolume spectrophotometer | Sediment | |
| 12 | Dissimilatory sulfate reductase, dsrA gene, relative abundance | dsrA | Moncada, Chyrene | Extraction: Mobio DNA Isolation Kit (Mo Bio Laboratories, Carlsbad, USA); Analysis: Shimadzu Biospec Nano microvolume spectrophotometer | Porewater | |
| 13 | Sulfur oxidizing multi-enzyme, gene soxB, relative abundance | soxB | Moncada, Chyrene | Extraction: Mobio DNA Isolation Kit (Mo Bio Laboratories, Carlsbad, USA); Analysis: Shimadzu Biospec Nano microvolume spectrophotometer | Interface | |
| 14 | Sulfur oxidizing multi-enzyme, gene soxB, relative abundance | soxB | Moncada, Chyrene | Extraction: Mobio DNA Isolation Kit (Mo Bio Laboratories, Carlsbad, USA); Analysis: Shimadzu Biospec Nano microvolume spectrophotometer | Sediment | |
| 15 | Sulfur oxidizing multi-enzyme, gene soxB, relative abundance | soxB | Moncada, Chyrene | Extraction: Mobio DNA Isolation Kit (Mo Bio Laboratories, Carlsbad, USA); Analysis: Shimadzu Biospec Nano microvolume spectrophotometer | Porewater |
License:
Creative Commons Attribution 4.0 International (CC-BY-4.0)
Size:
140 data points