Molari, Massimiliano (2017): Sediment bacterial community in sandy sediment at CO2 natural vents in Basiluzzo (Panarea, Italy): sediment raw ARISA (Automated Ribosomal Intergenic Spacer Analysis) data [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.873500, In supplement to: Molari, Massimiliano; Guilini, Katja; Lott, Christian; Weber, Miriam; de Beer, Dirk; Meyer, Stefanie; Ramette, Alban; Wegener, Gunter; Wenzhöfer, Frank; Martin, Daniel; Cibic, Tamara; De Vittor, Cinzia; Vanreusel, Ann; Boetius, Antje (2018): CO2 leakage alters biogeochemical and ecological functions of submarine sands. Science Advances, 4(2), eaao2040, https://doi.org/10.1126/sciadv.aao2040
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Abstract:
Sediment bacterial community at natural CO2 vents as described applying molecular fingerprint technique Automated Ribosomal Intergenic Spacer Analysis (ARISA) on sandy sediment samples collected in 2011, 2012 and 2013 collected at Basiluzzo Islet (Panarea Island).
Automated ribosomal intergenic spacer analysis (ARISA) is a quantitative fingerprinting approach for estimating the abundance of Operation Taxonomic Units (OUT) in natural microbial communities. A detailed description of this molecular method is provided in Ramette (2009)*.
Briefly PCR-amplified fragments, obtained using primes that yield peaks in the range 100 to 1,000 bp, were separated via capillary electrophoresis and then raw profiles were checked for stable baselines and voltage, and peak sizes and absolute areas were determined by using GeneMapper software v 3.7 (Applied Biosystems) with minimum peak heights of 50 fluorescence units for all dyes. Here the GeneMapper output table is provided. In Molari et al. (XXXX) samples-by-binned-OUT tables was obtained by calculating relative fluorescence intensity (RFI), considering fragments above a threshold of 50 fluorescence units and between 100–1000 bp length, and applying a binning strategy with a bin size of 2 bp.
*Ramette, Alban (2009). Quantitative Community Fingerprinting Methods for Estimating the Abundance of Operational Taxonomic Units in Natural Microbial Communities. Applied and Environmental Microbiology, 75(8): 2495−2505.
Related to:
Meyer, Stefanie; Weber, Miriam; Guilini, Katja; Bigalke, Nikolaus; Wenzhöfer, Frank; de Beer, Dirk; Ramette, Alban; Lott, Christian; Vanreusel, Ann; Boetius, Antje (2012): Investigation of benthic communities at submarine CO2 vents off Panarea Island (Italy): cruise report ECO2-3 (2012). https://doi.org/10.3289/CR_ECO2_20580
Molari, Massimiliano; Meyer, Stefanie; Weber, Miriam; Guilini, Katja; Vielstädte, Lisa; Bigalke, Nikolaus; Schutting, Susanne; Howe, Christian; Kreuzburg, Matthias; Unger, Boris; Schneider, Matthias; Kuhfuss, Hanna; Eich, Andreas; Wenzhöfer, Frank; de Beer, Dirk; Ramette, Alban; Lott, Christian; Vanreusel, Ann; Boetius, Antje (2013): Effect of seabed CO2 emissions on shallow benthic microbiota (Panarea Island): cruise report ECO2-8 (2013). Max Planck Institute for Marine Microbiology, Bremen, Germany, 37 pp., https://doi.org/10.3289/CR_ECO2_23104
Weber, Miriam; Unger, Boris; Lott, Christian; Grünke, Stefanie; Wenzhöfer, Frank; Boetius, Antje (2011): Investigation of benthic communities at submarine CO2 vents off Panarea Island (Italy): cruise report ECO2-2 (2011). Hydra Institute for Marine Sciences, Elba, Italy, Max Planck Institute for Marine Microbiology, Bremen, Germany, 21 pp., https://doi.org/10.3289/CR_ECO2_20593
Project(s):
Funding:
Seventh Framework Programme (FP7), grant/award no. 265847: Sub-seabed CO2 Storage: Impact on Marine Ecosystems
Coverage:
Median Latitude: 38.663312 * Median Longitude: 15.118810 * South-bound Latitude: 38.662480 * West-bound Longitude: 15.118600 * North-bound Latitude: 38.663800 * East-bound Longitude: 15.119000
Date/Time Start: 2011-06-05T00:00:00 * Date/Time End: 2013-06-09T00:00:00
Minimum Elevation: -21.0 m * Maximum Elevation: -15.0 m
Event(s):
ECO2-2-FT-1 * Latitude: 38.662483 * Longitude: 15.118867 * Date/Time: 2011-06-05T00:00:00 * Elevation: -15.0 m * Location: Panarea * Campaign: ECO2-2 * Method/Device: Hand push corer (HSR) * Comment: red with gas; sediment directly at seep
ECO2-2-FT-2 * Latitude: 38.662483 * Longitude: 15.118867 * Date/Time: 2011-06-05T00:00:00 * Elevation: -15.0 m * Location: Panarea * Campaign: ECO2-2 * Method/Device: Hand push corer (HSR) * Comment: red with gas; sediment directly at seep
ECO2-2-FT-3 * Latitude: 38.662483 * Longitude: 15.118867 * Date/Time: 2011-06-05T00:00:00 * Elevation: -15.0 m * Location: Panarea * Campaign: ECO2-2 * Method/Device: Hand push corer (HSR) * Comment: red with gas; sediment directly at seep
Parameter(s):
| # | Name | Short Name | Unit | Principal Investigator | Method/Device | Comment |
|---|---|---|---|---|---|---|
| 1 | Event label | Event | Molari, Massimiliano | |||
| 2 | Date/Time of event | Date/Time | Molari, Massimiliano | |||
| 3 | Latitude of event | Latitude | Molari, Massimiliano | |||
| 4 | Longitude of event | Longitude | Molari, Massimiliano | |||
| 5 | Elevation of event | Elevation | m | Molari, Massimiliano | ||
| 6 | Sample code/label | Sample label | Molari, Massimiliano | PCR | ||
| 7 | Base pair size | Size b p | bp | Molari, Massimiliano | ||
| 8 | Peak area | Peak area | Molari, Massimiliano |
License:
Creative Commons Attribution 3.0 Unported (CC-BY-3.0)
Size:
1071480 data points
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