Pajares, Silvia; Merino, Martin; Farías, Laura (2023): Abundance of N-cycling genes in an oxygen-deficient upwelling system during La Niña (2018) and El Niño (2019) [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.954155
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Published: 2023-01-13 • DOI registered: 2023-03-02
Abstract:
Seawater samples were collected with 10-L Niskin bottles in four stations along a cross-shore transect in front of the Port of Mazatlán (Mexico) during the oceanographic cruises Maz IV (April 2018) and Maz V (April 2019) on board the R/V "El Puma" (UNAM). Samples for molecular analyses (abundance of N-cycling genes) were collected at different depths based on the oxygen and chlorophyll-a profiles: surface (5 m depth); mixed layer, deep chlorophyll maximum (at 10–45 m depth); oxycline, base of the oxycline (at 60–125 m depth); upper OMZ (only for Maz V); OMZ core (at 250 m depth); and bottom (between 23 m depth in S1 and 670 m depth in S4). Water samples were filtered on board through polycarbonate membranes (0.22-μm pore, Merck Millipore). Genomic DNA was extracted with the DNeasy PowerWater Kit (Qiagen). The abundance of N-cycling genes was assessed using the gene copy number of bacterial and archaeal amoA, anammox bacterial 16S rRNA, nirK, nirS, and nrfA, using a StepOnePlus real-time PCR system (Applied Biosystems).
Keyword(s):
Supplement to:
Pajares, Silvia; Farías, Laura (2023): Prokaryotic community dynamics and nitrogen-cycling genes in an oxygen-deficient upwelling system during La Niña and El Niño conditions. Environmental Microbiology, 1462-2920.16362, https://doi.org/10.1111/1462-2920.16362
Related to:
Pajares, Silvia; Merino, Martin; Farías, Laura (2021): Raw 16S rRNA sequence data of a microbial community in the oxygen minimum zone of the Mexican Pacific [dataset]. European Nucleotide Archive (ENA), insdc:PRJNA780024
Pajares, Silvia; Merino, Martin; Farías, Laura (2023): Concentrations of total N, total P, and gases in an oxygen-deficient upwelling system during El Niño (2019) [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.954152
Pajares, Silvia; Merino, Martin; Farías, Laura (2023): Oceanographic variables and nutrient concentrations in an oxygen-deficient upwelling system during La Niña (2018) and El Niño (2019) [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.954151
Pajares, Silvia; Merino, Martin; Farías, Laura (2023): Prokaryotic community (mayor clades contributing >0.1% of the total 16S rRNA sequences) in an oxygen-deficient upwelling system during La Niña (2018) and El Niño (2019) [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.954089
Funding:
Consejo Nacional de Ciencia y Tecnología (CONACYT), grant/award no. CF-2019-2266: Ciencia de Frontera
National Agency for Research and Development (ANID), grant/award no. ICM2019-015: Millennium Science Initiative Program
Coverage:
Median Latitude: 23.064616 * Median Longitude: -106.584096 * South-bound Latitude: 23.000000 * West-bound Longitude: -106.702216 * North-bound Latitude: 23.154416 * East-bound Longitude: -106.427883
Date/Time Start: 2018-04-22T00:00:00 * Date/Time End: 2019-04-02T15:00:00
Minimum DEPTH, water: 5 m * Maximum DEPTH, water: 670 m
Event(s):
Maz_IV_S1 * Latitude: 23.154416 * Longitude: -106.427883 * Date/Time: 2018-04-22T02:00:00 * Elevation: -32.0 m * Location: Port of Mazatlán * Campaign: Maz_IV * Basis: El Puma * Method/Device: CTD, Sea-Bird, SBE 19plus
Maz_IV_S2 * Latitude: 23.078000 * Longitude: -106.555283 * Date/Time: 2018-04-22T00:00:00 * Elevation: -105.0 m * Location: Port of Mazatlán * Campaign: Maz_IV * Basis: El Puma * Method/Device: CTD, Sea-Bird, SBE 19plus
Maz_IV_S3 * Latitude: 23.018900 * Longitude: -106.662000 * Date/Time: 2018-04-22T15:00:00 * Elevation: -410.0 m * Location: Port of Mazatlán * Campaign: Maz_IV * Basis: El Puma * Method/Device: CTD, Sea-Bird, SBE 19plus
Parameter(s):
| # | Name | Short Name | Unit | Principal Investigator | Method/Device | Comment |
|---|---|---|---|---|---|---|
| 1 | Event label | Event | Pajares, Silvia | |||
| 2 | Longitude of event | Longitude | Pajares, Silvia | |||
| 3 | Latitude of event 2 | Latitude 2 | Pajares, Silvia | |||
| 4 | Date/Time of event | Date/Time | Pajares, Silvia | |||
| 5 | Elevation of event | Elevation | m | Pajares, Silvia | ||
| 6 | Campaign | Campaign | Pajares, Silvia | |||
| 7 | Station label | Station | Pajares, Silvia | |||
| 8 | Sample code/label | Sample label | Pajares, Silvia | |||
| 9 | Depth, description | Depth desc | Pajares, Silvia | |||
| 10 | DEPTH, water | Depth water | m | Pajares, Silvia | CTD, Sea-Bird, SBE 19plus | Geocode |
| 11 | Gene name | Gene | Pajares, Silvia | |||
| 12 | Gene copies per volume | GCN per vol | #/ml | Pajares, Silvia | Real-Time PCR, Applied Biosystems, StepOnePlus |
License:
Creative Commons Attribution-ShareAlike 4.0 International (CC-BY-SA-4.0)
Status:
Curation Level: Enhanced curation (CurationLevelC)
Size:
1620 data points