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Pajares, Silvia; Merino, Martin; Farias, 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

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Published: 2023-01-13 • DOI registered: 2023-03-02

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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 (16S rRNA sequences) were collected at different depths based on the oxygen and chlorophyll-a profiles: surface (5 m depth); deep chlorophyll maximum (at 10–45 m depth, except in the coastal station S1 of Maz V where a sample was collected at the mixed layer); base of the oxycline (at 60–125 m depth); OMZ core (only for Maz IV 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 V3–V4 region of the 16S rRNA gene was amplified using the index and adaptor-linked primers Bakt_341F and Bakt_805R, and then sequenced using a 2 × 300 bp paired-end Illumina Miseq system. Amplicon libraries were analyzed with the software QIIME 2.
Keyword(s):
El Nino Southern Oscillation; Mexican Pacific; nitrogen genes; oxygen minimum zone; prokaryotic community
Supplement to:
Pajares, Silvia; Farias, 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; Farias, 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; Farias, 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
Pajares, Silvia; Merino, Martin; Farias, 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; Farias, 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
Funding:
Agencia Nacional de Investigación y Desarrollo (ANID), grant/award no. ICM2019-015: Millennium Science Initiative Program
Consejo Nacional de Ciencia y Tecnología (CONACYT), grant/award no. CF-2019-2266: Ciencia de Frontera
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 Elevation: -690.0 m * Maximum Elevation: -32.0 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):
#NameShort NameUnitPrincipal InvestigatorMethod/DeviceComment
1Event labelEventPajares, Silvia
2Latitude of eventLatitudePajares, Silvia
3Longitude of eventLongitudePajares, Silvia
4Date/Time of eventDate/TimePajares, Silvia
5CladeCladePajares, Silvia
6Sample code/labelSample labelPajares, Silvia
7CampaignCampaignPajares, Silvia
8Station labelStationPajares, Silvia
9Depth, descriptionDepth descPajares, Silvia
10Sequence abundancesequence abund#Pajares, SilviaMiSeq sequencer (DNA sequencer)
License:
Creative Commons Attribution-ShareAlike 4.0 International (CC-BY-SA-4.0)
Status:
Curation Level: Enhanced curation (CurationLevelC)
Size:
11328 data points

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