Samples collected from the Monterey Bay Times Series from May 2014 to February 2016. These data include CTD, nutrient, chlorophyll a and phaeopigment concentration data (NCEI Accession 0278730)
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abstract: This dataset contains biological, chemical, optical, physical, and survey - biological data collected on R/V Fulmar, R/V Rachel Carson, and R/V Western Flyer during cruises 03416, 12015, 12514, 13115, 15515, 17014, 18815, 19114, 21515, 22414, 23715, 26515, 28014, 29915, 30214, 32315, 32414, and 34915 in the North Pacific Ocean from 2014-05-05 to 2016-02-03. These data include Ammonium, Nitrate, Nitrite, Nitrogen, Silicate, abundance, chlorophyll a, density, dissolved Oxygen, fluorescence, reactive phosphorus (PO4), salinity calculated from CTD primary sensors, total phaeopigment, and water pressure. The instruments used to collect these data include CTD Sea-Bird. These data were collected by Dr Francisco Chavez of Monterey Bay Aquarium Research Institute and Dr Christopher Francis of Stanford University as part of the "Differential contributions of archaeal ammonia oxidizer ecotypes in relation to their changing environment (Contributions of AOA Ecotypes)" project. The Biological and Chemical Oceanography Data Management Office (BCO-DMO) submitted these data to NCEI on 2020-02-05. The following is the text of the dataset description provided by BCO-DMO: Dataset Description: Samples collected from the Monterey Bay Time Series from May 2014 to February 2016. These data include CTD, nutrient, chlorophyll a and phaeopigment concentration data. These data were published in Tolar et al., submitted (Table S1)
purpose: This dataset is available to the public for a wide variety of uses including scientific research and analysis.
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supplementalInformation: Acquisition Description: The water column in Monterey Bay (coastal California, USA) was sampled near-monthly from May 2014-February 2016 at stations M1 (36.747 ºN, 122.022 ºW) and M2 (36.697 ºN, 122.378 ºW), on board the RV Western Flyer or RV Rachel Carson using a CTD Rosette sampler (Sea-Bird Scientific, Bellevue, WA). For each hydrocast, the CTD collected data on conductivity, temperature, depth, dissolved oxygen (DO), total CO 2 , and transmissivity (turbidity). Additional samples were collected from 11-12 depths from the cast (0, 5, 10, 20, 30, 40, 60, 80, 100, 150, 200 m; 500 m included for 2015-2016) to measure nutrients (ammonia, nitrite, nitrate, silicate, phosphate), chlorophyll a and phaeopigment concentrations. These were processed using established methods as part of the Monterey Bay Time Series ( ; Pennington and Chavez 2000). Light penetration depth (LPD; 0.1-50 % of surface light) was estimated by secchi disk. Approximately 1 L sample seawater was filtered using a peristaltic pump onto duplicate filters – 10 µm polycarbonate (PCTE, Sterlitech; pre-filter), 0.2 µm GVWP (Millipore; final filter) – for molecular analysis from 6-10 depths per site per month (0-500 m depth). Samples were immediately frozen on liquid N 2 and stored at -80°C upon return to laboratory until processing. DNA was co-extracted with RNA using previously described methods (Smith et al. 2014a), with slight modification – both 0.1 and 0.5 mm sterile glass beads (BioSpec) were used for bead beating on the FastPrep (Thermo) and fresh -mercaptoethanol was added to Lysis/Binding buffer (10 µL per mL) immediately before extraction. Concentration of DNA was measured using a Qubit fluorometer (Invitrogen). Gene abundance was determined using published methods for total archaeal amoA (Francis et al. 2005), water column group A (WCA) and water column group B (WCB) amoA (Beman et al. 2008); modified to TaqMan assay, (Mosier and Francis 2011), and two archaeal nirK groups (AnirKa and AnirKb; Lund et al. 2012). Water samples were collected from 6-10 depths for nitrification rate measurements using 15 NH 4 Cl as a tracer. Sample seawater was spiked with 15 NH 4 Cl, and placed in ship-board seawater flow-through incubators for 24 h. Incubations were carried out in the dark or at estimated in situ light using stainless steel tubes with pre-drilled evenly spaced and sized holes (Pennington and Chavez 2000; Smith et al. 2014). At the end of incubations, samples were filtered (0.2 µm) and frozen at -20 ºC. δ 15 N values were measured from NO x in each sample, converted to N 2 O via the bacterial denitrification assay (Sigman et al. 2001) using a ThermoFinnigan Gas Bench and PreCon trace gas concentration system interfaced with the Delta V PLUS isotope-ratio mass spectrometer (Bremen, Germany) at the UC Davis Stable Isotope Facility.
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