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Time series of formation pore fluid pressure and temperature from IODP Hole 319-C0010A measured by GeniusPlug in 2013
No full textTime series of formation pore fluid pressure and temperature from IODP Hole 319-C0010A measured by GeniusPlug in 2014
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Lipid class composition of mesopelagic fish from the North Atlantic Ocean and the Western Mediterranean Sea
No full textMesopelagic fish collected during 3 field campaigns in 2020 were analysed for their lipid content. The sampling was conducted on 5 main locations; 2 stations in the Western Mediterranean Sea (September/October), 4 stations in the North Atlantic off the Iberian Peninsula (October), 4 stations in the Irminger Sea (July), 5 stations in the Iceland Basin (July) and 4 stations in the Northern Norwegian Sea (May). The fish were collected at distinct depth intervals, with different trawl types depending on the vessel. The database consists of 28 mesopelagic fish species belonging to 9 families and 5 genera. For each record, length and wet weight of the fish analysed is recorded with the wax ester (WE), triacylglycerol (TAG) and phospholipid (PL) values as % of total lipids (TL). Each data record is associated with information on the sampling location, geographic coordinates, month and year of sample collection, sampling gear and depth, taxonomic ranks (phylum, class, order, family), and number and replicates analysed. The lipids were extracted following Folch's extraction method (Folch et al. 1957), which was implemented on whole fish or a weighted sub-sample of a homogenized whole fish. Individual lipid classes were separated by Thin Layer Chromatography (TLC). A lipid sample was spotted onto silica-coated quartz rods, (chromarods; SES GmbH) and the lipid classes separated by development in two solvent systems: hexane/diethyl ether/acetic acid (60:17:0.2, by volume) followed by hexane/diethyl ether (96:4 vol/vol). The analysis was performed using an Iatroscan MK 5 TLC-FID analyser
Flow cytometry dataset from CTD casts showing the abundance of microorganisms (smaller than 20 µm) during the Arctic MOSAiC expedition
No full textThis dataset gives an overview of the abundance of microorganisms (smaller than 20 µm) enumerated using flow cytometry (FCM) during the Multidisciplinary drifting observatory for the study of Arctic Climate (MOSAiC) sampled from ship-based and on-ice CTD rosettes during leg 1, 2, 3, 4 and 5 (November 2019 – September 2020). Additional expedition and sampling details can be found in the ECO-overview paper (Fong et al., to be submitted to Elementa). We thank all persons involved in the expedition of the Research Vessel Polarstern during MOSAiC in 2019-2020 (AWI_PS122_00) as listed in Nixdorf et al. (2021).
Flow cytometry (FCM) is a fast, high-throughput method to enumerate the abundance of microorganism (smaller than 20 µm). FCM uses the hydrodynamic focusing of a laminar flow to separate and line up microscopic particles. When particles pass a laser beam, the generated light scattering can be used to estimate their cell size, obtain information about cell granularity and surface characteristics and determine fluorescence from inherent pigments or applied stains, such as DNA binding ones. Photosynthetic microorganisms have auto-fluorescent pigments, such as chlorophylls which in combination with the light scattering properties (cell size) or surface properties, can be used to group them into clusters of similar or identical organism types. Heterotrophic microorganisms, including archaea, bacteria and heterotrophic nanoflagellates, and virus do not have fluorescent pigments and require staining, for example using SYBR Green to stain Nucleic Acids (DNA/RNA) in order to distinguish these cells from other organic and inorganic particles in the sample.
Samples for flow cytometric analysis were taken in triplicates or quadruplicates of 1.8 mL of sample water and fixed with 36 μL 25 % glutaraldehyde (0.5 % final concentration) at 4 °C in the dark for approximately 2 hours, then flash frozen in liquid nitrogen and stored at -80 °C until analysis. The abundance of pico- and nano-sized phytoplankton and heterotrophic nanoflagellates (HNF) were determined using an Attune® NxT, Acoustic Focusing Cytometer (Invitrogen by Thermo Fisher Scientific) with a 20 mW 488 nm (blue) laser. Autotrophic pico-and nano-sized plankton were counted directly after thawing and the various groups discriminated based on their red fluorescence (BL3) vs. orange fluorescence (BL2), red fluorescence (BL3) vs. side scatter (SSC) and orange fluorescence (BL2) vs. side scatter (SSC). For HNF analysis, the samples were stained with SYBR Green I for 2 h in the dark and 1-2 mL were subsequently measured at a flow rate of 500 µl min-1 following the protocol of Zubkov et al. 2007. The abundance of virus and bacteria was determined using a FACS Calibur (Becton Dickinson) flow cytometer with a 15 mW 480 nm (blue) laser. Prior analysis of virus and bacteria, samples were first thawed, diluted x10 and x100 with 0.2 μm filtered TE buffer (Tris 10 mM, EDTA 1 mM, pH 8), stained with a green fluorescent nucleic acid dye (SYBR Green I ; Molecular Probes, Eugene, Oregon, USA) and then incubated for 10 min at 80°C in a water bath (Marie et al. 1999). Stained samples were counted at a flow rate of around 60 µL min-1 and different groups discriminated on a biparametric plot of green florescence (BL1) vs. side scatter (SSC). This allowed to distinguish virus particles of different sizes, and different bacterial groups including low nuclear acid (LNA) and high nuclear acid (HNA) bacteria. Names of size groups of photosynthetic and heterotrophic organisms are in accordance to "Standards and Best Practices For Reporting Flow Cytometry Observations: a technical manual (Version 1.1)" (Neeley et al., 2023). A short summary is listed here: RedPico = picophytoplankton (1-2 µm); RedNano = Nanophytoplankton (2-20µm), which includes subgroups RedNano_small (2-5 µm), RedNano_large (5-20 µm); OraPico = Nanophytoplankton with more orange fluorescence; OraNano = Cryptophytes; OraPicoProk = Synechococcus; HetNano = heterotrophic nanoflagellates; HetProk = bacteria (and when present archaea); HetLNA = low nucleic acid (LNA) containing bacteria; HetHNA = high nucleic acid (HNA) containing bacteria with the subgroups HetProk_medium = HNA-bacteria subgroup with less fluorescence signal, HetProk_large = HNA-bacteria subgroup with more fluorescence signal and HetProk_verylarge = HNA-bacteria subgroup with very strong fluorescence signal; Virus = virus-like particles, including size refined subgroups: LFV (low fluorescence virus or small virus); MFV (medium fluorescence virus or medium virus); HFV (high fluorescence virus or large virus) according to Larsen et al., 2008. Exemplary plots showing the gating strategies that were followed can be found in "Interoperable vocabulary for marine microbial flow cytometry" (Thyssen et al., 2022)
Energy density of deep pelagic fish and crustaceans sampled between 2002 and 2019 in temperate and tropical Atlantic
No full textThe dataset contains 361 records of energy density values measured on (eviscerated) whole bodies of meso- to bathypelagic fish (49 species), decapods (4 species) and euphausiids (1 species), collected in the Bay of Biscay (temperate Atlantic) and in the tropical Atlantic. Samples from the Bay of Biscay were collected in autumn from 2002 to 2019, during the EVHOE fishery survey ("Evaluation Halieutique de l'Ouest de l'Europe"; https://doi.org/10.18142/8) conducted each year by the "Institut Français de Recherche pour l'Exploitation de la Mer" (Ifremer) on R/V Thalassa. Samples from the tropical Atlantic were collected during the MAFIA Cruise (29HE20150403) carried out on the R/V Hespérides in April 2015 (López-Pérez et al. 2023). In both cases, energy density was measured directly by bomb calorimetry methods on dried homogenized samples, as described in detail in Spitz et al. (2010) and López-Pérez et al. (2023). Energy density values are presented as a function of both dry and wet mass, and the moisture percentage of samples is also given
Nilaoba12345/BOEM: Global Database for Naturally Occurring Radionuclides associated with offshore Oil and Gas Production
No full textThis study compiles a comprehensive dataset on the occurrence, distribution, and potential impacts of Technologically Enhanced Naturally Occurring Radionuclides (TENORMs) near offshore oil and gas platforms. It encompasses data derived from various environmental matrices, including activities (Bq/l) and exposure levels (Msv), with particular emphasis on petroleum products and waste, such as produced water, scales, and sludges. The dataset aims to contribute to a better understanding of the distribution of TENORMs in marine environments, as well as inform future radiological safety norms, contribute to the formulation of regulatory policies, and facilitate the design of mitigation strategies. The information, covering literature and datasets spanning five continents over the past 70 years, has been organized to enable intuitive inquiries, making it a useful resource for policymakers and academics
