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  • European Marine Science

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  • Authors: Thielecke, Antonia; Meyer, Jana; Ludwig, Andrea; Schulz, Kai Georg;

    This data is part of the BMBF project CUSCO (Coastal Upwelling Systems in a Changing Ocean). Here we report the dissolved inorganic carbon concentration and total alkalinity during a 35-day experiment, where we enclosed natural plankton communities in in-situ mesocosms off Peru. The experiment investigated the interactive effects of light and upwelling on the Humboldt upwelling ecosystem by mimicking a gradient of upwelling intensities (0%, 15%, 30%, 45% and 60%) under summer-time high light and winter-time low light. Integrated seawater samples from a depth between 0 and 10m were collected using a 5L Integrating Water sampler (IWS; Hydro-Bios, Kiel). Dissolved inorganic carbon (DIC) and total alkalinity (TA) samples were obtained by 0.2µm gentle pressure filtration, poisoned with saturated 7.5 % mercury chloride (HgCl2) solution and frozen at -20°C until measurement. Samples for Total Alkalinity (TA) were measured by means of potentiometric titration with 0.05 M HCl using an automated titration device (862 Metrohm Compact Titrosampler). All DIC samples taken until day 17 were measured using an Automated Infra-Red Inorganic Carbon Analyzer (AIRICA) with a LICOR detector (LI-7000 CO2/H20 Analyzer, MARIANDA, Kiel). Certified reference material (Dickson standard for oceanic CO2 Measurements - CRM Batch 142 with salinity = 33.389 and DIC = 2038,07 µmol/kg) was measured and used to correct measured sample values. Additional DIC samples were measured using gas chromatography-mass spectrometry (GC-MS) to determine the 13C signal. The data of the GC-MS was adjusted to the AIRICA data using a linear transformation. Missing days were filled using an average of the day before and after. Mesocosm 10 describes the control sample from the PacificAs AIRICA data is more precise than GC-MS data, AIRICA data was used where availablelinear regression showed that GC-MS and AIRICA data linearly correlatefor days after T17 a linear conversion factor was applied to adjust GC-MS values: AIRICA=-1180+1.475*GCMS

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    Authors: Paul, Allanah Joy; Arístegui, Javier; Bach, Lennart Thomas; Hernández-Hernández, Nauzet; +3 Authors

    This data was collected during an short-term incubation experiment in March 2017 that investigated the response of a surface plankton community to upwelling. This experiment was carried in the framework of the SFB754-funded KOSMOS mesocosm study that took place in La Punta, Callao, Peru between February-April 2017. A total of six different treatments were used to disentangle chemical and biological characteristics of deep water that influence surface plankton blooms: 2 different deep water sources with different nutrient concentrations; 3 treatments to distinguish the effects of inorganic nutrients, organic nutrients and deep water microbial populations. Measured variables include inorganic nutrient concentrations, phytoplankton abundances, Chlorophyll a, cDOM, and rates of leucine aminopeptidase activity.

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    PANGAEA
    Dataset . 2022
    Data sources: B2FIND
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      PANGAEA
      Dataset . 2022
      Data sources: B2FIND
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    Authors: Bailey, Ian; Hemming, Sidney R; Reilly, Brendan T;

    Ar-Ar ages of 58 individual hornblendes and micas picked from a discrete iceberg-rafted layer deposited ~1.2 Ma at IODP U1538. The layer was recovered 310.79–310.82 meters below sea floor in Hole U1538A-36X-3W. All hornblende and mica (mostly biotite) were handpicked from the 250-μm to 1-mm size fraction, with additional mica picked from the 63–250-μm size fraction. Hornblende, biotite and standards were irradiated at the Cd-lined in-core facility (CLICIT) at the Oregon State reactor. 40Ar/39Ar ages were obtained using single-step CO2 laser fusion at the Lamont Doherty Earth Observatory argon geochronology lab (AGES: Argon Geochronology for the Earth Sciences) to release argon, followed by cleanup with Zr-Ar getters heated at 2-amps. Extracted and cleaned gases were measured on a VG5400 noble gas mass spectrometer in peak hopping mode on an analogue multiplier, using the program Massspec. Nuclear interference corrections used values for OSU from Renne et al. (1998), and data were also corrected for background and mass discrimination using measured blanks and air pipettes. J values used to calculate ages were based on co-irradiated Fish Canyon sanidine standard (28.201±0.046 Ma; Kuiper et al. (2008), with decay constants from Min et al. (2000)).

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    PANGAEA
    Dataset . 2022
    Data sources: B2FIND
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      PANGAEA
      Dataset . 2022
      Data sources: B2FIND
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    Authors: Zamanillo, Marina; Simó, Rafel;

    Dataset abstract TEP are operationally defined as gel particles that are retained on 0.4 ��m polycarbonate filters and stained with the cationic copper phthalocyanine dye Alcian Blue 8GX at pH 2.5. CSP are gel particles retained on 0.4 ��m polycarbonate filters that are stained with a solution of Coomassie Brilliant Blue G (CCB) at pH 7.4. Seawater surface samples (5 m) were collected every 6 hours from the ship���s underway pump. In addition, vertical profiles (6 depths, generally from 5 to 100-150 m) were sampled from 19 CTD casts using a SBE 911 Plus attached to a rosette of 24 12-L PVC Niskin bottles. This dataset presents TEP and CSP from seawater samples collected from the ship���s underway pump and CTDs. Samples were collected around the Southern Ocean on the R/V Akademik Tryoshnikov in the austral summer of 2016/2017, as part of the Antarctic Circumnavigation Expedition (ACE). Dataset contents ace_seawater_csp.csv, data file, comma-separated values ace_seawater_tep.csv, data file, comma-separated values data_file_header_csp.txt, metadata, text data_file_header_tep.txt, metadata, text README.txt, metadata, text Dataset license This TEP and CSP dataset from ACE is made available under the Creative Commons Attribution 4.0 International License (CC BY 4.0) whose full text can be found at https://creativecommons.org/licenses/by/4.0/ {"references": ["Passow, U., and Alldredge, A. L.: A dye-binding assay for the spectrophotometric measurement of transparent exopolymer particles (TEP), Limnology and Oceanography, 40, 1326-1335, 1995.", "Cisternas-Novoa, C., Lee, C., and Engel, A.: A semi-quantitative spectrophotometric, dye-binding assay for determination of Coomassie Blue stainable particles, Limnology and Oceanography: Methods, 12, 604-616, 10.4319/lom.2014.12.604, 2014."]} The Antarctic Circumnavigation Expedition was made possible by funding from the Swiss Polar Institute and Ferring Pharmaceuticals. MZ was supported by a FPU predoctoral fellowship (FPU13/04630) from the Spanish Ministry of Education and Culture.

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    ZENODO
    Dataset . 2021
    License: CC BY
    Data sources: Datacite
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    ZENODO
    Dataset . 2021
    License: CC BY
    Data sources: ZENODO
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      ZENODO
      Dataset . 2021
      License: CC BY
      Data sources: Datacite
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      ZENODO
      Dataset . 2021
      License: CC BY
      Data sources: ZENODO
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  • Authors: Menviel, Laurie;

    Hydrological changes during the penultimate deglaciation and Last interglacial as simulated in a transient experiment performed with LOVECLIM and focusing on North Africa A transient experiment of the penultimate deglaciation and Last interglacial (140-120 ka) is performed with LOVECLIM following the PMIP4 protocol (Menviel et al., 2019) https://gmd.copernicus.org/articles/12/3649/2019/

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    Authors: Zahajská, Petra; Shemesh, Aldo; Conley, Daniel J;

    ¹⁴C data and age-depth models based on ¹⁴C data from two cores sampled from Lake 850 in 1999 and 2019. Radiometric dates were calibrated with IntCal20 radiocarbon calibration dataset (Reimer et al. 2020). For age-depth models calculated using R package Bacon see doi:10.1594/PANGAEA.933325. Lake850-Core3-1999 data are from Shemesh et al., 2001.

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    PANGAEA
    Dataset . 2021
    Data sources: B2FIND
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      PANGAEA
      Dataset . 2021
      Data sources: B2FIND
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    Authors: Osterbye, Thomas; Nielsen, Morten; Dudek, Nadine L.; Ramarathinam, Sri H.; +3 Authors

    The ability to predict and/or identify MHC binding peptides is an essential component of T cell epitope discovery; something that ultimately should benefit the development of vaccines and immunotherapies. In particular, MHC class I (MHC-I) prediction tools have matured to a point where accurate selection of optimal peptide epitopes is possible for virtually all MHC-I allotypes; in comparison, current MHC class II (MHC-II) predictors are less mature. Since MHC-II restricted CD4+ T cells control and orchestrate most immune responses, this shortcoming severely hampers the development of effective immunotherapies. The ability to generate large panels of peptides and subsequently large bodies of peptide-MHC-II interaction data is key to the solution of this problem; a solution that also will support the improvement of bioinformatics predictors, which critically relies on the availability of large amounts of accurate, diverse and representative data. Here, we have used recombinant HLA-DRB1*01:01 and HLA-DRB1*03:01 molecules to interrogate high-density peptide arrays, in casu containing 70,000 random peptides in triplicates. We demonstrate that the binding data acquired contains systematic and interpretable information reflecting the specificity of the HLA-DR molecules investigated. Collectively, with a cost per peptide reduced to a few cents combined with the flexibility of recombinant HLA technology, this poses an attractive strategy to generate vast bodies of MHC-II binding data at an unprecedented speed and for the benefit of generating peptide-MHC-II binding data as well as improving MHC-II prediction tools. Binding of HLA-DRB1*01:01 and HLA-DRB1*03:01 to high density peptide arrays containing 63k random 13-mer peptides in triplicate. The binding data was used to train artificial neural networks (ANN) capable of predicting HLA-DR binding and specificity. HLA-DRB1*01:01 and HLA-DRB1*03:01 were re-folded with peptides synthesized on the peptide array and subsequently stained with mAb clone L243 and a anti-mouse-Cy3 before scanning with a laser scanner at one micron resolution. The obtained signals were used to train artifcial neural networks (ANNs) where the final network ensamble were able to predict the binding of unknown peptides to the respective HLAs.

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    ZENODO
    Dataset . 2020
    License: CC 0
    Data sources: ZENODO
    DRYAD
    Dataset . 2020
    License: CC 0
    Data sources: Datacite
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      ZENODO
      Dataset . 2020
      License: CC 0
      Data sources: ZENODO
      DRYAD
      Dataset . 2020
      License: CC 0
      Data sources: Datacite
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    Authors: Eldridge, David; Delgado-Baquerizo, Manuel; Quero, José Luis; Ochoa, Victoria; +29 Authors

    1. Multiple ecosystem functions need to be considered simultaneously to manage and protect the many ecosystem services that are essential to people and their environments. Despite this, cost effective, tangible, relatively simple, and globally-relevant methodologies to monitor in situ soil multifunctionality, i.e. the provision of multiple ecosystem functions by soils, have not been tested at the global scale. 2. We combined correlation analysis and structural equation modelling to explore whether we could find easily measured, field-based indicators of soil multifunctionality (measured using functions linked to the cycling and storage of soil carbon, nitrogen, and phosphorus). To do this, we gathered soil data from 120 dryland ecosystems from five continents. 3. Two soil surface attributes measured in situ (litter incorporation and surface aggregate stability) were the most strongly associated with soil multifunctionality, even after accounting for geographic location and other drivers such as climate, woody cover, soil pH and soil electric conductivity. The positive relationships between surface stability and litter incorporation on soil multifunctionality was greater beneath the canopy of perennial vegetation than in adjacent, open areas devoid of vascular plants. The positive associations between surface aggregate stability and soil functions increased with increasing mean annual temperature. 4. Synthesis and applications. Our findings demonstrate that a reduced suite of easily measured in situ soil surface attributes can be used as potential indicators of soil multifunctionality in drylands worldwide. These attributes, which relate to plant litter (origin, incorporation, cover), and surface stability, are relatively cheap and easy to assess with minimal training, allowing operators to sample many sites across widely varying climatic areas and soil types. The correlations of these variables are comparable to the influence of climate or soil, and would allow cost-effective monitoring of soil multifunctionality under changing land use and environmental conditions. This would provide important information for evaluating the ecological impacts of land degradation, desertification and climate change in drylands worldwide.

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    ZENODO
    Dataset . 2020
    License: CC 0
    Data sources: ZENODO
    DRYAD
    Dataset . 2020
    License: CC 0
    Data sources: Datacite
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      ZENODO
      Dataset . 2020
      License: CC 0
      Data sources: ZENODO
      DRYAD
      Dataset . 2020
      License: CC 0
      Data sources: Datacite
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    Authors: Anderson, Harris J; Pedro, Joel B; Bostock, Helen C; Chase, Zanna; +1 Authors
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    PANGAEA
    Dataset . 2020
    Data sources: B2FIND
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      PANGAEA
      Dataset . 2020
      Data sources: B2FIND
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    Authors: Hopwood, Mark J.; Sanchez, Nicolas; Polyviou, Despo; Leiknes, Øystein; +12 Authors

    The extracellular concentration of H2O2 in surface aquatic environments is controlled by a balance between photochemical production and the microbial synthesis of catalase and peroxidase enzymes to remove H2O2 from solution. In any kind of incubation experiment, the formation rates and equilibrium concentrations of reactive oxygen species (ROSs) such as H2O2 may be sensitive to both the experiment design, particularly to the regulation of incident light, and the abundance of different microbial groups, as both cellular H2O2 production and catalase–peroxidase enzyme production rates differ between species. Whilst there are extensive measurements of photochemical H2O2 formation rates and the distribution of H2O2 in the marine environment, it is poorly constrained how different microbial groups affect extracellular H2O2 concentrations, how comparable extracellular H2O2 concentrations within large-scale incubation experiments are to those observed in the surface-mixed layer, and to what extent a mismatch with environmentally relevant concentrations of ROS in incubations could influence biological processes differently to what would be observed in nature. Here we show that both experiment design and bacterial abundance consistently exert control on extracellular H2O2 concentrations across a range of incubation experiments in diverse marine environments. During four large-scale (>1000 L) mesocosm experiments (in Gran Canaria, the Mediterranean, Patagonia and Svalbard) most experimental factors appeared to exert only minor, or no, direct effect on H2O2 concentrations. For example, in three of four experiments where pH was manipulated to 0.4–0.5 below ambient pH, no significant change was evident in extracellular H2O2 concentrations relative to controls. An influence was sometimes inferred from zooplankton density, but not consistently between different incubation experiments, and no change in H2O2 was evident in controlled experiments using different densities of the copepod Calanus finmarchicus grazing on the diatom Skeletonema costatum (<1 % change in [H2O2] comparing copepod densities from 1 to 10 L−1). Instead, the changes in H2O2 concentration contrasting high- and low-zooplankton incubations appeared to arise from the resulting changes in bacterial activity. The correlation between bacterial abundance and extracellular H2O2 was stronger in some incubations than others (R2 range 0.09 to 0.55), yet high bacterial densities were consistently associated with low H2O2. Nonetheless, the main control on H2O2 concentrations during incubation experiments relative to those in ambient, unenclosed waters was the regulation of incident light. In an open (lidless) mesocosm experiment in Gran Canaria, H2O2 was persistently elevated (2–6-fold) above ambient concentrations; whereas using closed high-density polyethylene mesocosms in Crete, Svalbard and Patagonia H2O2 within incubations was always reduced (median 10 %–90 %) relative to ambient waters.

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  • Authors: Thielecke, Antonia; Meyer, Jana; Ludwig, Andrea; Schulz, Kai Georg;

    This data is part of the BMBF project CUSCO (Coastal Upwelling Systems in a Changing Ocean). Here we report the dissolved inorganic carbon concentration and total alkalinity during a 35-day experiment, where we enclosed natural plankton communities in in-situ mesocosms off Peru. The experiment investigated the interactive effects of light and upwelling on the Humboldt upwelling ecosystem by mimicking a gradient of upwelling intensities (0%, 15%, 30%, 45% and 60%) under summer-time high light and winter-time low light. Integrated seawater samples from a depth between 0 and 10m were collected using a 5L Integrating Water sampler (IWS; Hydro-Bios, Kiel). Dissolved inorganic carbon (DIC) and total alkalinity (TA) samples were obtained by 0.2µm gentle pressure filtration, poisoned with saturated 7.5 % mercury chloride (HgCl2) solution and frozen at -20°C until measurement. Samples for Total Alkalinity (TA) were measured by means of potentiometric titration with 0.05 M HCl using an automated titration device (862 Metrohm Compact Titrosampler). All DIC samples taken until day 17 were measured using an Automated Infra-Red Inorganic Carbon Analyzer (AIRICA) with a LICOR detector (LI-7000 CO2/H20 Analyzer, MARIANDA, Kiel). Certified reference material (Dickson standard for oceanic CO2 Measurements - CRM Batch 142 with salinity = 33.389 and DIC = 2038,07 µmol/kg) was measured and used to correct measured sample values. Additional DIC samples were measured using gas chromatography-mass spectrometry (GC-MS) to determine the 13C signal. The data of the GC-MS was adjusted to the AIRICA data using a linear transformation. Missing days were filled using an average of the day before and after. Mesocosm 10 describes the control sample from the PacificAs AIRICA data is more precise than GC-MS data, AIRICA data was used where availablelinear regression showed that GC-MS and AIRICA data linearly correlatefor days after T17 a linear conversion factor was applied to adjust GC-MS values: AIRICA=-1180+1.475*GCMS

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    Authors: Paul, Allanah Joy; Arístegui, Javier; Bach, Lennart Thomas; Hernández-Hernández, Nauzet; +3 Authors

    This data was collected during an short-term incubation experiment in March 2017 that investigated the response of a surface plankton community to upwelling. This experiment was carried in the framework of the SFB754-funded KOSMOS mesocosm study that took place in La Punta, Callao, Peru between February-April 2017. A total of six different treatments were used to disentangle chemical and biological characteristics of deep water that influence surface plankton blooms: 2 different deep water sources with different nutrient concentrations; 3 treatments to distinguish the effects of inorganic nutrients, organic nutrients and deep water microbial populations. Measured variables include inorganic nutrient concentrations, phytoplankton abundances, Chlorophyll a, cDOM, and rates of leucine aminopeptidase activity.

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    PANGAEA
    Dataset . 2022
    Data sources: B2FIND
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      PANGAEA
      Dataset . 2022
      Data sources: B2FIND
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    Authors: Bailey, Ian; Hemming, Sidney R; Reilly, Brendan T;

    Ar-Ar ages of 58 individual hornblendes and micas picked from a discrete iceberg-rafted layer deposited ~1.2 Ma at IODP U1538. The layer was recovered 310.79–310.82 meters below sea floor in Hole U1538A-36X-3W. All hornblende and mica (mostly biotite) were handpicked from the 250-μm to 1-mm size fraction, with additional mica picked from the 63–250-μm size fraction. Hornblende, biotite and standards were irradiated at the Cd-lined in-core facility (CLICIT) at the Oregon State reactor. 40Ar/39Ar ages were obtained using single-step CO2 laser fusion at the Lamont Doherty Earth Observatory argon geochronology lab (AGES: Argon Geochronology for the Earth Sciences) to release argon, followed by cleanup with Zr-Ar getters heated at 2-amps. Extracted and cleaned gases were measured on a VG5400 noble gas mass spectrometer in peak hopping mode on an analogue multiplier, using the program Massspec. Nuclear interference corrections used values for OSU from Renne et al. (1998), and data were also corrected for background and mass discrimination using measured blanks and air pipettes. J values used to calculate ages were based on co-irradiated Fish Canyon sanidine standard (28.201±0.046 Ma; Kuiper et al. (2008), with decay constants from Min et al. (2000)).

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    PANGAEA
    Dataset . 2022
    Data sources: B2FIND
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      PANGAEA
      Dataset . 2022
      Data sources: B2FIND
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