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194 Research products, page 1 of 20

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  • Open Access English
    Authors: 
    Vries, Joost; Monteiro, Fanny; Wheeler, Glen; Poulton, Alex; Godrijan, Jelena; Cerino, Federica; Malinverno, Elisa; Langer, Gerald; Brownlee, Colin;
    Project: EC | MEDSEA (265103), UKRI | NSFGEO-NERC An unexpected... (NE/N011708/1), MZOS | Mechanism of long-term ch... (098-0982705-2731), EC | SEACELLS (670390), UKRI | GW4+ - a consortium of ex... (NE/L002434/1)

    Coccolithophores are globally important marine calcifying phytoplankton that utilize a haplo-diplontic life cycle. The haplo-diplontic life cycle allows coccolithophores to divide in both life cycle phases and potentially expands coccolithophore niche volume. Research has, however, to date largely overlooked the life cycle of coccolithophores and has instead focused on the diploid life cycle phase of coccolithophores. Through the synthesis and analysis of global scanning electron microscopy (SEM) coccolithophore abundance data (n=2534), we find that calcified haploid coccolithophores generally constitute a minor component of the total coccolithophore abundance (≈ 2 %–15 % depending on season). However, using case studies in the Atlantic Ocean and Mediterranean Sea, we show that, depending on environmental conditions, calcifying haploid coccolithophores can be significant contributors to the coccolithophore standing stock (up to ≈30 %). Furthermore, using hypervolumes to quantify the niche of coccolithophores, we illustrate that the haploid and diploid life cycle phases inhabit contrasting niches and that on average this allows coccolithophores to expand their niche by ≈18.8 %, with a range of 3 %–76 % for individual species. Our results highlight that future coccolithophore research should consider both life cycle stages, as omission of the haploid life cycle phase in current research limits our understanding of coccolithophore ecology. Our results furthermore suggest a different response to nutrient limitation and stratification, which may be of relevance for further climate scenarios. Our compilation highlights the spatial and temporal sparsity of SEM measurements and the need for new molecular techniques to identify uncalcified haploid coccolithophores. Our work also emphasizes the need for further work on the carbonate chemistry niche of the coccolithophore life cycle.

  • Restricted English
    Authors: 
    De Faveri F.; Mangiacrapa F.; Gioia A.;
    Country: Italy
    Project: EC | AGINFRA PLUS (731001), EC | Blue Cloud (862409), EC | D4SCIENCE-II (239019), EC | IMARINE (283644), EC | BlueBRIDGE (675680)

    The gCube Workspace environment represents a collaborative area in which users can save, exchange, share, create public links and organize information objects (files) according to their specific needs. Because of this, every user of any Virtual Research Environment in the D4Science Infrastructure is provided with this area.

  • Other research product . Other ORP type . 2021
    English
    Authors: 
    Corgnati; L.;
    Country: Italy
    Project: EC | SeaDataCloud (730960)

    The applications are designed for High Frequency Radar (HFR) data management according to the European HFR node processing workflow, thus generating aggregated radial and total velocity files in netCDF format according to the European standard data and metadata model for near real time HFR current data. These applications implement the periodic temporal aggregation of the datasets and the related CDI metadata to be distributed via SeaDataCloud. These applications are designed for the centralized run at the EU HFR Node.

  • Restricted English
    Authors: 
    Mangiacrapa F.; Perciante C.;
    Country: Italy
    Project: EC | AGINFRA PLUS (731001), EC | Blue Cloud (862409), EC | BlueBRIDGE (675680)

    The gCube Data Catalogue is a software component that provides facilities for: a) (meta)data publishing; b) vres' products publishing; c) making data products publicly available; d) enriching products of metadata to maximise their potential reuse and making them searchable (via title, tags etc) are based on the CKAN technology. The gcube-ckan-datacatalog Web Application allows to (a) show all the metadata available in the CKAN instance, as well as publish a new product, retrieve the list of organizations (i.e. Virtual Research Environments) to which the user belongs and his/her already published products.

  • Other research product . Other ORP type . 2020
    English
    Authors: 
    Penna, Pierluigi; Belardinelli, Andrea; Croci, Camilla Sofia; Domenichetti, Filippo; Martinelli, Michela;
    Country: Italy
    Project: EC | JERICO-NEXT (654410), EC | JERICO (262584), EC | NEXOS (614102)

    From 2003 to 2013, the Ancona section of CNR-IRBIM (formerly part of CNR-Institute of Marine Science) runned the “Fishery Observing System” (FOS) program aimed at using Italian fishing vessels as Vessels Of Opportunity (VOOs) for the collection of scientifically useful datasets (Falco et al. 2007). Some commercial fishing vessels, targetting small pelagic species in the northern and central Adriatic Sea, were equipped with an integrated system for the collection of information on catches, position of the fishing operation, depth and water temperature during the haul, producing a great amount of data that demonstrated to be helpful both for oceanographic and fishery biology purposes (Carpi et al. 2015; Aydoğdu et a. 2016; Sparnocchia et al. 2016; Lucchetti et al. 2018). In 2012, thanks to the participation to some national and international projects (e.g. SSD-Pesca, EU-FP7 JERICO etc.), CNR started the development of a new modular “Fishery & Oceanography Observing System” (FOOS; Patti et al. 2013). New sensors for oceanographic and meteorological data allow nowadays the FOOS to collect more parameters, with higher accuracy and to send them directly to a data center in near real time (Martinelli et al. 2016; Sparnocchia et al. 2017). Furthermore, the FOOS is a multifunction system able to collect various kind of data from the fishing operations and also to send back to the fishermen useful information (e.g. weather and sea forecasts, etc.) through an electronic logbook with an ad hoc software embedded. The new FOOS installed on various kind of fishing vessels targetting different resources, allowed a spatial extension of the monitored areas in the Mediterranean Sea (Patti et al. 2013). CNR-IRBIM implemented the “AdriFOOS” observational system, by installing the FOOS on some commercial fishing boats operating in the Adriatic Sea. Since then the datacenter based in Ancona receives daily data sets of environmental parameters collected along the water column and close to the sea bottom (eg. temperature, salinity, etc.), together with GPS haul tracks, catch amounts per haul, target species sizes and weather information. Some temperature and salinity measurements acquired by the FOOS in the Adriatic Sea from January 2014 to March 2015 were published within the JERICO project and some oxygen and fluorescence profiles obtained in 2017 within the NEXOS project. The dataset here presented contains 14803 depth/temperature profiles collected by 10 vessels of the AdriFOOS fleet in the period 2012-2020. All the profiles were subjected to quality control.Data are flagged according the L20 (SEADATANET MEASURAND QUALIFIER FLAGS).

  • Open Access English
    Authors: 
    Maffezzoli, Niccolò; Vallelonga, Paul; Edwards, Ross; Saiz-Lopez, Alfonso; Turetta, Clara; Kjær, Helle Astrid; Barbante, Carlo; Vinther, Bo; Spolaor, Andrea;
    Project: EC | CLIMAHAL (726349), EC | ICE2ICE (610055)

    Although it has been demonstrated that the speed and magnitude of the recent Arctic sea ice decline is unprecedented for the past 1450 years, few records are available to provide a paleoclimate context for Arctic sea ice extent. Bromine enrichment in ice cores has been suggested to indicate the extent of newly formed sea ice areas. Despite the similarities among sea ice indicators and ice core bromine enrichment records, uncertainties still exist regarding the quantitative linkages between bromine reactive chemistry and the first-year sea ice surfaces. Here we present a 120 000-year record of bromine enrichment from the RECAP (REnland ice CAP) ice core, coastal east Greenland, and interpret it as a record of first-year sea ice. We compare it to existing sea ice records from marine cores and tentatively reconstruct past sea ice conditions in the North Atlantic as far north as the Fram Strait (50–85∘ N). Our interpretation implies that during the last deglaciation, the transition from multi-year to first-year sea ice started at ∼17.5 ka, synchronously with sea ice reductions observed in the eastern Nordic Seas and with the increase in North Atlantic ocean temperature. First-year sea ice reached its maximum at 12.4–11.8 ka during the Younger Dryas, after which open-water conditions started to dominate, consistent with sea ice records from the eastern Nordic Seas and the North Icelandic shelf. Our results show that over the last 120 000 years, multi-year sea ice extent was greatest during Marine Isotope Stage (MIS) 2 and possibly during MIS 4, with more extended first-year sea ice during MIS 3 and MIS 5. Sea ice extent during the Holocene (MIS 1) has been less than at any time in the last 120 000 years.

  • Open Access English
    Authors: 
    Paradis, Sarah; Pusceddu, Antonio; Masqué, Pere; Puig, Pere; Moccia, Davide; Russo, Tommaso; Iacono, Claudio;
    Project: EC | EUROFLEETS2 (312762)

    Bottom trawling in the deep sea is one of the main drivers of sediment resuspension, eroding the seafloor and altering the content and composition of sedimentary organic matter (OM). The physical and biogeochemical impacts of bottom trawling were studied on the continental slope of the Gulf of Castellammare, Sicily (southwestern Mediterranean), through the analysis of two triplicate sediment cores collected at trawled and untrawled sites (∼550 m water depth) during the summer of 2016. Geochemical and sedimentological parameters (excess 210Pb, excess 234Th, 137Cs, dry bulk density, and grain size), elemental (organic carbon and nitrogen) and biochemical composition of sedimentary OM (proteins, carbohydrates, lipids), as well as its freshness (phytopigments) and degradation rates were determined in both coring locations. The untrawled site had a sedimentation rate of 0.15 cm yr−1 and presented a 6 cm thick surface mixed layer that contained siltier sediment with low excess 210Pb concentrations, possibly resulting from the resuspension, posterior advection, and eventual deposition of coarser and older sediment from adjacent trawling grounds. In contrast, the trawled site was eroded and presented compacted century-old sediment highly depleted in OM components, which were between 20 % and 60 % lower than those in the untrawled site. However, the upper 2 cm of the trawled site consisted of recently accumulated sediments enriched in excess 234Th, excess 210Pb, and phytopigments, while OM contents were similar to those from the untrawled core. This fresh sediment supported protein turnover rates of 0.025 d−1, which doubled those quantified in surface sediments of the untrawled site. The enhancement of remineralization rates in surface sediment of the trawled site was associated with the arrival of fresh particles on a chronically trawled deep-sea region that is generally deprived of OM. We conclude that the detrimental effects of bottom trawling can be temporarily and partially abated by the arrival of fresh and nutritionally rich OM, which stimulate the response of benthic communities. However, these ephemeral deposits are likely to be swiftly eroded due to the high trawling frequency over fishing grounds, highlighting the importance of establishing science-based management strategies to mitigate the impacts of bottom trawling.

  • Open Access English
    Authors: 
    Vilibić, Ivica; Mihanović, Hrvoje; Janeković, Ivica; Denamiel, Cléa; Poulain, Pierre-Marie; Orlić, Mirko; Dunić, Natalija; Dadić, Vlado; Pasarić, Mira; Muslim, Stipe; +8 more
    Project: EC | EUROFLEETS2 (312762)

    The paper investigates the wintertime dynamics of the coastal northeastern Adriatic Sea and is based on numerical modelling and in situ data collected through field campaigns executed during the winter and spring of 2015. The data were collected with a variety of instruments and platforms (acoustic Doppler current profilers, conductivity–temperature–depth probes, glider, profiling float) and are accompanied by the atmosphere–ocean ALADIN/ROMS modelling system. The research focused on the dense-water formation (DWF), thermal changes, circulation, and water exchange between the coastal and open Adriatic. According to both observations and modelling results, dense waters are formed in the northeastern coastal Adriatic during cold bora outbreaks. However, the dense water formed in this coastal region has lower densities than the dense water formed in the open Adriatic due to lower salinities. Since the coastal area is deeper than the open Adriatic, the observations indicate (i) balanced inward–outward exchange at the deep connecting channels of denser waters coming from the open Adriatic DWF site and less-dense waters coming from the coastal region and (ii) outward flow of less-dense waters dominating in the intermediate and surface layers. The latter phenomenon was confirmed by the model, even if it significantly underestimates the currents and transports in the connecting channels. The median residence time of the coastal area is estimated to be approximately 20 days, indicating that the coastal area may be renewed relatively quickly by the open Adriatic waters. The data that were obtained represent a comprehensive marine dataset that can be used to calibrate atmospheric and oceanic numerical models and point to several interesting phenomena to be investigated in the future.

  • Open Access

    The gCube System - Information System Bom -------------------------------------------------- Used to declare version used from different projects This software is part of the gCube Framework (https://www.gcube-system.org/): an open-source software toolkit used for building and operating Hybrid Data Infrastructures enabling the dynamic deployment of Virtual Research Environments by favouring the realisation of reuse oriented policies. The projects leading to this software have received funding from a series of European Union programmes including: * the Sixth Framework Programme for Research and Technological Development - DILIGENT (grant no. 004260); * the Seventh Framework Programme for research, technological development and demonstration - D4Science (grant no. 212488), D4Science-II (grant no. 239019),ENVRI (grant no. 283465), EUBrazilOpenBio (grant no. 288754), iMarine (grant no. 283644); * the H2020 research and innovation programme - BlueBRIDGE (grant no. 675680), EGIEngage (grant no. 654142), ENVRIplus (grant no. 654182), Parthenos (grant no. 654119), SoBigData (grant no. 654024); Version -------------------------------------------------- 1.2.0-4.5.0-148764 (2017-06-11) Please see the file named "changelog.xml" in this directory for the release notes. Authors -------------------------------------------------- * Luca Frosini (luca.frosini-AT-isti.cnr.it), Istituto di Scienza e Tecnologie dell'Informazione "A. Faedo" - CNR, Pisa (Italy). Maintainers ----------- * Luca Frosini (luca.frosini-AT-isti.cnr.it), Istituto di Scienza e Tecnologie dell'Informazione "A. Faedo" - CNR, Pisa (Italy). Download information -------------------------------------------------- Source code is available from SVN: https://svn.research-infrastructures.eu/public/d4science/gcube/trunk/information-system/information-system-bom Binaries can be downloaded from the gCube website: https://www.gcube-system.org/ Installation -------------------------------------------------- Installation documentation is available on-line in the gCube Wiki: https://wiki.gcube-system.org/gcube/index.php/InformationSystem Documentation -------------------------------------------------- Documentation is available on-line in the gCube Wiki: https://wiki.gcube-system.org/gcube/index.php/InformationSystem Support -------------------------------------------------- Bugs and support requests can be reported in the gCube issue tracking tool: https://support.d4science.org/projects/gcube/ Licensing -------------------------------------------------- This software is licensed under the terms you may find in the file named "LICENSE" in this directory.

  • Research software . 2019
    Open Access
    Authors: 
    Fabio Sinibaldi;
    Publisher: Zenodo
    Country: Italy
    Project: EC | ENVRI (283465), EC | AGINFRA PLUS (731001), EC | D4SCIENCE-II (239019), EC | D4SCIENCE (212488), EC | SoBigData (654024), EC | EGI-Engage (654142), EC | IMARINE (283644), EC | EUBRAZILOPENBIO (288754), EC | PARTHENOS (654119), EC | ENVRI PLUS (654182),...

    The gCube System - ws-thredds -------------------------------------------------- prototype of WS integration with data-transfer for Thredds pubblication This software is part of the gCube Framework (https://www.gcube-system.org/): an open-source software toolkit used for building and operating Hybrid Data Infrastructures enabling the dynamic deployment of Virtual Research Environments by favouring the realisation of reuse oriented policies. The projects leading to this software have received funding from a series of European Union programmes including: * the Sixth Framework Programme for Research and Technological Development - DILIGENT (grant no. 004260); * the Seventh Framework Programme for research, technological development and demonstration - D4Science (grant no. 212488), D4Science-II (grant no. 239019),ENVRI (grant no. 283465), EUBrazilOpenBio (grant no. 288754), iMarine (grant no. 283644); * the H2020 research and innovation programme - BlueBRIDGE (grant no. 675680), EGIEngage (grant no. 654142), ENVRIplus (grant no. 654182), Parthenos (grant no. 654119), SoBigData (grant no. 654024); Version -------------------------------------------------- 0.0.2-4.8.0-158727 (2017-12-01) Please see the file named "changelog.xml" in this directory for the release notes. Authors -------------------------------------------------- * Fabio Sinibaldi (fabio.sinibaldi-AT-isti.cnr.it) Istituto di Scienza e Tecnologie dell'Informazione "A. Faedo" - CNR, Pisa (Italy). Maintainers ----------- * Fabio Sinibaldi (fabio.sinibaldi-AT-isti.cnr.it) Istituto di Scienza e Tecnologie dell'Informazione "A. Faedo" - CNR, Pisa (Italy). Download information -------------------------------------------------- Source code is available from SVN: http://svn.research-infrastructures.eu/d4science/gcube/trunk/portlets/user/ws-thredds/ws-thredds Binaries can be downloaded from the gCube website: https://www.gcube-system.org/ Installation -------------------------------------------------- Installation documentation is available on-line in the gCube Wiki: https://wiki.gcube-system.org/gcube/index.php/Tabular_Data_Manager Documentation -------------------------------------------------- Documentation is available on-line in the gCube Wiki: https://wiki.gcube-system.org/gcube/index.php/Tabular_Data_Manager https://wiki.gcube-system.org/gcube/index.php/Tabular_Data_Manager Support -------------------------------------------------- Bugs and support requests can be reported in the gCube issue tracking tool: https://support.d4science.org/projects/gcube/ Licensing -------------------------------------------------- This software is licensed under the terms you may find in the file named "LICENSE" in this directory.